diff --git a/.gitignore b/.gitignore index 338adbb..69d4e41 100644 --- a/.gitignore +++ b/.gitignore @@ -1,13 +1,33 @@ * -analysis -analysis/* -!analysis/README.md -!config -!config/* -!resources -!resources/** -!workflow -!workflow/** + +!resources/ +!resources/genome/ +!resources/genome/** + +!resources/annotations/ +!resources/annotations/** + +!resources/blacklists/ +!resources/blacklists/** + +!resources/protein_atlas/ +!resources/protein_atlas/** + +!workflow/ +!workflow/envs/ +!workflow/envs/** + +!workflow/schemas/ +!workflow/schemas/** + +!workflow/scripts/ +!workflow/scripts/** + +!config/example.config.yml +!config/samples.tsv +!config/regions.tsv + + !.gitignore !.gitattributes !.editorconfig diff --git a/CHANGELOG.md b/CHANGELOG.md index 32e21c4..6929282 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -2,6 +2,36 @@ ## develop +### refactor + +- changed config.yml to example.config.yml +- updated schemas +- updated Documentation + +### new files + +- updated blacklists for both genome builds +- updated genome files for both genome builds + +### new feature + +- snakefile_GE_analysis: + - updated ProteinAtlas + - 3 types: Blood, Tissue, Tissue+cell-lines + - added support for GRCh38 + +- snakefile_WPS: + - added support for normalization by random background sequences + - generate random background sequences not overlapping target regions + - calculate WPS,COV,STARTS table for background sequences + +- extractFromBAM_RegionBed_WPS_Cov.py + - added output for fragment endpoints (STARTS output) + - added strand specificity + +- overlays.py: + - integrated normalization by background sequences + ## v0.1.2 ### refactor @@ -16,4 +46,4 @@ - updated README.md in root dir - updated input sections for workflows documentation - - added links to .tsv files and README.md in config dir + - added links to .tsv files and README.md in config dir \ No newline at end of file diff --git a/README.md b/README.md index 9a15f71..6c1fa64 100644 --- a/README.md +++ b/README.md @@ -135,10 +135,12 @@ Windowed protection scores are calculated for all provided regions with addition #### Input - - configured by the user ([samples.tsv](config/samples.tsv)): + - analysis ID - samples - - path to sample bam files + - path to sample .bam files + - reference samples fro plotting + - genome build per sample - configured by the user ([regions.tsv](config/regions.tsv)): - bed file containing regions of interest (e.g. TFBS), all having the same length @@ -172,10 +174,15 @@ WPS was used to calculate periodograms of genomic regions using Fast Fourier Tra - included in the repository: - annotations - labels - - RNAtable from Protein Atlas + - RNAtable from Protein Atlas + - blood atlas ["Blood"] + - protein atlas tissues ["Tissue"] + - protein atlas tissues + cell lines ["Extended"] - configured by the user ([samples.tsv](config/samples.tsv)): + - analysis ID - samples - path to sample bam files + - genome build per sample **Note:** More information about config files [here](config/README.md) @@ -184,4 +191,4 @@ WPS was used to calculate periodograms of genomic regions using Fast Fourier Tra - fft_summary tables (results/intermediate/body/fft_summaries) - plots showing intensities across tissues (results/plots) - table showing correlation with tissues/cell lines -- table showing correlation rank difference to reference sample +- table showing correlation rank difference to reference sample \ No newline at end of file diff --git a/config/README.md b/config/README.md index ed5e900..567e4ab 100644 --- a/config/README.md +++ b/config/README.md @@ -8,11 +8,26 @@ The config.yml file configures values that should stay constant between samples. samples: "config/samples.tsv" # .tsv file containing sample names and locations regions: "config/regions.tsv" # .tsv file containing bed files with regions of interest -tissue: ["CACO.2", "MCF7", "PC.3"] # proteinAtlas tissues for generating plots in GE workflow -refSample: "NPH001" # reference sample for rank correlation comparison +proteinAtlas: "Blood" #RNAtable name +tissue: ["NK_cell", "memory_B_cell", "classical_monocyte", "basophil", "memory_CD4_T_cell", "memory_CD8_T_cell"] # tissues for generating plots +refSample: "BH01" # reference sample for rank correlation comparison minRL: 120 # minimum read length for calculating WPS maxRL: 180 # maximum read length for calculating WPS -bpProtection: 120 # value for WPS window +bpProtection: 120 + +## genome build specific options ## + +GRCh37: + genome: "resources/genome/hg19.fa.genome" #full .genome file + genome_autosomes: "resources/genome/hg19.fa.genome.regular_autosomes" # .genome file reduced to regular autosomes + UCSC_gap: "resources/blacklists/UCSC/UCSC_gap.hg19.bed" # UCSC_gap file in .bed format + transcriptAnno: "resources/annotations/transcriptAnno-GRCh37.103.tsv.gz" # file containing TSSs + +GRCh38: + genome: "resources/genome/hg38.fa.genome" #full .genome file + genome_autosomes: "resources/genome/hg38.fa.genome.regular_autosomes" #.genome file reduced to regular autosome + UCSC_gap: "resources/blacklists/UCSC/UCSC_gap.hg38.bed" # UCSC_gap file in .bed format + transcriptAnno: "resources/annotations/transcriptAnno-GRCh38.103.tsv.gz" # file containing TSSs ``` ## samples.tsv @@ -20,16 +35,19 @@ bpProtection: 120 # value for WPS window The samples.tsv contains a header with four columns: ```bash -ID sample path ref_samples -experimentID testsample1 "/path/to/testsample1.bam" testsample2,testsample3 -experimentID testsample2 "/path/to/testsample2.bam" testsample1,testsample3 -experimentID testsample3 "/path/to/testsample3.bam" testsample1,testsample2 +ID sample path ref_samples genome_build +experimentID testsample1 "/path/to/testsample1.bam" testsample2,testsample3 GRCh37 +experimentID testsample2 "/path/to/testsample2.bam" testsample1,testsample3 GRCh37 +experimentID testsample3 "/path/to/testsample3.bam" testsample1,testsample2 GRCh38 ``` - **ID** - ID for a certain analysis to create identifiable directories and/or filenames - **sample** - sample name used to identify files - **path** - path to input file - **ref_sample** - Reference sample for some visualizations/calculations. ref_samples are comma separated, must be in present in the sample column and every sample needs a ref_sample (e.g. itself). +- **genome_build** - Defines the genome build to be used for a specific sample. Valid options are ["GRCh37","GRCh38"]. + +**Note:** Input files should match the specified genome build. ## regions.tsv diff --git a/config/config.yml b/config/config.yml deleted file mode 100644 index 9bdd455..0000000 --- a/config/config.yml +++ /dev/null @@ -1,8 +0,0 @@ -samples: "config/samples.tsv" # .tsv file containing sample names and locations -regions: "config/regions.tsv" # .tsv file containing bed files with regions of interest - -tissue: ["CACO.2", "MCF7", "PC.3"] # tissues for generating plots -refSample: "NPH001" # reference sample for rank correlation comparison -minRL: 120 # minimum read length for calculating WPS -maxRL: 180 # maximum read length for calculating WPS -bpProtection: 120 \ No newline at end of file diff --git a/config/example.config.yml b/config/example.config.yml new file mode 100644 index 0000000..361317d --- /dev/null +++ b/config/example.config.yml @@ -0,0 +1,23 @@ +samples: "config/samples.tsv" # .tsv file containing sample names and locations +regions: "config/regions.tsv" # .tsv file containing bed files with regions of interest + +proteinAtlas: "Blood" #RNAtable name +tissue: ["NK_cell", "memory_B_cell", "classical_monocyte", "basophil", "memory_CD4_T_cell", "memory_CD8_T_cell"] # tissues for generating plots +refSample: "BH01" # reference sample for rank correlation comparison +minRL: 120 # minimum read length for calculating WPS +maxRL: 180 # maximum read length for calculating WPS +bpProtection: 120 + +## genome build specific options ## + +GRCh37: + genome: "resources/genome/hg19.fa.genome" #full .genome file + genome_autosomes: "resources/genome/hg19.fa.genome.regular_autosomes" # .genome file reduced to regular autosomes + UCSC_gap: "resources/blacklists/UCSC/UCSC_gap.hg19.bed" # UCSC_gap file in .bed format + transcriptAnno: "resources/annotations/transcriptAnno-GRCh37.103.tsv.gz" # file containing TSSs + +GRCh38: + genome: "resources/genome/hg38.fa.genome" #full .genome file + genome_autosomes: "resources/genome/hg38.fa.genome.regular_autosomes" #.genome file reduced to regular autosome + UCSC_gap: "resources/blacklists/UCSC/UCSC_gap.hg38.bed" # UCSC_gap file in .bed format + transcriptAnno: "resources/annotations/transcriptAnno-GRCh38.103.tsv.gz" # file containing TSSs \ No newline at end of file diff --git a/config/samples.tsv b/config/samples.tsv index edb7362..57f0e3d 100644 --- a/config/samples.tsv +++ b/config/samples.tsv @@ -1,4 +1,4 @@ -ID sample path ref_samples -experimentID testsample1 "/path/to/testsample1.bam" testsample2,testsample3 -experimentID testsample2 "/path/to/testsample2.bam" testsample1,testsample3 -experimentID testsample3 "/path/to/testsample3.bam" testsample1,testsample2 \ No newline at end of file +ID sample path ref_samples genome_build +experimentID testsample1 "/path/to/testsample1.bam" testsample2,testsample3 GRCh37 +experimentID testsample2 "/path/to/testsample2.bam" testsample1,testsample3 GRCh37 +experimentID testsample3 "/path/to/testsample3.bam" testsample1,testsample2 GRCh38 \ No newline at end of file diff --git a/resources/README.md b/resources/README.md new file mode 100644 index 0000000..7c6b2bf --- /dev/null +++ b/resources/README.md @@ -0,0 +1,18 @@ +# Resources + +This folder is meant to contain all resources necessary for running the workflow, for example reference sequences or databases. Wherever feasible, they can also be downloaded programmatically via rules defined in the pipeline. + +======= + +## Files + +- resources + - protein_atlas + - RNAtableBlood.tsv.gz (from [https://www.proteinatlas.org/download/rna_blood_cell.tsv.zip](https://www.proteinatlas.org/download/rna_blood_cell.tsv.zip)) + - labels_Blood.tsv + - RNAtableTissue.tsv.gz (from [https://www.proteinatlas.org/download/rna_tissue_consensus.tsv.zip](https://www.proteinatlas.org/download/rna_tissue_consensus.tsv.zip)) + - labels_Tissue.tsv + - RNAtableExtended.tsv.gz (from [https://www.proteinatlas.org/download/rna_tissue_consensus.tsv.zip](https://www.proteinatlas.org/download/rna_tissue_consensus.tsv.zip) and [https://www.proteinatlas.org/download/rna_celline.tsv.zip](https://www.proteinatlas.org/download/rna_celline.tsv.zip)) + - labels_Extended.tsv + - transcriptAnno-GRCh37.103.tsv.gz (unique GeneIDs, not filtered) + - transcriptAnno-GRCh38.103.tsv.gz (unique GeneIDs, not filtered) diff --git 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46688378 - -ENSG00000260040 HG7_PATCH 142713276 142723276 - -ENSG00000260045 HG544_PATCH 17686123 17696123 + -ENSG00000260069 HG75_PATCH 34493983 34503983 - -ENSG00000260099 HG79_PATCH 136297534 136307534 + -ENSG00000260117 HG531_PATCH 115079987 115089987 + -ENSG00000260119 HG7_PATCH 142636704 142646704 - -ENSG00000260129 HG1032_PATCH 191008859 191018859 + -ENSG00000260130 HG19_PATCH 1993154 2003154 + -ENSG00000260150 HG905_PATCH 185068 195068 + -ENSG00000260155 HG1032_PATCH 190992386 191002386 + -ENSG00000260164 HG75_PATCH 34852175 34862175 - -ENSG00000260170 15 45879548 45889548 + -ENSG00000260178 HG185_PATCH 40258984 40268984 - -ENSG00000260181 HG79_PATCH 136241633 136251633 - -ENSG00000260189 HG104_HG975_PATCH 145161594 145171594 + -ENSG00000260195 HG7_PATCH 142615935 142625935 + -ENSG00000260199 HG75_PATCH 34514133 34524133 - -ENSG00000260220 HG998_1_PATCH 139188746 139198746 - -ENSG00000260225 HG1082_HG167_PATCH 140474227 140484227 + -ENSG00000260226 HG104_HG975_PATCH 145164781 145174781 + -ENSG00000260230 9 111919570 111929570 - -ENSG00000260238 1 156182797 156192797 + -ENSG00000260240 16 59778717 59788717 - -ENSG00000260245 HG185_PATCH 40065238 40075238 - -ENSG00000260259 16 89742976 89752976 - -ENSG00000260272 16 2546032 2556032 + -ENSG00000260283 HG185_PATCH 40122992 40132992 + -ENSG00000260286 6 24789116 24799116 - -ENSG00000260287 HG75_PATCH 34651202 34661202 + -ENSG00000260313 HG243_PATCH 145473413 145483413 - -ENSG00000260314 HG544_PATCH 17851342 17861342 + -ENSG00000260319 HG104_HG975_PATCH 145094583 145104583 + -ENSG00000260320 HG185_PATCH 40209307 40219307 - -ENSG00000260324 HG544_PATCH 17794250 17804250 + -ENSG00000260325 HG185_PATCH 40277682 40287682 + -ENSG00000260334 HG185_PATCH 39868577 39878577 + -ENSG00000260342 16 18802840 18812840 - -ENSG00000260355 HG14_PATCH 57517883 57527883 + -ENSG00000260362 16 9760699 9770699 - -ENSG00000260371 16 69380208 69390208 - -ENSG00000260374 HG745_PATCH 36584662 36594662 + -ENSG00000260376 HG1032_PATCH 190998972 191008972 + -ENSG00000260380 HG1032_PATCH 190861942 190871942 + -ENSG00000260383 HG243_PATCH 145215927 145225927 + -ENSG00000260384 HG989_PATCH 31882411 31892411 + -ENSG00000260415 12 52203788 52213788 + -ENSG00000260428 HG243_PATCH 145321462 145331462 + -ENSG00000260456 16 87340985 87350985 - -ENSG00000260458 HG987_PATCH 21606052 21616052 + -ENSG00000260463 HG104_HG975_PATCH 144798428 144808428 + -ENSG00000260485 HG104_HG975_PATCH 144902028 144912028 - -ENSG00000260489 HG79_PATCH 136251901 136261901 + -ENSG00000260501 HG79_PATCH 136223748 136233748 + -ENSG00000260502 HG79_PATCH 136335521 136345521 + -ENSG00000260508 HG75_PATCH 34872299 34882299 + -ENSG00000260513 HG736_PATCH 57197556 57207556 - -ENSG00000260533 HG104_HG975_PATCH 144913143 144923143 - -ENSG00000260537 16 70333116 70343116 + -ENSG00000260548 X 107965916 107975916 - -ENSG00000260557 HG7_PATCH 142699948 142709948 + -ENSG00000260587 HG186_PATCH 50712671 50722671 + -ENSG00000260596 HG1032_PATCH 191094928 191104928 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191022159 + -ENSG00000261210 16 19297100 19307100 + -ENSG00000261221 19 56116770 56126770 + -ENSG00000261230 HG243_PATCH 145454190 145464190 - -ENSG00000261236 HG243_PATCH 145336272 145346272 - -ENSG00000261246 HG104_HG975_PATCH 144780223 144790223 - -ENSG00000261247 15 30427351 30437351 + -ENSG00000261256 HG75_PATCH 34755352 34765352 - -ENSG00000261258 HG185_PATCH 39969182 39979182 + -ENSG00000261264 HG7_PATCH 142684413 142694413 - -ENSG00000261272 6 30978250 30988250 + -ENSG00000261283 HG115_PATCH 102007176 102017176 + -ENSG00000261297 HG243_PATCH 145461797 145471797 - -ENSG00000261300 HG75_PATCH 34862922 34872922 + -ENSG00000261301 HG7_PATCH 141618616 141628616 + -ENSG00000261306 HG79_PATCH 136201932 136211932 - -ENSG00000261309 HG987_PATCH 21279508 21289508 + -ENSG00000261321 HG990_PATCH 285729 295729 - -ENSG00000261323 HG7_PATCH 142812925 142822925 + -ENSG00000261345 HG506_HG507_HG1000_PATCH 61041025 61051025 - -ENSG00000261352 HG730_PATCH 20188829 20198829 + -ENSG00000261359 16 31213205 31223205 + -ENSG00000261361 HG79_PATCH 136232086 136242086 + -ENSG00000261371 HG183_PATCH 62458237 62468237 - -ENSG00000261378 HG185_PATCH 40301239 40311239 - -ENSG00000261380 HG104_HG975_PATCH 144805970 144815970 - -ENSG00000261383 HG281_PATCH 49994067 50004067 - -ENSG00000261413 HG745_PATCH 36508127 36518127 + -ENSG00000261443 HG186_PATCH 51579010 51589010 + -ENSG00000261456 HG905_PATCH 89588 99588 - -ENSG00000261473 HG7_PATCH 142489984 142499984 + -ENSG00000261493 HG79_PATCH 136283578 136293578 - -ENSG00000261508 HG75_PATCH 34919857 34929857 + -ENSG00000261509 16 33261514 33271514 + -ENSG00000261514 17 42015730 42025730 + -ENSG00000261516 HG104_HG975_PATCH 144766677 144776677 + -ENSG00000261530 HG706_PATCH 75650402 75660402 - -ENSG00000261539 HG243_PATCH 145403414 145413414 - -ENSG00000261567 16 85391068 85401068 + -ENSG00000261577 HG185_PATCH 39932949 39942949 - -ENSG00000261579 HG79_PATCH 136213651 136223651 - -ENSG00000261587 HG243_PATCH 145400511 145410511 - 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HG858_PATCH 116764 126764 + -ENSG00000261784 HG1032_PATCH 191005566 191015566 + -ENSG00000261787 8 67864824 67874824 - -ENSG00000261791 HG7_PATCH 141811548 141821548 + -ENSG00000261794 15 30896328 30906328 + -ENSG00000261796 3 128869878 128879878 - -ENSG00000261833 16 76587313 76597313 + -ENSG00000261843 HSCHR17_3_CTG4 75289113 75299113 + -ENSG00000261846 HSCHR3_1_CTG2_1 151462252 151472252 + -ENSG00000261852 HSCHR17_4_CTG4 39193692 39203692 - -ENSG00000261855 HG325_PATCH 50326899 50336899 - -ENSG00000261857 19 41281281 41291281 + -ENSG00000261860 HSCHR19LRC_PGF1_CTG1 55157744 55167744 + -ENSG00000261862 HSCHR17_4_CTG4 39173580 39183580 - -ENSG00000261869 HG325_PATCH 50316458 50326458 + -ENSG00000261870 HSCHR19LRC_COX2_CTG1 54991290 55001290 + -ENSG00000261871 HG325_PATCH 50326847 50336847 - -ENSG00000261880 HSCHR19LRC_PGF2_CTG1 55147186 55157186 + -ENSG00000261883 HG299_PATCH 118955591 118965591 + -ENSG00000261887 HG1063_PATCH 102594405 102604405 + -ENSG00000261893 HSCHR1_2_CTG31 155248710 155258710 - -ENSG00000261897 HG142_HG150_NOVEL_TEST 56019675 56029675 + -ENSG00000261899 HSCHR2_1_CTG1 36589101 36599101 + -ENSG00000261900 HG339_PATCH 97889471 97899471 + -ENSG00000261906 HSCHR19LRC_PGF1_CTG1 54887288 54897288 - -ENSG00000261910 HG414_PATCH 76839306 76849306 + -ENSG00000261911 HG1257_PATCH 73709400 73719400 - -ENSG00000261912 HSCHR19LRC_COX1_CTG1 55173048 55183048 + -ENSG00000261913 HG7_PATCH 142406771 142416771 + -ENSG00000261917 HSCHR19LRC_COX1_CTG1 54683498 54693498 - -ENSG00000261919 HG1257_PATCH 74238918 74248918 + -ENSG00000261920 HG1257_PATCH 73918926 73928926 + -ENSG00000261921 HG325_PATCH 50350213 50360213 - -ENSG00000261923 HG873_PATCH 14665268 14675268 + -ENSG00000261929 HSCHR19LRC_PGF2_CTG1 54839536 54849536 - -ENSG00000261930 HSCHR19LRC_LRC_T_CTG1 55297896 55307896 + -ENSG00000261931 HSCHR19LRC_PGF1_CTG1 54896805 54906805 - -ENSG00000261932 HSCHR5_1_CTG1 69966744 69976744 + -ENSG00000261934 5 140782519 140792519 + -ENSG00000261935 HSCHR19LRC_COX1_CTG1 54799723 54809723 - -ENSG00000261937 HSCHR19LRC_COX2_CTG1 54799604 54809604 - -ENSG00000261940 HG1257_PATCH 73138409 73148409 - -ENSG00000261941 HG414_PATCH 76813882 76823882 + -ENSG00000261946 HG348_PATCH 94706845 94716845 + -ENSG00000261949 19 49927005 49937005 + -ENSG00000261958 HG151_NOVEL_TEST 56467861 56477861 + -ENSG00000261961 HSCHR19LRC_LRC_I_CTG1 55537135 55547135 - -ENSG00000261964 HG729_PATCH 8665582 8675582 - -ENSG00000261967 HSCHR15_1_CTG4 28623775 28633775 + -ENSG00000261968 HSCHR17_4_CTG4 39244755 39254755 - -ENSG00000261972 HSCHR16_1_CTG3_1 55992377 56002377 - -ENSG00000261974 HG348_PATCH 94696776 94706776 - -ENSG00000261975 HSCHR19LRC_COX1_CTG1 55485460 55495460 - -ENSG00000261981 HG748_PATCH 77727000 77737000 + -ENSG00000261984 HSCHR12_2_CTG2 11081861 11091861 - -ENSG00000261986 HSCHR17_1_CTG4 39497063 39507063 - -ENSG00000261992 HSCHR1_1_CTG31 153902681 153912681 - -ENSG00000262003 17 812871 822871 + -ENSG00000262004 HSCHR19LRC_COX1_CTG1 55008627 55018627 + -ENSG00000262007 HSCHR19LRC_LRC_S_CTG1 55361246 55371246 + -ENSG00000262009 HSCHR19LRC_PGF2_CTG1 55197289 55207289 - -ENSG00000262015 HG325_PATCH 50306645 50316645 + -ENSG00000262018 HG1257_PATCH 73132781 73142781 + -ENSG00000262022 HSCHR19_2_CTG3 21949806 21959806 - -ENSG00000262023 HG418_PATCH 143741343 143751343 - -ENSG00000262024 HSCHR22_1_CTG1 42589296 42599296 - -ENSG00000262028 HG388_HG400_PATCH 111739902 111749902 - -ENSG00000262029 HG1257_PATCH 75244852 75254852 - -ENSG00000262030 HG1257_PATCH 73148582 73158582 + -ENSG00000262037 HSCHR19_1_CTG3 20959253 20969253 + -ENSG00000262039 17 47448101 47458101 + -ENSG00000262044 HSCHR19LRC_COX1_CTG1 54736383 54746383 - -ENSG00000262045 HSCHR17_1_CTG4 39528651 39538651 - -ENSG00000262046 HG883_PATCH 26646120 26656120 + -ENSG00000262053 HSCHR19LRC_PGF1_CTG1 54683665 54693665 - -ENSG00000262057 HSCHR5_1_CTG1 70098426 70108426 + -ENSG00000262062 HG883_PATCH 26687842 26697842 - -ENSG00000262063 HG1257_PATCH 73547889 73557889 + -ENSG00000262068 HSCHR17_4_CTG4 39155492 39165492 - -ENSG00000262069 HSCHR19LRC_COX2_CTG1 55202351 55212351 - -ENSG00000262073 HG1257_PATCH 73225226 73235226 - -ENSG00000262077 HG1257_PATCH 73079496 73089496 - -ENSG00000262087 HSCHR19LRC_PGF1_CTG1 54736601 54746601 - -ENSG00000262088 HG299_PATCH 118879399 118889399 - -ENSG00000262092 HSCHR19LRC_COX2_CTG1 55249988 55259988 + -ENSG00000262093 HSCHR10_1_CTG5 45683770 45693770 - -ENSG00000262102 HSCHR18_2_CTG2 65243665 65253665 - -ENSG00000262103 HG1133_PATCH 11081861 11091861 - -ENSG00000262110 HSCHR19LRC_LRC_J_CTG1 55589584 55599584 - -ENSG00000262111 HSCHR12_2_CTG2 11309190 11319190 - -ENSG00000262121 HSCHR17_4_CTG4 39262002 39272002 + -ENSG00000262122 HG1257_PATCH 72390078 72400078 + -ENSG00000262124 HG729_PATCH 8887211 8897211 - -ENSG00000262128 HG1257_PATCH 73674374 73684374 + -ENSG00000262131 HSCHR19LRC_LRC_S_CTG1 55539221 55549221 - -ENSG00000262134 HG7_PATCH 142552586 142562586 + -ENSG00000262138 HSCHR19LRC_COX1_CTG1 54641435 54651435 + -ENSG00000262139 HSCHR12_3_CTG2_1 101505376 101515376 + -ENSG00000262143 HSCHR19LRC_PGF1_CTG1 55062657 55072657 - -ENSG00000262145 HSCHR12_1_CTG2_1 58335359 58345359 + -ENSG00000262149 HG729_PATCH 8632306 8642306 - -ENSG00000262150 HG418_PATCH 143761816 143771816 + -ENSG00000262156 HSCHR22_1_CTG2 39353637 39363637 + -ENSG00000262163 HSCHR19LRC_LRC_S_CTG1 55564133 55574133 - -ENSG00000262164 HSCHR17_4_CTG4 39113270 39123270 - -ENSG00000262168 HSCHR19LRC_PGF1_CTG1 54653619 54663619 - -ENSG00000262169 HSCHR5_1_CTG1 68855834 68865834 + -ENSG00000262170 HSCHR5_1_CTG1 68988357 68998357 - -ENSG00000262174 HSCHR19LRC_COX1_CTG1 54653618 54663618 - -ENSG00000262175 HSCHR19LRC_LRC_J_CTG1 55501660 55511660 + -ENSG00000262176 HG388_HG400_PATCH 111751498 111761498 + -ENSG00000262180 1 186369703 186379703 + -ENSG00000262182 HSCHR19LRC_COX2_CTG1 55080218 55090218 + -ENSG00000262184 HG1257_PATCH 73493053 73503053 + -ENSG00000262186 HG883_PATCH 26723228 26733228 - -ENSG00000262191 HG151_NOVEL_TEST 56478941 56488941 + -ENSG00000262199 HG745_PATCH 36752095 36762095 - -ENSG00000262207 HSCHR19LRC_LRC_T_CTG1 55500426 55510426 - -ENSG00000262208 HG325_PATCH 50331003 50341003 - -ENSG00000262209 5 140749830 140759830 + -ENSG00000262216 HSCHR19LRC_PGF1_CTG1 54936398 54946398 + -ENSG00000262217 HSCHR12_3_CTG2_1 101600165 101610165 - -ENSG00000262218 HSCHR17_5_CTG4 39438780 39448780 - -ENSG00000262221 HSCHR17_6_CTG4 39420540 39430540 + -ENSG00000262225 HSCHR19LRC_LRC_T_CTG1 55523151 55533151 + -ENSG00000262234 HG1063_PATCH 102456093 102466093 + -ENSG00000262236 HSCHR19LRC_PGF1_CTG1 54849106 54859106 + -ENSG00000262239 HSCHR19LRC_COX1_CTG1 55460548 55470548 - -ENSG00000262243 HSCHR16_1_CTG3_1 55869487 55879487 - -ENSG00000262244 HSCHR19LRC_PGF2_CTG1 55294222 55304222 - -ENSG00000262245 HG299_PATCH 118842416 118852416 + -ENSG00000262246 16 4456664 4466664 - -ENSG00000262249 HG730_PATCH 20762401 20772401 - -ENSG00000262258 HG348_PATCH 94758422 94768422 + -ENSG00000262260 HSCHR19LRC_PGF2_CTG1 55206298 55216298 + -ENSG00000262261 HSCHR5_1_CTG1 69500540 69510540 - -ENSG00000262263 HG1257_PATCH 75502959 75512959 - -ENSG00000262264 HG414_PATCH 76745441 76755441 + -ENSG00000262273 HG311_PATCH 118350480 118360480 + -ENSG00000262275 HG747_PATCH 66277231 66287231 - -ENSG00000262277 HG388_HG400_PATCH 111807925 111817925 + -ENSG00000262279 HG306_PATCH 112831996 112841996 + -ENSG00000262284 HSCHR19LRC_COX2_CTG1 54839382 54849382 - -ENSG00000262287 HSCHR19LRC_LRC_I_CTG1 55584772 55594772 + -ENSG00000262289 HSCHR19LRC_LRC_T_CTG1 55236242 55246242 + -ENSG00000262304 17 3502704 3512704 - -ENSG00000262305 HSCHR5_1_CTG1 69012765 69022765 - -ENSG00000262306 HG1257_PATCH 75278312 75288312 - -ENSG00000262315 HG142_HG150_NOVEL_TEST 56150705 56160705 + -ENSG00000262317 HSCHR19LRC_COX1_CTG1 54937888 54947888 + -ENSG00000262318 HG883_PATCH 26685032 26695032 - -ENSG00000262320 HSCHR19LRC_PGF1_CTG1 54736601 54746601 - -ENSG00000262321 HG1257_PATCH 75666854 75676854 + 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68616304 - -ENSG00000262418 HSCHR1_3_CTG31 198619656 198629656 + -ENSG00000262421 HG1257_PATCH 72424422 72434422 - -ENSG00000262430 HSCHR19LRC_PGF2_CTG1 55316947 55326947 + -ENSG00000262439 HSCHR19LRC_LRC_J_CTG1 55342149 55352149 + -ENSG00000262446 HSCHR1_2_CTG31 155219864 155229864 - -ENSG00000262447 HG883_PATCH 26662729 26672729 + -ENSG00000262448 HSCHR10_1_CTG5 45965395 45975395 - -ENSG00000262452 HSCHR2_1_CTG12 169753017 169763017 - -ENSG00000262457 HSCHR19LRC_LRC_S_CTG1 55467200 55477200 - -ENSG00000262459 HG1257_PATCH 73326115 73336115 + -ENSG00000262462 HSCHR19LRC_PGF1_CTG1 55027418 55037418 + -ENSG00000262467 HSCHR19LRC_LRC_S_CTG1 55586858 55596858 + -ENSG00000262472 HG747_PATCH 66032075 66042075 + -ENSG00000262473 HSCHR21_4_CTG1_1 34914705 34924705 - -ENSG00000262484 19 39392797 39402797 - -ENSG00000262485 HG325_PATCH 50355674 50365674 - -ENSG00000262489 HG256_PATCH 14370730 14380730 - -ENSG00000262494 HSCHR19LRC_PGF2_CTG1 55026195 55036195 + -ENSG00000262499 HG1257_PATCH 73297491 73307491 - -ENSG00000262505 HSCHR4_1_CTG12 156777424 156787424 - -ENSG00000262506 HG388_HG400_PATCH 111945038 111955038 + -ENSG00000262509 HG339_PATCH 98021302 98031302 - -ENSG00000262511 HSCHR5_1_CTG1 68665646 68675646 + -ENSG00000262512 HSCHR17_5_CTG4 39405870 39415870 + -ENSG00000262515 HSCHR4_2_CTG9 62363011 62373011 + -ENSG00000262520 HSCHR17_4_CTG4 39248879 39258879 - -ENSG00000262523 HG348_PATCH 94822975 94832975 + -ENSG00000262525 HSCHR12_2_CTG2 11204892 11214892 - -ENSG00000262532 HG1257_PATCH 72793316 72803316 + -ENSG00000262542 HSCHR17_6_CTG4 39437732 39447732 - -ENSG00000262543 6 138699041 138709041 + -ENSG00000262552 HSCHR10_1_CTG5 45885737 45895737 + -ENSG00000262556 HSCHR19LRC_PGF1_CTG1 55203045 55213045 + -ENSG00000262562 HSCHR19_1_CTG3 21112509 21122509 + -ENSG00000262563 HSCHR2_1_CTG12 169774738 169784738 + -ENSG00000262564 HG311_PATCH 118419466 118429466 - -ENSG00000262565 HG1082_HG167_PATCH 140579359 140589359 + -ENSG00000262569 HG1257_PATCH 75419032 75429032 + -ENSG00000262572 HG748_PATCH 77783197 77793197 - -ENSG00000262573 HSCHR17_6_CTG4 39382878 39392878 + -ENSG00000262576 5 140734767 140744767 + -ENSG00000262577 HG388_HG400_PATCH 111732303 111742303 - -ENSG00000262578 HG730_PATCH 20666543 20676543 - -ENSG00000262582 HSCHR19LRC_COX1_CTG1 54967786 54977786 + -ENSG00000262589 HG1257_PATCH 72763772 72773772 - -ENSG00000262594 HSCHR17_6_CTG4 39400265 39410265 + -ENSG00000262595 HG75_PATCH 34929529 34939529 + -ENSG00000262596 HSCHR19LRC_PGF2_CTG1 54979430 54989430 + -ENSG00000262599 HSCHR7_1_CTG6 141391955 141401955 - -ENSG00000262600 HG388_HG400_PATCH 111789599 111799599 + -ENSG00000262601 16 85204881 85214881 + -ENSG00000262602 HSCHR19LRC_PGF1_CTG1 54884861 54894861 + -ENSG00000262605 HSCHR5_1_CTG1 68513586 68523586 + -ENSG00000262607 HSCHR12_1_CTG1 120779 130779 + -ENSG00000262610 HG1079_PATCH 54806335 54816335 - -ENSG00000262611 HG142_HG150_NOVEL_TEST 56048565 56058565 - -ENSG00000262612 HSCHR12_2_CTG2 11234932 11244932 - 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HSCHR19LRC_LRC_I_CTG1 55415011 55425011 + -ENSG00000262683 HG1091_PATCH 61227193 61237193 - -ENSG00000262684 HG185_PATCH 40163904 40173904 - -ENSG00000262690 HSCHR19LRC_LRC_I_CTG1 55465114 55475114 - -ENSG00000262694 HG1257_PATCH 72977228 72987228 - -ENSG00000262705 HG998_1_PATCH 139141823 139151823 + -ENSG00000262716 HSCHR19LRC_COX1_CTG1 54693970 54703970 + -ENSG00000262717 HSCHR19LRC_PGF1_CTG1 55339393 55349393 + -ENSG00000262722 HG1211_PATCH 47037138 47047138 - -ENSG00000262727 HSCHR19LRC_COX1_CTG1 55065905 55075905 + -ENSG00000262729 HSCHR19LRC_PGF2_CTG1 55269310 55279310 - -ENSG00000262731 HSCHR17_4_CTG4 39201740 39211740 - -ENSG00000262736 HSCHR19LRC_COX1_CTG1 55388527 55398527 - -ENSG00000262739 HG7_PATCH 142531858 142541858 + -ENSG00000262740 HG388_HG400_PATCH 111933928 111943928 - -ENSG00000262742 HSCHR5_1_CTG2 94626884 94636884 - -ENSG00000262744 HG1257_PATCH 75343904 75353904 + -ENSG00000262747 HG747_PATCH 66243689 66253689 + -ENSG00000262748 HSCHR17_1_CTG4 39535958 39545958 - -ENSG00000262749 HSCHR17_5_CTG4 39388713 39398713 + -ENSG00000262754 HSCHR19LRC_PGF1_CTG1 55007121 55017121 + -ENSG00000262755 HG142_HG150_NOVEL_TEST 56085782 56095782 + -ENSG00000262762 HG748_PATCH 77774213 77784213 + -ENSG00000262763 HSCHR19LRC_PGF1_CTG1 55157759 55167759 + -ENSG00000262764 HG388_HG400_PATCH 111627105 111637105 - -ENSG00000262771 HSCHR7_1_CTG6 141444414 141454414 + -ENSG00000262773 HSCHR2_1_CTG12 169643048 169653048 + -ENSG00000262782 HSCHR18_2_CTG2_1 76834836 76844836 + -ENSG00000262784 HG142_HG150_NOVEL_TEST 56043028 56053028 + -ENSG00000262785 HSCHR1_2_CTG31 155276628 155286628 - -ENSG00000262788 HSCHR16_2_CTG3_1 69166417 69176417 + -ENSG00000262795 HSCHR21_4_CTG1_1 34775737 34785737 + -ENSG00000262796 HG142_HG150_NOVEL_TEST 56127690 56137690 + -ENSG00000262797 HSCHR19LRC_PGF1_CTG1 55459932 55469932 - -ENSG00000262800 HSCHR19LRC_COX1_CTG1 54813440 54823440 - -ENSG00000262806 HSCHR19LRC_COX2_CTG1 55048433 55058433 + -ENSG00000262808 HSCHR17_4_CTG4 39187837 39197837 - -ENSG00000262811 HSCHR19LRC_LRC_S_CTG1 55476209 55486209 + -ENSG00000262812 HG299_PATCH 118917846 118927846 - -ENSG00000262814 17 79670386 79680386 + -ENSG00000262826 HSCHR1_1_CTG31 153717773 153727773 + -ENSG00000262827 HSCHR19LRC_PGF1_CTG1 55307541 55317541 + -ENSG00000262832 HSCHR19LRC_LRC_T_CTG1 55353390 55363390 + -ENSG00000262835 HSCHR19LRC_LRC_J_CTG1 55612309 55622309 + -ENSG00000262840 HG280_PATCH 57568371 57578371 - -ENSG00000262841 HSCHR5_1_CTG1 68530697 68540697 + -ENSG00000262843 HSCHR19LRC_PGF2_CTG1 54813468 54823468 - -ENSG00000262845 HSCHR17_4_CTG4 39133513 39143513 - -ENSG00000262847 HG1257_PATCH 75513023 75523023 + -ENSG00000262851 HG142_HG150_NOVEL_TEST 55990736 56000736 - -ENSG00000262852 HG388_HG400_PATCH 111782964 111792964 + -ENSG00000262858 HG747_PATCH 65821780 65831780 + -ENSG00000262860 HSCHR19_1_CTG3_1 34663351 34673351 + -ENSG00000262862 HSCHR17_4_CTG4 39206595 39216595 - -ENSG00000262866 HG883_PATCH 26652474 26662474 - -ENSG00000262867 HSCHR19LRC_LRC_J_CTG1 55564672 55574672 - -ENSG00000262868 HSCHR19LRC_PGF1_CTG1 54694137 54704137 + -ENSG00000262872 HSCHR15_1_CTG4 28779674 28789674 - -ENSG00000262874 19 51883827 51893827 - -ENSG00000262875 HG414_PATCH 76778036 76788036 + -ENSG00000262878 HSCHR19LRC_PGF1_CTG1 55507569 55517569 + -ENSG00000262886 HSCHR19LRC_COX1_CTG1 55397536 55407536 + -ENSG00000262887 HSCHR19LRC_COX1_CTG1 54888992 54898992 - -ENSG00000262889 HG1133_PATCH 11207062 11217062 - -ENSG00000262895 HG1257_PATCH 74860712 74870712 + -ENSG00000262896 HSCHR17_6_CTG4 39394568 39404568 + -ENSG00000262897 HSCHR19LRC_COX2_CTG1 55024580 55034580 + -ENSG00000262900 HSCHR19LRC_COX1_CTG1 55028924 55038924 + -ENSG00000262907 HSCHR2_2_CTG12 149632818 149642818 + -ENSG00000262908 HG1133_PATCH 11273581 11283581 - -ENSG00000262909 HG183_PATCH 62729427 62739427 - -ENSG00000262911 HSCHR21_4_CTG1_1 34863337 34873337 - -ENSG00000262917 HG183_PATCH 62564425 62574425 - -ENSG00000262918 HSCHR19_3_CTG3 22477416 22487416 + 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8763705 - -ENSG00000263001 HG1257_PATCH 74122660 74132660 + -ENSG00000263002 19 44645758 44655758 + -ENSG00000263005 HG325_PATCH 50368272 50378272 - -ENSG00000263007 HG388_HG400_PATCH 111774571 111784571 - -ENSG00000263008 HG1257_PATCH 74528819 74538819 - -ENSG00000263012 HSCHR17_1_CTG4 39516051 39526051 - -ENSG00000263014 HSCHR1_3_CTG31 198511290 198521290 - -ENSG00000263020 6 31633878 31643878 + -ENSG00000263021 HSCHR19LRC_PGF2_CTG1 54751159 54761159 - -ENSG00000263022 HSCHR17_1_CTG4 39578099 39588099 - -ENSG00000263024 HG1257_PATCH 73174614 73184614 - -ENSG00000263026 HSCHR19LRC_COX2_CTG1 55130330 55140330 - -ENSG00000263027 HSCHR19LRC_PGF1_CTG1 55171752 55181752 + -ENSG00000263028 HSCHR12_2_CTG2 11165218 11175218 - -ENSG00000263030 HSCHR19LRC_COX1_CTG1 54898564 54908564 - -ENSG00000263031 HG1063_PATCH 102445854 102455854 - -ENSG00000263032 HG388_HG400_PATCH 111895536 111905536 + -ENSG00000263040 HG1133_PATCH 10992073 11002073 - -ENSG00000263042 HSCHR7_1_CTG6 141414160 141424160 + -ENSG00000263043 HSCHR5_1_CTG1 68711179 68721179 + -ENSG00000263046 HG183_PATCH 62584095 62594095 + -ENSG00000263049 HG1257_PATCH 73033747 73043747 - -ENSG00000263052 HG311_PATCH 118492085 118502085 - -ENSG00000263053 17 79369274 79379274 + -ENSG00000263054 HSCHR19LRC_COX1_CTG1 54884285 54894285 + -ENSG00000263057 HSCHR17_4_CTG4 39031478 39041478 - -ENSG00000263061 HSCHR19LRC_PGF1_CTG1 55096788 55106788 + -ENSG00000263062 HSCHR5_1_CTG1 68902779 68912779 + -ENSG00000263064 HG736_PATCH 56870560 56880560 + -ENSG00000263068 HSCHR19LRC_LRC_T_CTG1 55403493 55413493 - -ENSG00000263074 HG747_PATCH 66255297 66265297 + -ENSG00000263076 HSCHR19LRC_COX1_CTG1 54704427 54714427 + -ENSG00000263077 HG183_PATCH 62573880 62583880 - -ENSG00000263085 HG747_PATCH 65979639 65989639 - -ENSG00000263090 HSCHR17_5_CTG4 39382899 39392899 + -ENSG00000263091 HSCHR17_4_CTG4 39212360 39222360 - -ENSG00000263093 HG325_PATCH 50320026 50330026 - -ENSG00000263097 HSCHR12_2_CTG2 11174005 11184005 - -ENSG00000263100 HSCHR19LRC_COX1_CTG1 55338424 55348424 + -ENSG00000263101 HSCHR17_4_CTG4 39140511 39150511 - -ENSG00000263108 HSCHR19LRC_COX1_CTG1 55098297 55108297 + -ENSG00000263109 HSCHR19LRC_COX1_CTG1 54850930 54860930 + -ENSG00000263136 16 29827831 29837831 + -ENSG00000263138 HSCHR15_1_CTG8 66548221 66558221 - -ENSG00000263140 HSCHR21_3_CTG1_1 34144410 34154410 + -ENSG00000263141 HSCHR21_3_CTG1_1 34134168 34144168 - -ENSG00000263148 HG1497_PATCH 152704593 152714593 + -ENSG00000263151 HG1257_PATCH 73012958 73022958 - -ENSG00000263155 15 57884138 57894138 + -ENSG00000263156 HG325_PATCH 50273383 50283383 + -ENSG00000263160 HSCHR21_4_CTG1_1 34851874 34861874 - -ENSG00000263162 HSCHR15_1_CTG4 28557297 28567297 - -ENSG00000263163 HSCHR1_1_CTG31 153764060 153774060 + -ENSG00000263166 HSCHR19LRC_COX1_CTG1 54666908 54676908 - -ENSG00000263168 HSCHR19LRC_LRC_J_CTG1 55492651 55502651 - -ENSG00000263175 HSCHR19LRC_PGF2_CTG1 55009654 55019654 + -ENSG00000263184 HSCHR19LRC_PGF1_CTG1 55283719 55293719 + -ENSG00000263185 HG183_PATCH 62330586 62340586 - -ENSG00000263186 HSCHR17_1_CTG4 39455504 39465504 - -ENSG00000263192 HG299_PATCH 118868851 118878851 + -ENSG00000263194 HG418_PATCH 143808563 143818563 + -ENSG00000263203 16 69144330 69154330 - -ENSG00000263208 HSCHR19LRC_COX1_CTG1 55204372 55214372 + -ENSG00000263211 HG729_PATCH 8795837 8805837 + -ENSG00000263216 HSCHR19LRC_COX1_CTG1 55064164 55074164 - -ENSG00000263222 HSCHR19LRC_COX1_CTG1 54774711 54784711 - -ENSG00000263225 HG883_PATCH 26682264 26692264 - -ENSG00000263226 HG1257_PATCH 73754431 73764431 + -ENSG00000263229 HSCHR17_4_CTG4 39265093 39275093 - -ENSG00000263233 HSCHR19LRC_LRC_I_CTG1 55250099 55260099 + -ENSG00000263236 HSCHR17_4_CTG4 39270886 39280886 - -ENSG00000263238 HSCHR4_1_CTG12 156865062 156875062 - -ENSG00000263239 HSCHR19LRC_LRC_T_CTG1 55475514 55485514 - -ENSG00000263242 HSCHR17_4_CTG4 39176482 39186482 - -ENSG00000263243 HSCHR17_4_CTG4 39013461 39023461 - -ENSG00000263247 HSCHR12_2_CTG2 10992073 11002073 - 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54714600 + -ENSG00000263334 HG1257_PATCH 75193903 75203903 - -ENSG00000263341 HSCHR17_1_CTG4 39461946 39471946 - -ENSG00000263344 HG1257_PATCH 73639201 73649201 + -ENSG00000263353 HG1292_PATCH 121432368 121442368 + -ENSG00000263376 HG1287_PATCH 150488784 150498784 - -ENSG00000263417 18 68307979 68317979 - -ENSG00000263440 HG871_PATCH 5437021 5447021 - -ENSG00000263461 HG1287_PATCH 146535494 146545494 - -ENSG00000263464 HG1287_PATCH 149159741 149169741 - -ENSG00000263480 HG1211_PATCH 47073664 47083664 + -ENSG00000263513 HG1287_PATCH 144648403 144658403 - -ENSG00000263521 HG1287_PATCH 150573389 150583389 + -ENSG00000263528 HG1293_PATCH 206534055 206544055 + -ENSG00000263560 HG1292_PATCH 121446860 121456860 - -ENSG00000263563 17 21730694 21740694 + -ENSG00000263588 18 19668020 19678020 + -ENSG00000263620 17 8056292 8066292 - -ENSG00000263639 HG1211_PATCH 46531771 46541771 - -ENSG00000263687 HG1293_PATCH 206255980 206265980 - -ENSG00000263699 HG1304_PATCH 112565768 112575768 - 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149585877 + -ENSG00000264717 HG1211_PATCH 48332967 48342967 + -ENSG00000264719 HG1287_PATCH 150563096 150573096 - -ENSG00000264751 HG1322_PATCH 29794490 29804490 + -ENSG00000264776 HG1287_PATCH 148614807 148624807 + -ENSG00000264806 HG1287_PATCH 146510643 146520643 + -ENSG00000264820 HG1292_PATCH 121716940 121726940 - -ENSG00000264832 HG1211_PATCH 47427870 47437870 + -ENSG00000264842 HG1211_PATCH 46332920 46342920 - -ENSG00000264863 HG1287_PATCH 145901265 145911265 + -ENSG00000264872 HG1308_PATCH 130131933 130141933 + -ENSG00000264883 HG1211_PATCH 47977140 47987140 - -ENSG00000264980 HG1287_PATCH 147929098 147939098 + -ENSG00000264983 HG1287_PATCH 150092790 150102790 + -ENSG00000264992 HG1287_PATCH 149571597 149581597 - -ENSG00000265027 HG1293_PATCH 206170915 206180915 - -ENSG00000265096 17 77013682 77023682 - -ENSG00000265107 HG1287_PATCH 148435685 148445685 - -ENSG00000265111 HG1287_PATCH 146368216 146378216 - -ENSG00000265118 17 29635848 29645848 - -ENSG00000265133 HG1287_PATCH 150490095 150500095 - -ENSG00000265184 HG1293_PATCH 206699096 206709096 + -ENSG00000265190 HG1211_PATCH 47969502 47979502 - -ENSG00000265203 HG1211_PATCH 47843818 47853818 + -ENSG00000265228 HG1287_PATCH 151007890 151017890 + -ENSG00000265231 HG871_PATCH 5050191 5060191 - -ENSG00000265232 HG1287_PATCH 144582380 144592380 - -ENSG00000265241 HG1287_PATCH 146603950 146613950 - -ENSG00000265277 HG1287_PATCH 148346926 148356926 - -ENSG00000265303 17 57274926 57284926 + -ENSG00000265307 HG1287_PATCH 150594296 150604296 - -ENSG00000265346 HG1287_PATCH 150912508 150922508 - -ENSG00000265352 18 69439516 69449516 - -ENSG00000265354 HG1211_PATCH 46467948 46477948 + -ENSG00000265385 HG962_PATCH 70856571 70866571 - -ENSG00000265434 HG1322_PATCH 29902212 29912212 + -ENSG00000265476 HG1293_PATCH 206551288 206561288 - -ENSG00000265491 HG1287_PATCH 146500486 146510486 - -ENSG00000265531 HG1287_PATCH 144561207 144571207 + -ENSG00000265551 HG1211_PATCH 46222666 46232666 + -ENSG00000265570 HG1287_PATCH 150574304 150584304 + -ENSG00000265590 21 33974590 33984590 - -ENSG00000265594 HG1308_PATCH 130071077 130081077 - -ENSG00000265608 HG871_PATCH 5407200 5417200 + -ENSG00000265629 2 14775214 14785214 + -ENSG00000265681 18 47008905 47018905 - -ENSG00000265685 HG871_PATCH 5135984 5145984 + -ENSG00000265763 HG1211_PATCH 47869785 47879785 - -ENSG00000265808 HG1292_PATCH 120709143 120719143 - -ENSG00000265817 8 95439169 95449169 - -ENSG00000265823 HG1293_PATCH 206666019 206676019 - -ENSG00000265832 HG1287_PATCH 146595251 146605251 - -ENSG00000265880 HG962_PATCH 70856396 70866396 + -ENSG00000265944 18 6511414 6521414 + -ENSG00000265970 HG1287_PATCH 146698149 146708149 - -ENSG00000265972 HG1287_PATCH 146672901 146682901 - -ENSG00000266028 HG1293_PATCH 206269469 206279469 + -ENSG00000266054 HG1287_PATCH 146532043 146542043 + -ENSG00000266074 HG271_PATCH 79369274 79379274 + -ENSG00000266086 17 56072613 56082613 - -ENSG00000266094 HG1293_PATCH 206571090 206581090 + -ENSG00000266095 HG1287_PATCH 148227826 148237826 + -ENSG00000266134 HG1304_PATCH 112375274 112385274 + -ENSG00000266157 HG962_PATCH 70917782 70927782 + -ENSG00000266159 HG1308_PATCH 130341085 130351085 - -ENSG00000266170 HG1211_PATCH 46951328 46961328 - -ENSG00000266173 17 61809168 61819168 - -ENSG00000266177 HG1287_PATCH 150954614 150964614 + -ENSG00000266198 HG1287_PATCH 147848958 147858958 - -ENSG00000266202 17 26210390 26220390 - -ENSG00000266208 17 38516906 38526906 + -ENSG00000266225 HG1287_PATCH 150537490 150547490 + -ENSG00000266249 HG1287_PATCH 146414639 146424639 + -ENSG00000266258 18 68002674 68012674 + -ENSG00000266265 HG1308_PATCH 130387714 130397714 - -ENSG00000266286 HSCHR17_4_CTG4 39240637 39250637 + -ENSG00000266292 HG1308_PATCH 129984686 129994686 + -ENSG00000266332 HG1287_PATCH 150469104 150479104 + -ENSG00000266334 HG1287_PATCH 150945413 150955413 - -ENSG00000266338 HG1287_PATCH 145133223 145143223 - -ENSG00000266359 HG871_PATCH 5239052 5249052 + -ENSG00000266412 HG1211_PATCH 46516161 46526161 - -ENSG00000266472 HG1287_PATCH 150980263 150990263 + -ENSG00000266524 HG1211_PATCH 47795833 47805833 + -ENSG00000266562 HG1287_PATCH 151051125 151061125 + -ENSG00000266592 HG871_PATCH 5005444 5015444 + -ENSG00000266607 HG962_PATCH 70971814 70981814 + -ENSG00000266614 18 73971120 73981120 + -ENSG00000266641 HG1293_PATCH 206748597 206758597 + -ENSG00000266662 HG271_PATCH 79502331 79512331 + -ENSG00000266714 17 73598597 73608597 + -ENSG00000266733 17 28884129 28894129 + -ENSG00000266741 HG1287_PATCH 146651117 146661117 + -ENSG00000266748 HG1287_PATCH 147902052 147912052 - -ENSG00000266764 HG1287_PATCH 150969233 150979233 + -ENSG00000266766 HG1292_PATCH 120602325 120612325 - -ENSG00000266779 HG1308_PATCH 130322401 130332401 - -ENSG00000266796 HG1322_PATCH 29849262 29859262 + -ENSG00000266949 1 248893149 248903149 - -ENSG00000266953 19 34887219 34897219 + -ENSG00000266956 17 34312620 34322620 + -ENSG00000266958 19 45690645 45700645 + -ENSG00000266964 19 35630925 35640925 + -ENSG00000266967 17 41106492 41116492 - -ENSG00000266996 18 44534606 44544606 - -ENSG00000267001 19 2730045 2740045 - -ENSG00000267041 19 37253715 37263715 - -ENSG00000267060 17 41122449 41132449 - -ENSG00000267106 19 9732192 9742192 + -ENSG00000267114 19 45447263 45457263 - -ENSG00000267140 18 33067903 33077903 - -ENSG00000267157 19 5775629 5785629 - -ENSG00000267168 17 74729059 74739059 + -ENSG00000267173 19 44895773 44905773 - -ENSG00000267179 19 12035889 12045889 + -ENSG00000267206 9 139632979 139642979 - -ENSG00000267229 HG388_HG400_PATCH 111740143 111750143 - -ENSG00000267260 19 37264054 37274054 + -ENSG00000267261 17 40296933 40306933 - -ENSG00000267270 18 77905807 77915807 + -ENSG00000267281 12 54009762 54019762 - -ENSG00000267318 17 58018268 58028268 + -ENSG00000267335 19 49530151 49540151 - -ENSG00000267360 19 37687975 37697975 - -ENSG00000267368 7 102273237 102283237 - -ENSG00000267467 19 45445494 45455494 + -ENSG00000267483 HG748_PATCH 77468679 77478679 - -ENSG00000267496 17 41994575 42004575 + -ENSG00000267508 19 44895754 44905754 - -ENSG00000267531 19 55851253 55861253 + -ENSG00000267534 19 10331947 10341947 - -ENSG00000267556 HG883_PATCH 26699153 26709153 + -ENSG00000267561 1 87458691 87468691 + -ENSG00000267596 17 34319083 34329083 - -ENSG00000267618 17 33438511 33448511 - -ENSG00000267619 HG299_PATCH 118889475 118899475 + -ENSG00000267631 19 49530072 49540072 - -ENSG00000267635 HSCHR17_5_CTG4 39421609 39431609 + -ENSG00000267673 19 10416690 10426690 - -ENSG00000267680 19 44598544 44608544 + -ENSG00000267697 7 135602197 135612197 - -ENSG00000267710 19 56795549 56805549 + -ENSG00000267721 HG883_PATCH 26684603 26694603 + -ENSG00000267728 HSCHR17_5_CTG4 39411572 39421572 + -ENSG00000267740 19 5893713 5903713 - -ENSG00000267748 19 38779790 38789790 + -ENSG00000267757 19 46144948 46154948 + -ENSG00000267772 17 58641907 58651907 + -ENSG00000267795 16 4838456 4848456 + -ENSG00000267796 19 36239261 36249261 + -ENSG00000267802 14 52426246 52436246 - -ENSG00000267806 HG1502_PATCH 132896497 132906497 - -ENSG00000267807 HG271_PATCH 79476580 79486580 - -ENSG00000267812 21 37260726 37270726 - -ENSG00000267816 HG1459_PATCH 148577068 148587068 - -ENSG00000267819 12 131780066 131790066 + -ENSG00000267823 HG1436_HG1432_PATCH 48747541 48757541 - -ENSG00000267824 16 20499023 20509023 + -ENSG00000267825 HG1497_PATCH 152082913 152092913 + -ENSG00000267829 HG1436_HG1432_PATCH 48820967 48830967 - -ENSG00000267840 HSCHR6_MHC_SSTO 31474451 31484451 + -ENSG00000267841 HG1436_HG1432_PATCH 48645952 48655952 + -ENSG00000267843 HG1436_HG1432_PATCH 48456890 48466890 + -ENSG00000267845 9 139209639 139219639 - -ENSG00000267846 HG1287_PATCH 148836563 148846563 - -ENSG00000267848 20 62585006 62595006 + -ENSG00000267849 6 44390719 44400719 - -ENSG00000267854 HSCHR19LRC_PGF1_CTG1 55236658 55246658 + -ENSG00000267855 19 8376279 8386279 - -ENSG00000267857 21 46524872 46534872 - -ENSG00000267864 HG1433_PATCH 52440160 52450160 - -ENSG00000267867 HG122_PATCH 118477212 118487212 + -ENSG00000267873 12 52709127 52719127 + -ENSG00000267876 HG329_PATCH 19127795 19137795 - -ENSG00000267878 HG1436_HG1432_PATCH 48768422 48778422 - -ENSG00000267880 19 51368039 51378039 - -ENSG00000267881 19 42212530 42222530 + -ENSG00000267882 20 45947245 45957245 + -ENSG00000267883 21 47180004 47190004 - -ENSG00000267884 1 166018708 166028708 - -ENSG00000267885 1 33439267 33449267 + -ENSG00000267889 2 203104291 203114291 + -ENSG00000267891 HG1438_PATCH 72223362 72233362 + -ENSG00000267893 17 70036163 70046163 + -ENSG00000267894 HG27_PATCH 26649979 26659979 - -ENSG00000267900 HG1462_PATCH 114526222 114536222 + -ENSG00000267901 14 71673461 71683461 - -ENSG00000267906 7 16828865 16838865 + -ENSG00000267908 19 56751772 56761772 + -ENSG00000267909 14 70030338 70040338 - -ENSG00000267910 HG122_PATCH 118307204 118317204 + -ENSG00000267912 HG1436_HG1432_PATCH 48543177 48553177 + -ENSG00000267913 21 45583579 45593579 - -ENSG00000267915 HG1497_PATCH 152988961 152998961 - -ENSG00000267918 14 101285536 101295536 - -ENSG00000267923 HSCHR19LRC_PGF1_CTG1 54788403 54798403 - -ENSG00000267929 HG1436_HG1432_PATCH 48761044 48771044 - -ENSG00000267935 Y 25847478 25857478 + -ENSG00000267937 21 38888739 38898739 + -ENSG00000267941 7 65939542 65949542 + -ENSG00000267942 12 66307966 66317966 - -ENSG00000267946 HG1497_PATCH 154771403 154781403 - -ENSG00000267950 11 1295808 1305808 + -ENSG00000267951 HG1497_PATCH 153034415 153044415 - -ENSG00000267952 19 7571967 7581967 + -ENSG00000267954 22 24116144 24126144 - -ENSG00000267955 HG122_PATCH 118295920 118305920 - -ENSG00000267958 2 74418516 74428516 + -ENSG00000267960 HG1442_PATCH 119201704 119211704 - -ENSG00000267963 2 241053906 241063906 + -ENSG00000267964 10 75522377 75532377 - -ENSG00000267970 7 48887361 48897361 + -ENSG00000267972 HG1433_PATCH 50203721 50213721 - -ENSG00000267976 21 37858164 37868164 + -ENSG00000267977 HG1497_PATCH 152882565 152892565 - -ENSG00000267978 HG1459_PATCH 148659173 148669173 - -ENSG00000267979 3 172009685 172019685 - -ENSG00000267981 11 129936835 129946835 + -ENSG00000267983 HG1436_HG1432_PATCH 48807029 48817029 - -ENSG00000267985 7 72459477 72469477 + -ENSG00000267987 9 124103624 124113624 + -ENSG00000267988 7 45896044 45906044 - -ENSG00000267989 HG1497_PATCH 152952994 152962994 - -ENSG00000267993 HG1497_PATCH 153570557 153580557 - -ENSG00000267995 HG1433_PATCH 52387899 52397899 - -ENSG00000268000 19 50003780 50013780 + -ENSG00000268009 HG1436_HG1432_PATCH 48242914 48252914 + -ENSG00000268012 5 78513910 78523910 - -ENSG00000268013 HG1497_PATCH 153464138 153474138 + -ENSG00000268016 HG1436_HG1432_PATCH 49360731 49370731 + -ENSG00000268018 HG1433_PATCH 51636638 51646638 + -ENSG00000268021 HG122_PATCH 118540386 118550386 - -ENSG00000268024 17 32572305 32582305 - -ENSG00000268025 HG736_PATCH 56879376 56889376 - -ENSG00000268028 12 65080328 65090328 - -ENSG00000268029 HG1440_PATCH 101716783 101726783 - -ENSG00000268035 HG1438_PATCH 72337929 72347929 - -ENSG00000268037 HSCHR19LRC_PGF1_CTG1 54751158 54761158 - -ENSG00000268040 21 47342476 47352476 - -ENSG00000268043 HG1287_PATCH 147646385 147656385 + -ENSG00000268046 18 8327037 8337037 - -ENSG00000268059 6 13611125 13621125 - -ENSG00000268060 HG1082_HG167_PATCH 140571953 140581953 + -ENSG00000268064 HSCHR19LRC_PGF1_CTG1 54966402 54976402 + -ENSG00000268069 12 48178705 48188705 + -ENSG00000268076 12 25381514 25391514 + -ENSG00000268080 8 94241866 94251866 + -ENSG00000268083 19 39320817 39330817 - -ENSG00000268084 HG1497_PATCH 153991138 154001138 - -ENSG00000268085 8 23410650 23420650 - -ENSG00000268089 HG1497_PATCH 151806654 151816654 + -ENSG00000268090 HG1436_HG1432_PATCH 49638701 49648701 + -ENSG00000268091 12 131504768 131514768 - -ENSG00000268098 21 37402367 37412367 + -ENSG00000268103 HG1459_PATCH 146993766 147003766 + -ENSG00000268104 HG1463_PATCH 115552911 115562911 + -ENSG00000268109 HG1497_PATCH 154195152 154205152 + -ENSG00000268110 HG122_PATCH 118230358 118240358 + -ENSG00000268111 20 44097451 44107451 - -ENSG00000268113 HG1433_PATCH 51787254 51797254 - -ENSG00000268122 HG1459_PATCH 148855789 148865789 + -ENSG00000268123 HG344_PATCH 7053185 7063185 + -ENSG00000268126 5 147698549 147708549 + -ENSG00000268130 13 113746607 113756607 - -ENSG00000268133 19 57874933 57884933 + -ENSG00000268134 HG1433_PATCH 52640399 52650399 + -ENSG00000268135 HG344_PATCH 7013896 7023896 + -ENSG00000268136 HG344_PATCH 6951229 6961229 - -ENSG00000268138 HG1436_HG1432_PATCH 48369176 48379176 + -ENSG00000268139 HG1436_HG1432_PATCH 49035767 49045767 - -ENSG00000268141 1 154585066 154595066 + -ENSG00000268142 HG1436_HG1432_PATCH 48757654 48767654 + -ENSG00000268146 1 244227631 244237631 + -ENSG00000268151 HG1439_PATCH 100904830 100914830 - -ENSG00000268154 1 161035654 161045654 + -ENSG00000268155 9 5074579 5084579 - -ENSG00000268156 14 77882740 77892740 + -ENSG00000268158 HG1433_PATCH 53916254 53926254 - -ENSG00000268159 HG1438_PATCH 71996997 72006997 + -ENSG00000268160 HG1497_PATCH 153674709 153684709 - -ENSG00000268162 12 57390744 57400744 + -ENSG00000268163 19 57978870 57988870 - -ENSG00000268170 7 142909359 142919359 - -ENSG00000268171 4 57276681 57286681 + -ENSG00000268172 1 144989308 144999308 + -ENSG00000268175 3 149689065 149699065 + -ENSG00000268176 HG1441_PATCH 103367439 103377439 + -ENSG00000268179 1 856444 866444 - -ENSG00000268181 7 62848859 62858859 - -ENSG00000268182 19 57154512 57164512 + -ENSG00000268187 HG736_PATCH 56881225 56891225 - -ENSG00000268188 HG1433_PATCH 53167372 53177372 - -ENSG00000268190 HG344_PATCH 6972499 6982499 - -ENSG00000268192 11 119017929 119027929 - -ENSG00000268194 2 121213696 121223696 - -ENSG00000268195 HG344_PATCH 6949374 6959374 + -ENSG00000268196 HG1497_PATCH 151867223 151877223 + -ENSG00000268206 17 26638666 26648666 + -ENSG00000268208 14 78218032 78228032 - -ENSG00000268210 HG1459_PATCH 144909124 144919124 + -ENSG00000268211 9 131062366 131072366 + -ENSG00000268212 HG1423_PATCH 36246734 36256734 + -ENSG00000268213 HG1439_PATCH 100862987 100872987 - -ENSG00000268214 HSCHR19LRC_COX2_CTG1 54950191 54960191 + -ENSG00000268217 5 72894202 72904202 + -ENSG00000268218 16 89334511 89344511 + -ENSG00000268221 HG1497_PATCH 153351085 153361085 + -ENSG00000268223 5 115387162 115397162 + -ENSG00000268226 HG1497_PATCH 153931223 153941223 + -ENSG00000268229 HG1437_PATCH 62964582 62974582 - -ENSG00000268235 HG1440_PATCH 101470272 101480272 + -ENSG00000268239 HG1453_PATCH 140671599 140681599 + -ENSG00000268241 2 175192150 175202150 - -ENSG00000268242 11 11737256 11747256 - -ENSG00000268248 HG736_PATCH 56873670 56883670 - -ENSG00000268249 HG1439_PATCH 100594183 100604183 - -ENSG00000268256 HG1436_HG1432_PATCH 48046161 48056161 - -ENSG00000268259 HG1441_PATCH 103499861 103509861 - -ENSG00000268260 HG1436_HG1432_PATCH 47863734 47873734 + -ENSG00000268264 HG1436_HG1432_PATCH 50014163 50024163 + -ENSG00000268265 21 34937644 34947644 - -ENSG00000268269 HG1433_PATCH 52825366 52835366 + -ENSG00000268273 HG1433_PATCH 51486384 51496384 + 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-ENSG00000268349 HG1442_PATCH 119239899 119249899 - -ENSG00000268350 HG1433_PATCH 52691413 52701413 - -ENSG00000268351 11 69577717 69587717 - -ENSG00000268353 HG1436_HG1432_PATCH 49049657 49059657 - -ENSG00000268358 5 111755279 111765279 + -ENSG00000268359 HG1497_PATCH 154423056 154433056 - -ENSG00000268361 19 44087187 44097187 - -ENSG00000268365 1 240633503 240643503 - -ENSG00000268367 12 57810197 57820197 + -ENSG00000268368 HG1440_PATCH 101761755 101771755 - -ENSG00000268372 HG1433_PATCH 53054323 53064323 - -ENSG00000268377 HG1440_PATCH 101387476 101397476 - -ENSG00000268381 HG1441_PATCH 103258615 103268615 - -ENSG00000268384 HG1497_PATCH 153140794 153150794 + -ENSG00000268387 1 161190159 161200159 + -ENSG00000268393 HG1436_HG1432_PATCH 47990055 48000055 + -ENSG00000268394 HG1436_HG1432_PATCH 48380556 48390556 + -ENSG00000268396 2 239192328 239202328 + -ENSG00000268397 5 180682719 180692719 + -ENSG00000268402 6 143759574 143769574 + -ENSG00000268403 11 9472009 9482009 - -ENSG00000268412 2 26241480 26251480 - -ENSG00000268413 17 42335296 42345296 + -ENSG00000268417 HG1462_PATCH 114460541 114470541 - -ENSG00000268421 10 131299524 131309524 - -ENSG00000268422 HG1459_PATCH 148962862 148972862 + -ENSG00000268423 19 47094117 47104117 - -ENSG00000268424 5 101569695 101579695 + -ENSG00000268426 HG1436_HG1432_PATCH 48688271 48698271 + -ENSG00000268427 22 50714102 50724102 + -ENSG00000268429 HG417_PATCH 111633 121633 - -ENSG00000268430 HG865_PATCH 71010866 71020866 - -ENSG00000268431 HG1424_PATCH 37209391 37219391 + -ENSG00000268432 5 157151726 157161726 - -ENSG00000268434 19 46278970 46288970 - -ENSG00000268439 HG344_PATCH 7079943 7089943 + -ENSG00000268440 HG1497_PATCH 154384833 154394833 + -ENSG00000268444 HG1497_PATCH 152944883 152954883 + -ENSG00000268447 HG1433_PATCH 52494230 52504230 + -ENSG00000268456 HG1462_PATCH 114245442 114255442 - -ENSG00000268457 20 30309000 30319000 + -ENSG00000268461 19 20038638 20048638 - -ENSG00000268462 HG344_PATCH 6961291 6971291 + -ENSG00000268465 19 48969093 48979093 + -ENSG00000268466 14 58754750 58764750 + -ENSG00000268467 11 107462470 107472470 + -ENSG00000268470 17 76494910 76504910 + -ENSG00000268472 11 112130987 112140987 + -ENSG00000268476 HG1433_PATCH 52792090 52802090 + -ENSG00000268482 9 35351261 35361261 - -ENSG00000268484 15 96904486 96914486 + -ENSG00000268485 2 242167318 242177318 + -ENSG00000268486 HG1486_PATCH 16703305 16713305 - -ENSG00000268488 15 44065230 44075230 - -ENSG00000268489 HG1436_HG1432_PATCH 48433936 48443936 + -ENSG00000268490 HG1458_PATCH 142595260 142605260 - -ENSG00000268498 HG1438_PATCH 71782952 71792952 - -ENSG00000268500 19 52140141 52150141 - -ENSG00000268501 HG1436_HG1432_PATCH 49094865 49104865 + -ENSG00000268503 17 7517263 7527263 + -ENSG00000268509 3 5219981 5229981 - -ENSG00000268512 HG1497_PATCH 151989248 151999248 - -ENSG00000268519 12 77940567 77950567 - -ENSG00000268524 HG1436_HG1432_PATCH 49339267 49349267 + -ENSG00000268531 15 22011369 22021369 + -ENSG00000268533 19 57905550 57915550 + -ENSG00000268537 3 46920170 46930170 - -ENSG00000268538 22 30804468 30814468 - -ENSG00000268546 HG1436_HG1432_PATCH 48114715 48124715 + -ENSG00000268548 HG344_PATCH 6976282 6986282 + -ENSG00000268550 19 14834746 14844746 + -ENSG00000268551 HG122_PATCH 118271868 118281868 + -ENSG00000268552 1 28167254 28177254 - -ENSG00000268553 5 172026435 172036435 - -ENSG00000268556 2 105867758 105877758 + -ENSG00000268557 HG1497_PATCH 153547664 153557664 + -ENSG00000268563 HG1497_PATCH 153256187 153266187 - -ENSG00000268569 HG329_PATCH 19409245 19419245 - -ENSG00000268570 HG1441_PATCH 103421548 103431548 + -ENSG00000268574 HG1438_PATCH 72289361 72299361 - -ENSG00000268576 HG1287_PATCH 149356177 149366177 - -ENSG00000268578 9 45431541 45441541 - -ENSG00000268579 HG1438_PATCH 71924107 71934107 - -ENSG00000268590 GL000237.1 -7514 2486 - -ENSG00000268591 HG1497_PATCH 152932667 152942667 + -ENSG00000268602 11 107582997 107592997 + -ENSG00000268604 HG1497_PATCH 153649095 153659095 - -ENSG00000268606 HG1497_PATCH 151912349 151922349 - -ENSG00000268612 HG27_PATCH 26597179 26607179 + -ENSG00000268624 HG1497_PATCH 152225501 152235501 + -ENSG00000268626 17 72338270 72348270 - -ENSG00000268628 20 19728678 19738678 - -ENSG00000268629 HG375_PATCH 104455355 104465355 - -ENSG00000268630 HG1443_HG1444_PATCH 134654687 134664687 + -ENSG00000268632 15 42066228 42076228 - -ENSG00000268635 11 77184415 77194415 + -ENSG00000268637 HSCHR6_MHC_DBB 31433932 31443932 - -ENSG00000268640 12 147051 157051 + -ENSG00000268642 HG1439_PATCH 100663282 100673282 + -ENSG00000268643 19 42749283 42759283 - -ENSG00000268644 HG1497_PATCH 152150688 152160688 - -ENSG00000268646 HG1436_HG1432_PATCH 48685032 48695032 - -ENSG00000268651 HG1497_PATCH 153753621 153763621 + -ENSG00000268656 2 27999185 28009185 - -ENSG00000268657 14 92031382 92041382 - -ENSG00000268662 1 186355907 186365907 - -ENSG00000268667 HG1441_PATCH 103217579 103227579 + -ENSG00000268668 HG1433_PATCH 50547043 50557043 - -ENSG00000268671 HG1497_PATCH 152629058 152639058 - -ENSG00000268674 1 16865560 16875560 + -ENSG00000268675 HG1436_HG1432_PATCH 48973199 48983199 - -ENSG00000268679 HG1436_HG1432_PATCH 48851662 48861662 - -ENSG00000268682 HG1433_PATCH 51802271 51812271 - -ENSG00000268688 2 37058529 37068529 - -ENSG00000268690 HG1497_PATCH 153605387 153615387 + -ENSG00000268691 HG1453_PATCH 140249289 140259289 - -ENSG00000268693 HG417_PATCH 282804 292804 - -ENSG00000268695 HG1443_HG1444_PATCH 134295427 134305427 - -ENSG00000268699 HG1497_PATCH 153909544 153919544 - -ENSG00000268700 HG1497_PATCH 154229693 154239693 - -ENSG00000268702 14 23781483 23791483 - -ENSG00000268706 18 61599600 61609600 - -ENSG00000268708 9 44316076 44326076 - -ENSG00000268709 HG1459_PATCH 148793799 148803799 + -ENSG00000268712 HG1436_HG1432_PATCH 48621148 48631148 + -ENSG00000268714 5 115358087 115368087 + -ENSG00000268716 12 52922914 52932914 + -ENSG00000268719 HSCHR6_MHC_COX 29800765 29810765 - -ENSG00000268722 HG1439_PATCH 100743030 100753030 + -ENSG00000268728 HSCHR6_MHC_QBL 31474802 31484802 + -ENSG00000268730 15 99849827 99859827 - -ENSG00000268733 HG1502_PATCH 132934856 132944856 + -ENSG00000268735 13 24322242 24332242 + -ENSG00000268737 HG1459_PATCH 144899885 144909885 + -ENSG00000268738 HG1459_PATCH 148667035 148677035 - -ENSG00000268740 HG1436_HG1432_PATCH 48554952 48564952 + -ENSG00000268750 19 58331173 58341173 + -ENSG00000268757 HG1497_PATCH 152893339 152903339 + -ENSG00000268759 15 32774821 32784821 + -ENSG00000268760 HG1442_PATCH 119435395 119445395 - -ENSG00000268762 HG1437_PATCH 62560808 62570808 - -ENSG00000268763 HSCHR12_2_CTG2 11187086 11197086 + -ENSG00000268765 HG1424_PATCH 37640072 37650072 + -ENSG00000268767 HG1462_PATCH 114829976 114839976 + -ENSG00000268768 HG1497_PATCH 153129651 153139651 - -ENSG00000268779 HG344_PATCH 6898637 6908637 + -ENSG00000268781 4 3501677 3511677 - -ENSG00000268786 HG1436_HG1432_PATCH 48424285 48434285 - -ENSG00000268788 4 76871882 76881882 + -ENSG00000268790 19 16760914 16770914 - -ENSG00000268791 4 6684188 6694188 - -ENSG00000268792 HG1433_PATCH 52531100 52541100 - -ENSG00000268798 19 1440837 1450837 + -ENSG00000268800 5 162863820 162873820 - -ENSG00000268805 21 46505492 46515492 - -ENSG00000268809 2 105872584 105882584 - -ENSG00000268815 HG1439_PATCH 100652912 100662912 - -ENSG00000268818 22 36021180 36031180 - -ENSG00000268821 2 172557313 172567313 - -ENSG00000268822 2 241614704 241624704 - -ENSG00000268827 HG1459_PATCH 147063045 147073045 + -ENSG00000268828 HG344_PATCH 6937571 6947571 + -ENSG00000268829 HG344_PATCH 7117700 7127700 - -ENSG00000268832 HG1497_PATCH 153312691 153322691 + -ENSG00000268838 15 78830022 78840022 + -ENSG00000268843 HG736_PATCH 56877394 56887394 - -ENSG00000268846 2 187357355 187367355 - -ENSG00000268851 GL000215.1 15353 25353 - -ENSG00000268852 17 80214130 80224130 + -ENSG00000268853 HG1426_PATCH 76715110 76725110 + -ENSG00000268856 21 46482926 46492926 - -ENSG00000268857 2 157342654 157352654 - -ENSG00000268858 20 62483216 62493216 - -ENSG00000268861 19 7445849 7455849 + -ENSG00000268862 HG1497_PATCH 153626748 153636748 + -ENSG00000268863 16 30987532 30997532 - -ENSG00000268864 19 54096750 54106750 - -ENSG00000268865 12 25055242 25065242 + -ENSG00000268870 19 12541895 12551895 - -ENSG00000268871 HG1459_PATCH 149010532 149020532 - -ENSG00000268872 HG344_PATCH 7033625 7043625 + -ENSG00000268876 HG1497_PATCH 153084730 153094730 - -ENSG00000268882 10 135183101 135193101 - -ENSG00000268883 HG1497_PATCH 152236020 152246020 - -ENSG00000268885 5 667758 677758 + -ENSG00000268891 7 74995424 75005424 - -ENSG00000268897 HG1439_PATCH 100631182 100641182 - -ENSG00000268898 2 40488146 40498146 + -ENSG00000268904 HG1497_PATCH 153580023 153590023 + -ENSG00000268916 HG1497_PATCH 151927689 151937689 + -ENSG00000268919 HG1442_PATCH 119292523 119302523 + -ENSG00000268920 HG1497_PATCH 151892206 151902206 - -ENSG00000268923 6 31964880 31974880 - -ENSG00000268925 10 135332660 135342660 - 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HG1458_PATCH 142799208 142809208 - -ENSG00000268991 1 17050955 17060955 - -ENSG00000268996 9 139971120 139981120 - -ENSG00000269000 2 107093847 107103847 - -ENSG00000269002 HG1436_HG1432_PATCH 49107903 49117903 - -ENSG00000269003 HG1433_PATCH 51075230 51085230 + -ENSG00000269007 HG1497_PATCH 153637724 153647724 - -ENSG00000269010 HG1463_PATCH 115569335 115579335 - -ENSG00000269011 21 15043458 15053458 - -ENSG00000269016 HG1436_HG1432_PATCH 49398927 49408927 + -ENSG00000269018 11 65349946 65359946 - -ENSG00000269020 HSCHR6_MHC_MCF 31560861 31570861 + -ENSG00000269026 19 58193412 58203412 + -ENSG00000269027 5 35051011 35061011 + -ENSG00000269028 3 96326999 96336999 - -ENSG00000269030 HG1436_HG1432_PATCH 49163067 49173067 + -ENSG00000269031 HG1459_PATCH 149650340 149660340 + -ENSG00000269034 HG1436_HG1432_PATCH 49031324 49041324 + -ENSG00000269035 19 17561612 17571612 - -ENSG00000269036 HG1443_HG1444_PATCH 135119496 135129496 + -ENSG00000269041 HG1459_PATCH 148605656 148615656 - -ENSG00000269042 11 108126479 108136479 - -ENSG00000269047 16 1031251 1041251 + -ENSG00000269048 6 166945368 166955368 + -ENSG00000269049 16 14564841 14574841 + -ENSG00000269052 HG1433_PATCH 52601067 52611067 - -ENSG00000269056 HG1425_PATCH 75392770 75402770 + -ENSG00000269057 HG1436_HG1432_PATCH 49082769 49092769 - -ENSG00000269058 19 16597002 16607002 - -ENSG00000269063 HG1453_PATCH 140657175 140667175 - -ENSG00000269064 1 179447804 179457804 - -ENSG00000269067 19 23175977 23185977 - -ENSG00000269071 5 138852107 138862107 + -ENSG00000269074 2 11603926 11613926 + -ENSG00000269075 HG1462_PATCH 113820547 113830547 + -ENSG00000269076 HG1433_PATCH 52112029 52122029 + -ENSG00000269079 HG344_PATCH 7069987 7079987 - -ENSG00000269081 HG1497_PATCH 151883063 151893063 + -ENSG00000269083 HG1426_PATCH 77160391 77170391 + -ENSG00000269084 Y 21728067 21738067 - -ENSG00000269087 HG1497_PATCH 153706039 153716039 - -ENSG00000269089 11 61735452 61745452 + -ENSG00000269093 19 32895914 32905914 + -ENSG00000269094 17 36874450 36884450 - -ENSG00000269095 19 17356256 17366256 - -ENSG00000269096 HG1443_HG1444_PATCH 134961308 134971308 - -ENSG00000269099 13 25591540 25601540 + -ENSG00000269100 HG989_PATCH 31892613 31902613 - -ENSG00000269101 HG1436_HG1432_PATCH 48661278 48671278 + -ENSG00000269103 22 21350735 21360735 - -ENSG00000269104 22 41675685 41685685 - -ENSG00000269109 HG1497_PATCH 152240907 152250907 + -ENSG00000269113 1 48452566 48462566 - -ENSG00000269114 HG1497_PATCH 151928218 151938218 - -ENSG00000269115 HG122_PATCH 118398186 118408186 + -ENSG00000269117 20 31823090 31833090 + -ENSG00000269120 13 41101322 41111322 - -ENSG00000269121 16 12052332 12062332 - -ENSG00000269122 HG1436_HG1432_PATCH 48206064 48216064 - -ENSG00000269133 HG1497_PATCH 153388223 153398223 + -ENSG00000269135 HG1426_PATCH 77220591 77230591 - -ENSG00000269149 HG1436_HG1432_PATCH 49181455 49191455 + -ENSG00000269155 6 168196209 168206209 + -ENSG00000269158 HG1458_PATCH 142712991 142722991 - -ENSG00000269159 HSCHR19LRC_PGF1_CTG1 54666914 54676914 - -ENSG00000269162 HG1443_HG1444_PATCH 134468115 134478115 - -ENSG00000269165 10 52094297 52104297 + -ENSG00000269167 HSCHR6_MHC_DBB 31947066 31957066 - -ENSG00000269168 HG1497_PATCH 152663410 152673410 + -ENSG00000269169 19 999600 1009600 + -ENSG00000269173 HG1439_PATCH 100877783 100887783 + -ENSG00000269175 1 101455760 101465760 + -ENSG00000269180 HG1208_PATCH 57826934 57836934 - -ENSG00000269182 15 22456894 22466894 + -ENSG00000269185 7 108530654 108540654 - -ENSG00000269187 HG1497_PATCH 153777738 153787738 - -ENSG00000269190 19 39456549 39466549 - -ENSG00000269197 8 70850402 70860402 + -ENSG00000269198 HG1497_PATCH 153103159 153113159 - -ENSG00000269203 HG1433_PATCH 51229595 51239595 - -ENSG00000269205 16 2031632 2041632 + -ENSG00000269210 2 39177482 39187482 - -ENSG00000269215 5 39105357 39115357 + -ENSG00000269216 HG329_PATCH 19269228 19279228 - -ENSG00000269223 20 62465272 62475272 - -ENSG00000269226 HG1441_PATCH 103321140 103331140 - -ENSG00000269230 HG1423_PATCH 37026475 37036475 + -ENSG00000269231 HG1443_HG1444_PATCH 135097975 135107975 - -ENSG00000269240 HG1436_HG1432_PATCH 49732013 49742013 + -ENSG00000269249 HG1433_PATCH 52555203 52565203 + -ENSG00000269257 HG1426_PATCH 77390659 77400659 - -ENSG00000269259 10 102882535 102892535 + -ENSG00000269261 HG1497_PATCH 154181220 154191220 - -ENSG00000269265 HG1433_PATCH 53165940 53175940 + -ENSG00000269267 5 60401761 60411761 - -ENSG00000269277 HG1479_PATCH 133787053 133797053 + -ENSG00000269278 HG122_PATCH 118426749 118436749 - -ENSG00000269279 1 116916717 116926717 - -ENSG00000269282 12 48759918 48769918 + -ENSG00000269283 HG971_PATCH 99648308 99658308 + -ENSG00000269285 HG1436_HG1432_PATCH 50000411 50010411 - -ENSG00000269291 Y 15418466 15428466 + -ENSG00000269295 9 71859641 71869641 - -ENSG00000269301 HG329_PATCH 19425744 19435744 - -ENSG00000269302 4 187102625 187112625 - -ENSG00000269305 9 4849259 4859259 - -ENSG00000269308 1 818042 828042 + -ENSG00000269309 HG1453_PATCH 140314660 140324660 - -ENSG00000269313 HG1436_HG1432_PATCH 49022241 49032241 + -ENSG00000269314 HG1146_PATCH 43945040 43955040 - -ENSG00000269315 HG1439_PATCH 100645811 100655811 + -ENSG00000269319 HG122_PATCH 118401916 118411916 + -ENSG00000269324 HG1502_PATCH 133317043 133327043 + -ENSG00000269326 HG1497_PATCH 153963988 153973988 - -ENSG00000269327 HG1443_HG1444_PATCH 134478824 134488824 + -ENSG00000269329 HG1497_PATCH 153533093 153543093 - -ENSG00000269334 HG1436_HG1432_PATCH 47853376 47863376 - -ENSG00000269335 HG1497_PATCH 153715814 153725814 + -ENSG00000269336 HG1497_PATCH 151999438 152009438 + -ENSG00000269337 9 70646588 70656588 + -ENSG00000269339 12 51619859 51629859 + -ENSG00000269342 HG1497_PATCH 152629058 152639058 - -ENSG00000269343 19 58341662 58351662 + -ENSG00000269358 1 224206370 224216370 - -ENSG00000269360 15 93749294 93759294 + -ENSG00000269363 2 232561620 232571620 - -ENSG00000269367 12 42624049 42634049 + -ENSG00000269375 14 101359264 101369264 + -ENSG00000269380 HG1424_PATCH 37545820 37555820 + -ENSG00000269381 HG122_PATCH 118262609 118272609 - -ENSG00000269382 HG122_PATCH 118443138 118453138 + -ENSG00000269383 2 100977006 100987006 - -ENSG00000269384 HG1433_PATCH 53155727 53165727 - -ENSG00000269389 HG1436_HG1432_PATCH 48929285 48939285 - -ENSG00000269390 HG1462_PATCH 114945818 114955818 - -ENSG00000269393 Y 28104888 28114888 - -ENSG00000269394 HG1146_PATCH 44077976 44087976 + -ENSG00000269395 HG1426_PATCH 77171655 77181655 + -ENSG00000269396 7 302917 312917 + -ENSG00000269402 17 30496884 30506884 - -ENSG00000269404 19 50922194 50932194 + -ENSG00000269405 HG1440_PATCH 101502071 101512071 + -ENSG00000269406 HG1257_PATCH 72453905 72463905 + -ENSG00000269407 20 23324065 23334065 - -ENSG00000269408 9 138141274 138151274 - -ENSG00000269411 HG1459_PATCH 150065007 150075007 + -ENSG00000269415 3 59947582 59957582 - -ENSG00000269417 2 85112344 85122344 - -ENSG00000269422 16 88894365 88904365 + -ENSG00000269430 21 45879813 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99637888 + -ENSG00000269790 HG1497_PATCH 152347755 152357755 + -ENSG00000269791 HG1436_HG1432_PATCH 48261308 48271308 - -ENSG00000269795 1 243388057 243398057 + -ENSG00000269797 HG1502_PATCH 132815704 132825704 + -ENSG00000269798 HG1497_PATCH 152815666 152825666 + -ENSG00000269801 HG1439_PATCH 100805517 100815517 + -ENSG00000269804 1 28527069 28537069 + -ENSG00000269805 HG1433_PATCH 52238667 52248667 + -ENSG00000269808 19 55738586 55748586 + -ENSG00000269810 15 100028577 100038577 - -ENSG00000269816 HG1433_PATCH 52958421 52968421 - -ENSG00000269820 HG1443_HG1444_PATCH 135027662 135037662 + -ENSG00000269823 HSCHR1_1_CTG31 153753785 153763785 - -ENSG00000269824 HG1436_HG1432_PATCH 47686191 47696191 - -ENSG00000269830 HG344_PATCH 6930710 6940710 + -ENSG00000269831 1 729136 739136 - -ENSG00000269832 14 50291992 50301992 + -ENSG00000269838 HG1453_PATCH 140770903 140780903 - -ENSG00000269840 HG1436_HG1432_PATCH 49495391 49505391 - -ENSG00000269846 20 35724187 35734187 + -ENSG00000269849 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46684594 - -ENSG00000260040 HG7_PATCH 142691710 142701710 - -ENSG00000260045 HG544_PATCH 17757913 17767913 + -ENSG00000260069 HG75_PATCH 34483132 34493132 - -ENSG00000260099 HG79_PATCH 136334921 136344921 + -ENSG00000260117 HG531_PATCH 115092796 115102796 + -ENSG00000260119 HG7_PATCH 142622169 142632169 - -ENSG00000260129 HG1032_PATCH 191010142 191020142 + -ENSG00000260130 HG19_PATCH 2093380 2103380 + -ENSG00000260150 HG905_PATCH 304637 314637 + -ENSG00000260155 HG1032_PATCH 190993902 191003902 + -ENSG00000260164 HG75_PATCH 34813232 34823232 - -ENSG00000260170 15 45968512 45978512 + -ENSG00000260178 HG185_PATCH 40247656 40257656 - -ENSG00000260181 HG79_PATCH 136226984 136236984 - -ENSG00000260189 HG104_HG975_PATCH 145162751 145172751 + -ENSG00000260195 HG7_PATCH 142632056 142642056 + -ENSG00000260199 HG75_PATCH 34512245 34522245 - -ENSG00000260220 HG998_1_PATCH 139163226 139173226 - -ENSG00000260225 HG1082_HG167_PATCH 140476963 140486963 + -ENSG00000260226 HG104_HG975_PATCH 145168388 145178388 + -ENSG00000260230 9 111882573 111892573 - -ENSG00000260238 1 156213054 156223054 + -ENSG00000260240 16 59761830 59771830 - -ENSG00000260245 HG185_PATCH 40013160 40023160 - -ENSG00000260259 16 89739028 89749028 - -ENSG00000260272 16 2570219 2580219 + -ENSG00000260283 HG185_PATCH 40131426 40141426 + -ENSG00000260286 6 24787549 24797549 - -ENSG00000260287 HG75_PATCH 34662129 34672129 + -ENSG00000260313 HG243_PATCH 145468520 145478520 - -ENSG00000260314 HG544_PATCH 17953161 17963161 + -ENSG00000260319 HG104_HG975_PATCH 145129202 145139202 + -ENSG00000260320 HG185_PATCH 40173149 40183149 - -ENSG00000260324 HG544_PATCH 17842867 17852867 + -ENSG00000260325 HG185_PATCH 40279604 40289604 + -ENSG00000260334 HG185_PATCH 39872221 39882221 + -ENSG00000260342 16 18789385 18799385 - -ENSG00000260355 HG14_PATCH 57541253 57551253 + -ENSG00000260362 16 9750742 9760742 - -ENSG00000260371 16 69358994 69368994 - -ENSG00000260374 HG745_PATCH 36668629 36678629 + -ENSG00000260376 HG1032_PATCH 191000255 191010255 + -ENSG00000260380 HG1032_PATCH 190884359 190894359 + -ENSG00000260383 HG243_PATCH 145316830 145326830 + -ENSG00000260384 HG989_PATCH 31907524 31917524 + -ENSG00000260415 12 52206636 52216636 + -ENSG00000260428 HG243_PATCH 145323384 145333384 + -ENSG00000260456 16 87326490 87336490 - -ENSG00000260458 HG987_PATCH 21607836 21617836 + -ENSG00000260463 HG104_HG975_PATCH 144804628 144814628 + -ENSG00000260485 HG104_HG975_PATCH 144888514 144898514 - -ENSG00000260489 HG79_PATCH 136281631 136291631 + -ENSG00000260501 HG79_PATCH 136226961 136236961 + -ENSG00000260502 HG79_PATCH 136346383 136356383 + -ENSG00000260508 HG75_PATCH 34917807 34927807 + -ENSG00000260513 HG736_PATCH 57177307 57187307 - -ENSG00000260533 HG104_HG975_PATCH 144905891 144915891 - -ENSG00000260537 16 70400163 70410163 + -ENSG00000260548 X 107955300 107965300 - -ENSG00000260557 HG7_PATCH 142701440 142711440 + -ENSG00000260587 HG186_PATCH 51421329 51431329 + -ENSG00000260596 HG1032_PATCH 191097000 191107000 + -ENSG00000260623 HG186_PATCH 51423298 51433298 - -ENSG00000260665 HG1032_PATCH 191003549 191013549 + -ENSG00000260692 HG79_PATCH 136217290 136227290 - -ENSG00000260696 HG7_PATCH 141662431 141672431 - -ENSG00000260703 HG185_PATCH 40121903 40131903 + -ENSG00000260716 HG243_PATCH 145473711 145483711 - -ENSG00000260717 HG75_PATCH 34540254 34550254 + -ENSG00000260736 HG7_PATCH 141941964 141951964 - -ENSG00000260753 HG185_PATCH 39971487 39981487 - -ENSG00000260770 HG185_PATCH 40180192 40190192 + -ENSG00000260789 HG998_2_PATCH 139267507 139277507 + -ENSG00000260825 HG745_PATCH 36471493 36481493 - -ENSG00000260836 15 83198783 83208783 - -ENSG00000260842 HG686_PATCH 95640576 95650576 + -ENSG00000260861 20 1522584 1532584 - -ENSG00000260869 16 30535548 30545548 - -ENSG00000260873 HSCHR16_2_CTG3_1 69348087 69358087 + -ENSG00000260903 20 30591190 30601190 + -ENSG00000260914 16 69354614 69364614 + -ENSG00000260916 15 55637437 55647437 - -ENSG00000260950 HG990_PATCH 264367 274367 + -ENSG00000260952 HG75_PATCH 34823192 34833192 + -ENSG00000260968 HG104_HG975_PATCH 144863090 144873090 - -ENSG00000260970 9 122286403 122296403 + -ENSG00000261023 HG946_PATCH 98642555 98652555 + -ENSG00000261042 HG243_PATCH 145416144 145426144 + -ENSG00000261052 16 30215329 30225329 + -ENSG00000261059 HG79_PATCH 136070664 136080664 - -ENSG00000261074 HG998_1_PATCH 139088179 139098179 - -ENSG00000261086 15 83231124 83241124 + -ENSG00000261109 HG104_HG975_PATCH 144987317 144997317 - -ENSG00000261115 7 141180180 141190180 + -ENSG00000261125 HG185_PATCH 39868892 39878892 - -ENSG00000261130 16 15609205 15619205 + -ENSG00000261132 HG243_PATCH 145369625 145379625 + -ENSG00000261149 HG946_PATCH 98465800 98475800 - -ENSG00000261150 HG104_HG975_PATCH 144930157 144940157 - -ENSG00000261155 HG536_PATCH 69614992 69624992 - -ENSG00000261163 HG185_PATCH 39948199 39958199 - -ENSG00000261180 HG7_PATCH 141617157 141627157 - -ENSG00000261190 16 52050264 52060264 - -ENSG00000261201 HG1032_PATCH 191013670 191023670 + -ENSG00000261210 16 19315722 19325722 + -ENSG00000261221 19 56128635 56138635 + -ENSG00000261230 HG243_PATCH 145438221 145448221 - -ENSG00000261236 HG243_PATCH 145307005 145317005 - -ENSG00000261246 HG104_HG975_PATCH 144779522 144789522 - -ENSG00000261247 15 30437770 30447770 + -ENSG00000261256 HG75_PATCH 34746462 34756462 - -ENSG00000261258 HG185_PATCH 39979465 39989465 + -ENSG00000261264 HG7_PATCH 142658776 142668776 - -ENSG00000261272 6 31003179 31013179 + -ENSG00000261283 HG115_PATCH 102069956 102079956 + -ENSG00000261297 HG243_PATCH 145457317 145467317 - -ENSG00000261300 HG75_PATCH 34866669 34876669 + -ENSG00000261301 HG7_PATCH 141619709 141629709 + -ENSG00000261306 HG79_PATCH 136196251 136206251 - -ENSG00000261309 HG987_PATCH 21323179 21333179 + -ENSG00000261321 HG990_PATCH 279769 289769 - -ENSG00000261323 HG7_PATCH 142813953 142823953 + -ENSG00000261345 HG506_HG507_HG1000_PATCH 61028553 61038553 - -ENSG00000261352 HG730_PATCH 20230561 20240561 + -ENSG00000261359 16 31214773 31224773 + -ENSG00000261361 HG79_PATCH 136236704 136246704 + -ENSG00000261371 HG183_PATCH 62389863 62399863 - -ENSG00000261378 HG185_PATCH 40271919 40281919 - -ENSG00000261380 HG104_HG975_PATCH 144796103 144806103 - -ENSG00000261383 HG281_PATCH 49993006 50003006 - -ENSG00000261413 HG745_PATCH 36556020 36566020 + -ENSG00000261443 HG186_PATCH 51701025 51711025 + -ENSG00000261456 HG905_PATCH 86953 96953 - -ENSG00000261473 HG7_PATCH 142493537 142503537 + -ENSG00000261493 HG79_PATCH 136271597 136281597 - -ENSG00000261508 HG75_PATCH 34928764 34938764 + -ENSG00000261509 16 33264716 33274716 + -ENSG00000261514 17 42016327 42026327 + -ENSG00000261516 HG104_HG975_PATCH 144777550 144787550 + -ENSG00000261530 HG706_PATCH 75600476 75610476 - -ENSG00000261539 HG243_PATCH 145400334 145410334 - -ENSG00000261567 16 85393055 85403055 + -ENSG00000261577 HG185_PATCH 39900856 39910856 - -ENSG00000261579 HG79_PATCH 136206440 136216440 - -ENSG00000261587 HG243_PATCH 145398131 145408131 - -ENSG00000261594 11 74954742 74964742 + -ENSG00000261603 3 46751073 46761073 - -ENSG00000261609 16 81424489 81434489 + -ENSG00000261631 HG185_PATCH 40004636 40014636 + -ENSG00000261652 15 55710910 55720910 + -ENSG00000261657 HG991_PATCH 66456619 66466619 + -ENSG00000261660 HG104_HG975_PATCH 145049553 145059553 - -ENSG00000261667 8 144164418 144174418 + -ENSG00000261674 HG745_PATCH 36341796 36351796 - -ENSG00000261677 HG544_PATCH 17621958 17631958 - -ENSG00000261678 HG243_PATCH 145377965 145387965 - -ENSG00000261686 HG7_PATCH 142776754 142786754 - -ENSG00000261694 HG243_PATCH 145448139 145458139 + -ENSG00000261698 HG243_PATCH 145361194 145371194 - -ENSG00000261701 16 72111145 72121145 + -ENSG00000261717 16 75436582 75446582 - -ENSG00000261721 HG104_HG975_PATCH 145075585 145085585 + -ENSG00000261739 15 23610281 23620281 + -ENSG00000261740 16 29444551 29454551 - -ENSG00000261755 HG1032_PATCH 190997180 191007180 + -ENSG00000261768 HG79_PATCH 136336630 136346630 - -ENSG00000261772 HG858_PATCH 228460 238460 + -ENSG00000261784 HG1032_PATCH 191007067 191017067 + -ENSG00000261787 8 67848736 67858736 - -ENSG00000261791 HG7_PATCH 141921088 141931088 + -ENSG00000261794 15 30906764 30916764 + -ENSG00000261796 3 128796418 128806418 - -ENSG00000261833 16 76669520 76679520 + -ENSG00000261843 HSCHR17_3_CTG4 75508296 75518296 + -ENSG00000261846 HSCHR3_1_CTG2_1 151486092 151496092 + -ENSG00000261852 HSCHR17_4_CTG4 39192918 39202918 - -ENSG00000261855 HG325_PATCH 50320263 50330263 - -ENSG00000261857 19 41283395 41293395 + -ENSG00000261860 HSCHR19LRC_PGF1_CTG1 55300255 55310255 + -ENSG00000261862 HSCHR17_4_CTG4 39172405 39182405 - -ENSG00000261869 HG325_PATCH 50325546 50335546 + -ENSG00000261870 HSCHR19LRC_COX2_CTG1 55006271 55016271 + -ENSG00000261871 HG325_PATCH 50323834 50333834 - -ENSG00000261880 HSCHR19LRC_PGF2_CTG1 55154120 55164120 + -ENSG00000261883 HG299_PATCH 118964256 118974256 + -ENSG00000261887 HG1063_PATCH 102614364 102624364 + -ENSG00000261893 HSCHR1_2_CTG31 155238063 155248063 - -ENSG00000261897 HG142_HG150_NOVEL_TEST 56020698 56030698 + -ENSG00000261899 HSCHR2_1_CTG1 36784311 36794311 + -ENSG00000261900 HG339_PATCH 97922491 97932491 + -ENSG00000261906 HSCHR19LRC_PGF1_CTG1 54885376 54895376 - -ENSG00000261910 HG414_PATCH 76926280 76936280 + -ENSG00000261911 HG1257_PATCH 73686494 73696494 - -ENSG00000261912 HSCHR19LRC_COX1_CTG1 55218870 55228870 + -ENSG00000261913 HG7_PATCH 142408166 142418166 + -ENSG00000261917 HSCHR19LRC_COX1_CTG1 54667074 54677074 - -ENSG00000261919 HG1257_PATCH 74254270 74264270 + -ENSG00000261920 HG1257_PATCH 74067561 74077561 + -ENSG00000261921 HG325_PATCH 50345222 50355222 - -ENSG00000261923 HG873_PATCH 14892350 14902350 + -ENSG00000261929 HSCHR19LRC_PGF2_CTG1 54833570 54843570 - -ENSG00000261930 HSCHR19LRC_LRC_T_CTG1 55314683 55324683 + -ENSG00000261931 HSCHR19LRC_PGF1_CTG1 54888605 54898605 - -ENSG00000261932 HSCHR5_1_CTG1 70078950 70088950 + -ENSG00000261934 5 140892546 140902546 + -ENSG00000261935 HSCHR19LRC_COX1_CTG1 54789626 54799626 - -ENSG00000261937 HSCHR19LRC_COX2_CTG1 54789506 54799506 - -ENSG00000261940 HG1257_PATCH 73135926 73145926 - -ENSG00000261941 HG414_PATCH 76814375 76824375 + -ENSG00000261946 HG348_PATCH 94732679 94742679 + -ENSG00000261949 19 49932075 49942075 + -ENSG00000261958 HG151_NOVEL_TEST 56468779 56478779 + -ENSG00000261961 HSCHR19LRC_LRC_I_CTG1 55512577 55522577 - -ENSG00000261964 HG729_PATCH 8635136 8645136 - -ENSG00000261967 HSCHR15_1_CTG4 28634174 28644174 + -ENSG00000261968 HSCHR17_4_CTG4 39244169 39254169 - -ENSG00000261972 HSCHR16_1_CTG3_1 55882484 55892484 - -ENSG00000261974 HG348_PATCH 94685787 94695787 - -ENSG00000261975 HSCHR19LRC_COX1_CTG1 55466628 55476628 - -ENSG00000261981 HG748_PATCH 77738304 77748304 + -ENSG00000261984 HSCHR12_2_CTG2 11080005 11090005 - -ENSG00000261986 HSCHR17_1_CTG4 39492344 39502344 - -ENSG00000261992 HSCHR1_1_CTG31 153784432 153794432 - -ENSG00000262003 17 814452 824452 + -ENSG00000262004 HSCHR19LRC_COX1_CTG1 55022837 55032837 + -ENSG00000262007 HSCHR19LRC_LRC_S_CTG1 55378033 55388033 + -ENSG00000262009 HSCHR19LRC_PGF2_CTG1 55154562 55164562 - -ENSG00000262015 HG325_PATCH 50314146 50324146 + -ENSG00000262018 HG1257_PATCH 73137067 73147067 + -ENSG00000262022 HSCHR19_2_CTG3 21905047 21915047 - -ENSG00000262023 HG418_PATCH 143728821 143738821 - -ENSG00000262024 HSCHR22_1_CTG1 42533863 42543863 - -ENSG00000262028 HG388_HG400_PATCH 111734779 111744779 - -ENSG00000262029 HG1257_PATCH 75224490 75234490 - -ENSG00000262030 HG1257_PATCH 73163165 73173165 + -ENSG00000262037 HSCHR19_1_CTG3 20990226 21000226 + -ENSG00000262039 17 47554350 47564350 + -ENSG00000262044 HSCHR19LRC_COX1_CTG1 54710615 54720615 - -ENSG00000262045 HSCHR17_1_CTG4 39523917 39533917 - -ENSG00000262046 HG883_PATCH 26655707 26665707 + -ENSG00000262053 HSCHR19LRC_PGF1_CTG1 54667080 54677080 - -ENSG00000262057 HSCHR5_1_CTG1 70169834 70179834 + -ENSG00000262062 HG883_PATCH 26684297 26694297 - -ENSG00000262063 HG1257_PATCH 73587482 73597482 + -ENSG00000262068 HSCHR17_4_CTG4 39154900 39164900 - -ENSG00000262069 HSCHR19LRC_COX2_CTG1 55177793 55187793 - -ENSG00000262073 HG1257_PATCH 73223955 73233955 - -ENSG00000262077 HG1257_PATCH 73048151 73058151 - -ENSG00000262087 HSCHR19LRC_PGF1_CTG1 54710801 54720801 - -ENSG00000262088 HG299_PATCH 118876422 118886422 - -ENSG00000262092 HSCHR19LRC_COX2_CTG1 55262010 55272010 + -ENSG00000262093 HSCHR10_1_CTG5 45672910 45682910 - -ENSG00000262102 HSCHR18_2_CTG2 65233268 65243268 - -ENSG00000262103 HG1133_PATCH 11080005 11090005 - -ENSG00000262110 HSCHR19LRC_LRC_J_CTG1 55570752 55580752 - -ENSG00000262111 HSCHR12_2_CTG2 11307505 11317505 - -ENSG00000262121 HSCHR17_4_CTG4 39263159 39273159 + -ENSG00000262122 HG1257_PATCH 72411191 72421191 + -ENSG00000262124 HG729_PATCH 8864588 8874588 - -ENSG00000262128 HG1257_PATCH 73694788 73704788 + -ENSG00000262131 HSCHR19LRC_LRC_S_CTG1 55514663 55524663 - -ENSG00000262134 HG7_PATCH 142554261 142564261 + -ENSG00000262138 HSCHR19LRC_COX1_CTG1 54659444 54669444 + -ENSG00000262139 HSCHR12_3_CTG2_1 101522419 101532419 + -ENSG00000262143 HSCHR19LRC_PGF1_CTG1 55059487 55069487 - -ENSG00000262145 HSCHR12_1_CTG2_1 58351052 58361052 + -ENSG00000262149 HG729_PATCH 8575996 8585996 - -ENSG00000262150 HG418_PATCH 143764085 143774085 + -ENSG00000262156 HSCHR22_1_CTG2 39358842 39368842 + -ENSG00000262163 HSCHR19LRC_LRC_S_CTG1 55545301 55555301 - -ENSG00000262164 HSCHR17_4_CTG4 39104796 39114796 - -ENSG00000262168 HSCHR19LRC_PGF1_CTG1 54648899 54658899 - -ENSG00000262169 HSCHR5_1_CTG1 68888381 68898381 + -ENSG00000262170 HSCHR5_1_CTG1 68960424 68970424 - -ENSG00000262174 HSCHR19LRC_COX1_CTG1 54648898 54658898 - -ENSG00000262175 HSCHR19LRC_LRC_J_CTG1 55537551 55547551 + -ENSG00000262176 HG388_HG400_PATCH 111754799 111764799 + -ENSG00000262180 1 186370587 186380587 + -ENSG00000262182 HSCHR19LRC_COX2_CTG1 55087149 55097149 + -ENSG00000262184 HG1257_PATCH 73534861 73544861 + -ENSG00000262186 HG883_PATCH 26711775 26721775 - -ENSG00000262191 HG151_NOVEL_TEST 56479859 56489859 + -ENSG00000262199 HG745_PATCH 36678680 36688680 - -ENSG00000262207 HSCHR19LRC_LRC_T_CTG1 55481594 55491594 - -ENSG00000262208 HG325_PATCH 50327322 50337322 - -ENSG00000262209 5 140892546 140902546 + -ENSG00000262216 HSCHR19LRC_PGF1_CTG1 54944292 54954292 + -ENSG00000262217 HSCHR12_3_CTG2_1 101545447 101555447 - -ENSG00000262218 HSCHR17_5_CTG4 39437756 39447756 - -ENSG00000262221 HSCHR17_6_CTG4 39421579 39431579 + -ENSG00000262225 HSCHR19LRC_LRC_T_CTG1 55535173 55545173 + -ENSG00000262234 HG1063_PATCH 102538051 102548051 + -ENSG00000262236 HSCHR19LRC_PGF1_CTG1 54870294 54880294 + -ENSG00000262239 HSCHR19LRC_COX1_CTG1 55435990 55445990 - -ENSG00000262243 HSCHR16_1_CTG3_1 55839160 55849160 - -ENSG00000262244 HSCHR19LRC_PGF2_CTG1 55275390 55285390 - -ENSG00000262245 HG299_PATCH 118852001 118862001 + -ENSG00000262246 16 4394543 4404543 - -ENSG00000262249 HG730_PATCH 20720870 20730870 - -ENSG00000262258 HG348_PATCH 94760761 94770761 + -ENSG00000262260 HSCHR19LRC_PGF2_CTG1 55242189 55252189 + -ENSG00000262261 HSCHR5_1_CTG1 69468290 69478290 - -ENSG00000262263 HG1257_PATCH 75451295 75461295 - -ENSG00000262264 HG414_PATCH 76753017 76763017 + -ENSG00000262273 HG311_PATCH 118368686 118378686 + -ENSG00000262275 HG747_PATCH 66253142 66263142 - -ENSG00000262277 HG388_HG400_PATCH 111893307 111903307 + -ENSG00000262279 HG306_PATCH 113146109 113156109 + -ENSG00000262284 HSCHR19LRC_COX2_CTG1 54833416 54843416 - -ENSG00000262287 HSCHR19LRC_LRC_I_CTG1 55596794 55606794 + -ENSG00000262289 HSCHR19LRC_LRC_T_CTG1 55248260 55258260 + -ENSG00000262304 17 3458738 3468738 - -ENSG00000262305 HSCHR5_1_CTG1 68994901 69004901 - -ENSG00000262306 HG1257_PATCH 75266622 75276622 - -ENSG00000262315 HG142_HG150_NOVEL_TEST 56152270 56162270 + -ENSG00000262317 HSCHR19LRC_COX1_CTG1 54945775 54955775 + -ENSG00000262318 HG883_PATCH 26681310 26691310 - -ENSG00000262320 HSCHR19LRC_PGF1_CTG1 54710801 54720801 - -ENSG00000262321 HG1257_PATCH 75752242 75762242 + 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68578550 - -ENSG00000262418 HSCHR1_3_CTG31 198737899 198747899 + -ENSG00000262421 HG1257_PATCH 72414442 72424442 - -ENSG00000262430 HSCHR19LRC_PGF2_CTG1 55328969 55338969 + -ENSG00000262439 HSCHR19LRC_LRC_J_CTG1 55354167 55364167 + -ENSG00000262446 HSCHR1_2_CTG31 155209647 155219647 - -ENSG00000262447 HG883_PATCH 26674035 26684035 + -ENSG00000262448 HSCHR10_1_CTG5 45956098 45966098 - -ENSG00000262452 HSCHR2_1_CTG12 169734933 169744933 - -ENSG00000262457 HSCHR19LRC_LRC_S_CTG1 55424473 55434473 - -ENSG00000262459 HG1257_PATCH 73330850 73340850 + -ENSG00000262462 HSCHR19LRC_PGF1_CTG1 55034846 55044846 + -ENSG00000262467 HSCHR19LRC_LRC_S_CTG1 55598880 55608880 + -ENSG00000262472 HG747_PATCH 66042958 66052958 + -ENSG00000262473 HSCHR21_4_CTG1_1 34875796 34885796 - -ENSG00000262484 19 39389620 39399620 - -ENSG00000262485 HG325_PATCH 50352339 50362339 - -ENSG00000262489 HG256_PATCH 14290297 14300297 - -ENSG00000262494 HSCHR19LRC_PGF2_CTG1 55031822 55041822 + -ENSG00000262499 HG1257_PATCH 73289547 73299547 - -ENSG00000262505 HSCHR4_1_CTG12 156740881 156750881 - -ENSG00000262506 HG388_HG400_PATCH 111955873 111965873 + -ENSG00000262509 HG339_PATCH 97941459 97951459 - -ENSG00000262511 HSCHR5_1_CTG1 68710869 68720869 + -ENSG00000262512 HSCHR17_5_CTG4 39406837 39416837 + -ENSG00000262515 HSCHR4_2_CTG9 62958622 62968622 + -ENSG00000262520 HSCHR17_4_CTG4 39248173 39258173 - -ENSG00000262523 HG348_PATCH 94865811 94875811 + -ENSG00000262525 HSCHR12_2_CTG2 11203964 11213964 - -ENSG00000262532 HG1257_PATCH 72823582 72833582 + -ENSG00000262542 HSCHR17_6_CTG4 39436708 39446708 - -ENSG00000262543 6 138704212 138714212 + -ENSG00000262552 HSCHR10_1_CTG5 45957624 45967624 + -ENSG00000262556 HSCHR19LRC_PGF1_CTG1 55217086 55227086 + -ENSG00000262562 HSCHR19_1_CTG3 21139919 21149919 + -ENSG00000262563 HSCHR2_1_CTG12 169781632 169791632 + -ENSG00000262564 HG311_PATCH 118413302 118423302 - -ENSG00000262565 HG1082_HG167_PATCH 140582630 140592630 + -ENSG00000262569 HG1257_PATCH 75451556 75461556 + -ENSG00000262572 HG748_PATCH 77778214 77788214 - -ENSG00000262573 HSCHR17_6_CTG4 39383883 39393883 + -ENSG00000262576 5 140892546 140902546 + -ENSG00000262577 HG388_HG400_PATCH 111647008 111657008 - -ENSG00000262578 HG730_PATCH 20644240 20654240 - -ENSG00000262582 HSCHR19LRC_COX1_CTG1 54978544 54988544 + -ENSG00000262589 HG1257_PATCH 72758192 72768192 - -ENSG00000262594 HSCHR17_6_CTG4 39401246 39411246 + -ENSG00000262595 HG75_PATCH 34936936 34946936 + -ENSG00000262596 HSCHR19LRC_PGF2_CTG1 54991449 55001449 + -ENSG00000262599 HSCHR7_1_CTG6 141346528 141356528 - -ENSG00000262600 HG388_HG400_PATCH 111797595 111807595 + -ENSG00000262601 16 85218969 85228969 + -ENSG00000262602 HSCHR19LRC_PGF1_CTG1 54895590 54905590 + -ENSG00000262605 HSCHR5_1_CTG1 68525954 68535954 + -ENSG00000262607 HSCHR12_1_CTG1 232475 242475 + -ENSG00000262610 HG1079_PATCH 54800571 54810571 - -ENSG00000262611 HG142_HG150_NOVEL_TEST 56047529 56057529 - -ENSG00000262612 HSCHR12_2_CTG2 11233907 11243907 - 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HSCHR19LRC_LRC_I_CTG1 55421945 55431945 + -ENSG00000262683 HG1091_PATCH 59727133 59737133 - -ENSG00000262684 HG185_PATCH 40122691 40132691 - -ENSG00000262690 HSCHR19LRC_LRC_I_CTG1 55422387 55432387 - -ENSG00000262694 HG1257_PATCH 72895355 72905355 - -ENSG00000262705 HG998_1_PATCH 139143051 139153051 + -ENSG00000262716 HSCHR19LRC_COX1_CTG1 54697413 54707413 + -ENSG00000262717 HSCHR19LRC_PGF1_CTG1 55346310 55356310 + -ENSG00000262722 HG1211_PATCH 47029422 47039422 - -ENSG00000262727 HSCHR19LRC_COX1_CTG1 55072463 55082463 + -ENSG00000262729 HSCHR19LRC_PGF2_CTG1 55244752 55254752 - -ENSG00000262731 HSCHR17_4_CTG4 39200879 39210879 - -ENSG00000262736 HSCHR19LRC_COX1_CTG1 55345800 55355800 - -ENSG00000262739 HG7_PATCH 142535452 142545452 + -ENSG00000262740 HG388_HG400_PATCH 111928521 111938521 - -ENSG00000262742 HSCHR5_1_CTG2 94030805 94040805 - -ENSG00000262744 HG1257_PATCH 75353878 75363878 + -ENSG00000262747 HG747_PATCH 66253272 66263272 + -ENSG00000262748 HSCHR17_1_CTG4 39531224 39541224 - -ENSG00000262749 HSCHR17_5_CTG4 39389705 39399705 + -ENSG00000262754 HSCHR19LRC_PGF1_CTG1 55021331 55031331 + -ENSG00000262755 HG142_HG150_NOVEL_TEST 56086721 56096721 + -ENSG00000262762 HG748_PATCH 77784065 77794065 + -ENSG00000262763 HSCHR19LRC_PGF1_CTG1 55169775 55179775 + -ENSG00000262764 HG388_HG400_PATCH 111587632 111597632 - -ENSG00000262771 HSCHR7_1_CTG6 141456269 141466269 + -ENSG00000262773 HSCHR2_1_CTG12 169721567 169731567 + -ENSG00000262782 HSCHR18_2_CTG2_1 77142822 77152822 + -ENSG00000262784 HG142_HG150_NOVEL_TEST 56044146 56054146 + -ENSG00000262785 HSCHR1_2_CTG31 155265448 155275448 - -ENSG00000262788 HSCHR16_2_CTG3_1 69202911 69212911 + -ENSG00000262795 HSCHR21_4_CTG1_1 34809828 34819828 + -ENSG00000262796 HG142_HG150_NOVEL_TEST 56128764 56138764 + -ENSG00000262797 HSCHR19LRC_PGF1_CTG1 55435374 55445374 - -ENSG00000262800 HSCHR19LRC_COX1_CTG1 54807385 54817385 - -ENSG00000262806 HSCHR19LRC_COX2_CTG1 55064587 55074587 + -ENSG00000262808 HSCHR17_4_CTG4 39186936 39196936 - -ENSG00000262811 HSCHR19LRC_LRC_S_CTG1 55512100 55522100 + -ENSG00000262812 HG299_PATCH 118906023 118916023 - -ENSG00000262814 17 79674556 79684556 + -ENSG00000262826 HSCHR1_1_CTG31 153763786 153773786 + -ENSG00000262827 HSCHR19LRC_PGF1_CTG1 55323724 55333724 + -ENSG00000262832 HSCHR19LRC_LRC_T_CTG1 55360324 55370324 + -ENSG00000262835 HSCHR19LRC_LRC_J_CTG1 55624331 55634331 + -ENSG00000262840 HG280_PATCH 57317727 57327727 - -ENSG00000262841 HSCHR5_1_CTG1 68573234 68583234 + -ENSG00000262843 HSCHR19LRC_PGF2_CTG1 54807736 54817736 - -ENSG00000262845 HSCHR17_4_CTG4 39124261 39134261 - -ENSG00000262847 HG1257_PATCH 75532465 75542465 + -ENSG00000262851 HG142_HG150_NOVEL_TEST 55989490 55999490 - -ENSG00000262852 HG388_HG400_PATCH 111784816 111794816 + -ENSG00000262858 HG747_PATCH 65979269 65989269 + -ENSG00000262860 HSCHR19_1_CTG3_1 34720227 34730227 + -ENSG00000262862 HSCHR17_4_CTG4 39205722 39215722 - -ENSG00000262866 HG883_PATCH 26645355 26655355 - -ENSG00000262867 HSCHR19LRC_LRC_J_CTG1 55540114 55550114 - -ENSG00000262868 HSCHR19LRC_PGF1_CTG1 54697580 54707580 + -ENSG00000262872 HSCHR15_1_CTG4 28769339 28779339 - -ENSG00000262874 19 51881543 51891543 - -ENSG00000262875 HG414_PATCH 76835538 76845538 + -ENSG00000262878 HSCHR19LRC_PGF1_CTG1 55519591 55529591 + -ENSG00000262886 HSCHR19LRC_COX1_CTG1 55433427 55443427 + -ENSG00000262887 HSCHR19LRC_COX1_CTG1 54887491 54897491 - -ENSG00000262889 HG1133_PATCH 11206134 11216134 - -ENSG00000262895 HG1257_PATCH 74875953 74885953 + -ENSG00000262896 HSCHR17_6_CTG4 39395535 39405535 + -ENSG00000262897 HSCHR19LRC_COX2_CTG1 55041367 55051367 + -ENSG00000262900 HSCHR19LRC_COX1_CTG1 55036352 55046352 + -ENSG00000262907 HSCHR2_2_CTG12 149889353 149899353 + -ENSG00000262908 HG1133_PATCH 11271895 11281895 - -ENSG00000262909 HG183_PATCH 62612725 62622725 - -ENSG00000262911 HSCHR21_4_CTG1_1 34860072 34870072 - -ENSG00000262917 HG183_PATCH 62545145 62555145 - -ENSG00000262918 HSCHR19_3_CTG3 22508185 22518185 + 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8762287 - -ENSG00000263001 HG1257_PATCH 74225649 74235649 + -ENSG00000263002 19 44663156 44673156 + -ENSG00000263005 HG325_PATCH 50357220 50367220 - -ENSG00000263007 HG388_HG400_PATCH 111769346 111779346 - -ENSG00000263008 HG1257_PATCH 74497134 74507134 - -ENSG00000263012 HSCHR17_1_CTG4 39509746 39519746 - -ENSG00000263014 HSCHR1_3_CTG31 198493959 198503959 - -ENSG00000263020 6 31641323 31651323 + -ENSG00000263021 HSCHR19LRC_PGF2_CTG1 54744295 54754295 - -ENSG00000263022 HSCHR17_1_CTG4 39574330 39584330 - -ENSG00000263024 HG1257_PATCH 73154163 73164163 - -ENSG00000263026 HSCHR19LRC_COX2_CTG1 55087604 55097604 - -ENSG00000263027 HSCHR19LRC_PGF1_CTG1 55217545 55227545 + -ENSG00000263028 HSCHR12_2_CTG2 11164218 11174218 - -ENSG00000263030 HSCHR19LRC_COX1_CTG1 54890426 54900426 - -ENSG00000263031 HG1063_PATCH 102412037 102422037 - -ENSG00000263032 HG388_HG400_PATCH 111935113 111945113 + -ENSG00000263040 HG1133_PATCH 10988448 10998448 - -ENSG00000263042 HSCHR7_1_CTG6 141437079 141447079 + 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HSCHR19LRC_COX1_CTG1 55345358 55355358 + -ENSG00000263101 HSCHR17_4_CTG4 39139809 39149809 - -ENSG00000263108 HSCHR19LRC_COX1_CTG1 55103687 55113687 + -ENSG00000263109 HSCHR19LRC_COX1_CTG1 54872130 54882130 + -ENSG00000263136 16 29831438 29841438 + -ENSG00000263138 HSCHR15_1_CTG8 66177417 66187417 - -ENSG00000263140 HSCHR21_3_CTG1_1 34171279 34181279 + -ENSG00000263141 HSCHR21_3_CTG1_1 34096210 34106210 - -ENSG00000263148 HG1497_PATCH 152751401 152761401 + -ENSG00000263151 HG1257_PATCH 72991313 73001313 - -ENSG00000263155 15 57977562 57987562 + -ENSG00000263156 HG325_PATCH 50296787 50306787 + -ENSG00000263160 HSCHR21_4_CTG1_1 34811442 34821442 - -ENSG00000263162 HSCHR15_1_CTG4 28346186 28356186 - -ENSG00000263163 HSCHR1_1_CTG31 153769864 153779864 + -ENSG00000263166 HSCHR19LRC_COX1_CTG1 54653835 54663835 - -ENSG00000263168 HSCHR19LRC_LRC_J_CTG1 55449924 55459924 - -ENSG00000263175 HSCHR19LRC_PGF2_CTG1 55024167 55034167 + -ENSG00000263184 HSCHR19LRC_PGF1_CTG1 55300469 55310469 + 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54721505 + -ENSG00000263334 HG1257_PATCH 74988257 74998257 - -ENSG00000263341 HSCHR17_1_CTG4 39461169 39471169 - -ENSG00000263344 HG1257_PATCH 73662058 73672058 + -ENSG00000263353 HG1292_PATCH 121433153 121443153 + -ENSG00000263376 HG1287_PATCH 150469880 150479880 - -ENSG00000263417 18 68287755 68297755 - -ENSG00000263440 HG871_PATCH 5425290 5435290 - -ENSG00000263461 HG1287_PATCH 146524937 146534937 - -ENSG00000263464 HG1287_PATCH 149159083 149169083 - -ENSG00000263480 HG1211_PATCH 47087510 47097510 + -ENSG00000263513 HG1287_PATCH 144631706 144641706 - -ENSG00000263521 HG1287_PATCH 150573826 150583826 + -ENSG00000263528 HG1293_PATCH 206560450 206570450 + -ENSG00000263560 HG1292_PATCH 121445774 121455774 - -ENSG00000263563 17 21731742 21741742 + -ENSG00000263588 18 19678741 19688741 + -ENSG00000263620 17 8044134 8054134 - -ENSG00000263639 HG1211_PATCH 46518753 46528753 - -ENSG00000263687 HG1293_PATCH 206239817 206249817 - -ENSG00000263699 HG1304_PATCH 112420335 112430335 - 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46300876 46310876 - -ENSG00000264325 HG1322_PATCH 29769948 29779948 + -ENSG00000264337 HG1287_PATCH 146357063 146367063 + -ENSG00000264343 HG1287_PATCH 146828681 146838681 - -ENSG00000264364 17 56172897 56182897 + -ENSG00000264369 HSCHR3_1_CTG1 11838768 11848768 - -ENSG00000264416 HG1287_PATCH 145799107 145809107 + -ENSG00000264424 17 10336607 10346607 - -ENSG00000264440 HG1304_PATCH 112423993 112433993 + -ENSG00000264472 18 66557022 66567022 - -ENSG00000264499 HG1287_PATCH 148595681 148605681 + -ENSG00000264509 HG1308_PATCH 130027929 130037929 + -ENSG00000264522 HG1287_PATCH 150616747 150626747 - -ENSG00000264524 HG1287_PATCH 150605069 150615069 - -ENSG00000264528 HG1304_PATCH 112381980 112391980 - -ENSG00000264547 HG883_PATCH 26897031 26907031 - -ENSG00000264561 HG1211_PATCH 47987302 47997302 - -ENSG00000264606 HG1293_PATCH 206062825 206072825 - -ENSG00000264654 HG1287_PATCH 150951476 150961476 + -ENSG00000264668 8 144358573 144368573 + -ENSG00000264708 HG1287_PATCH 149719430 149729430 + -ENSG00000264717 HG1211_PATCH 48337753 48347753 + -ENSG00000264719 HG1287_PATCH 150560875 150570875 - -ENSG00000264751 HG1322_PATCH 29798162 29808162 + -ENSG00000264776 HG1287_PATCH 148679754 148689754 + -ENSG00000264806 HG1287_PATCH 146528920 146538920 + -ENSG00000264820 HG1292_PATCH 121700269 121710269 - -ENSG00000264832 HG1211_PATCH 47496237 47506237 + -ENSG00000264842 HG1211_PATCH 46311042 46321042 - -ENSG00000264863 HG1287_PATCH 145902353 145912353 + -ENSG00000264872 HG1308_PATCH 130146133 130156133 + -ENSG00000264883 HG1211_PATCH 47972667 47982667 - -ENSG00000264980 HG1287_PATCH 147982177 147992177 + -ENSG00000264983 HG1287_PATCH 150154445 150164445 + -ENSG00000264992 HG1287_PATCH 149569542 149579542 - -ENSG00000265027 HG1293_PATCH 206163253 206173253 - -ENSG00000265096 17 77005291 77015291 - -ENSG00000265107 HG1287_PATCH 148433603 148443603 - -ENSG00000265111 HG1287_PATCH 146347400 146357400 - -ENSG00000265118 17 29622231 29632231 - -ENSG00000265133 HG1287_PATCH 150489686 150499686 - -ENSG00000265184 HG1293_PATCH 206712754 206722754 + -ENSG00000265190 HG1211_PATCH 47953447 47963447 - -ENSG00000265203 HG1211_PATCH 47853323 47863323 + -ENSG00000265228 HG1287_PATCH 151039610 151049610 + -ENSG00000265231 HG871_PATCH 5019587 5029587 - -ENSG00000265232 HG1287_PATCH 144581970 144591970 - -ENSG00000265241 HG1287_PATCH 146597983 146607983 - -ENSG00000265277 HG1287_PATCH 148323781 148333781 - -ENSG00000265303 17 57292587 57302587 + -ENSG00000265307 HG1287_PATCH 150579733 150589733 - -ENSG00000265346 HG1287_PATCH 150896790 150906790 - -ENSG00000265352 18 69436792 69446792 - -ENSG00000265354 HG1211_PATCH 46484295 46494295 + -ENSG00000265385 HG962_PATCH 70856135 70866135 - -ENSG00000265434 HG1322_PATCH 29909270 29919270 + -ENSG00000265476 HG1293_PATCH 206544677 206554677 - -ENSG00000265491 HG1287_PATCH 146422834 146432834 - -ENSG00000265531 HG1287_PATCH 144569993 144579993 + -ENSG00000265551 HG1211_PATCH 46288409 46298409 + -ENSG00000265570 HG1287_PATCH 150586906 150596906 + -ENSG00000265590 21 33941133 33951133 - -ENSG00000265594 HG1308_PATCH 130026375 130036375 - -ENSG00000265608 HG871_PATCH 5416884 5426884 + -ENSG00000265629 2 14790933 14800933 + -ENSG00000265681 18 47004858 47014858 - -ENSG00000265685 HG871_PATCH 5149878 5159878 + -ENSG00000265763 HG1211_PATCH 47850944 47860944 - -ENSG00000265808 HG1292_PATCH 120688575 120698575 - -ENSG00000265817 8 95434175 95444175 - -ENSG00000265823 HG1293_PATCH 206645203 206655203 - -ENSG00000265832 HG1287_PATCH 146587765 146597765 - -ENSG00000265880 HG962_PATCH 70914929 70924929 + -ENSG00000265944 18 6590652 6600652 + -ENSG00000265970 HG1287_PATCH 146693883 146703883 - -ENSG00000265972 HG1287_PATCH 146668960 146678960 - -ENSG00000266028 HG1293_PATCH 206527996 206537996 + -ENSG00000266054 HG1287_PATCH 146535368 146545368 + -ENSG00000266074 HG271_PATCH 79440126 79450126 + -ENSG00000266086 17 56056399 56066399 - -ENSG00000266094 HG1293_PATCH 206651273 206661273 + -ENSG00000266095 HG1287_PATCH 148312631 148322631 + -ENSG00000266134 HG1304_PATCH 112392172 112402172 + -ENSG00000266157 HG962_PATCH 70920000 70930000 + -ENSG00000266159 HG1308_PATCH 130322302 130332302 - -ENSG00000266170 HG1211_PATCH 46946547 46956547 - -ENSG00000266173 17 61770225 61780225 - -ENSG00000266177 HG1287_PATCH 150967331 150977331 + -ENSG00000266198 HG1287_PATCH 147831521 147841521 - -ENSG00000266202 17 26115832 26125832 - -ENSG00000266208 17 38520945 38530945 + -ENSG00000266225 HG1287_PATCH 150538039 150548039 + -ENSG00000266249 HG1287_PATCH 146425703 146435703 + -ENSG00000266258 18 68019695 68029695 + -ENSG00000266265 HG1308_PATCH 130384889 130394889 - -ENSG00000266286 HSCHR17_4_CTG4 39241794 39251794 + -ENSG00000266292 HG1308_PATCH 130008571 130018571 + -ENSG00000266332 HG1287_PATCH 150478933 150488933 + -ENSG00000266334 HG1287_PATCH 150941819 150951819 - -ENSG00000266338 HG1287_PATCH 145097801 145107801 - -ENSG00000266359 HG871_PATCH 5261139 5271139 + -ENSG00000266412 HG1211_PATCH 46490539 46500539 - -ENSG00000266472 HG1287_PATCH 150994799 151004799 + -ENSG00000266524 HG1211_PATCH 47808995 47818995 + -ENSG00000266562 HG1287_PATCH 151159971 151169971 + -ENSG00000266592 HG871_PATCH 5025475 5035475 + -ENSG00000266607 HG962_PATCH 71098964 71108964 + -ENSG00000266614 18 73972069 73982069 + -ENSG00000266641 HG1293_PATCH 206797844 206807844 + -ENSG00000266662 HG271_PATCH 79510880 79520880 + -ENSG00000266714 17 73607014 73617014 + -ENSG00000266733 17 28890511 28900511 + -ENSG00000266741 HG1287_PATCH 146665263 146675263 + -ENSG00000266748 HG1287_PATCH 147862674 147872674 - -ENSG00000266764 HG1287_PATCH 150973508 150983508 + -ENSG00000266766 HG1292_PATCH 120467737 120477737 - -ENSG00000266779 HG1308_PATCH 130136082 130146082 - -ENSG00000266796 HG1322_PATCH 29852237 29862237 + -ENSG00000266949 1 248892716 248902716 - -ENSG00000266953 19 34900269 34910269 + -ENSG00000266956 17 34317306 34327306 + -ENSG00000266958 19 45720191 45730191 + -ENSG00000266964 19 35633954 35643954 + -ENSG00000266967 17 41092563 41102563 - -ENSG00000266996 18 44532731 44542731 - -ENSG00000267001 19 2707767 2717767 - -ENSG00000267041 19 37224387 37234387 - -ENSG00000267060 17 41110121 41120121 - -ENSG00000267106 19 9745538 9755538 + -ENSG00000267114 19 45443301 45453301 - -ENSG00000267140 18 33013835 33023835 - -ENSG00000267157 19 5774016 5784016 - -ENSG00000267168 17 74734604 74744604 + -ENSG00000267173 19 44823848 44833848 - -ENSG00000267179 19 12090105 12100105 + -ENSG00000267206 9 139628463 139638463 - -ENSG00000267229 HG388_HG400_PATCH 111647010 111657010 - -ENSG00000267260 19 37267980 37277980 + -ENSG00000267261 17 40261692 40271692 - -ENSG00000267270 18 77929616 77939616 + -ENSG00000267281 12 53890475 53900475 - -ENSG00000267318 17 58050462 58060462 + -ENSG00000267335 19 49516210 49526210 - -ENSG00000267360 19 37573921 37583921 - -ENSG00000267368 7 102267472 102277472 - -ENSG00000267467 19 45452820 45462820 + -ENSG00000267483 HG748_PATCH 77075427 77085427 - -ENSG00000267496 17 41995326 42005326 + -ENSG00000267508 19 44876459 44886459 - -ENSG00000267531 19 55856561 55866561 + -ENSG00000267534 19 10324520 10334520 - -ENSG00000267556 HG883_PATCH 26723305 26733305 + -ENSG00000267561 1 87634884 87644884 + -ENSG00000267596 17 34314618 34324618 - -ENSG00000267618 17 33328368 33338368 - -ENSG00000267619 HG299_PATCH 118896164 118906164 + -ENSG00000267631 19 49528867 49538867 - -ENSG00000267635 HSCHR17_5_CTG4 39422134 39432134 + -ENSG00000267673 19 10410721 10420721 - -ENSG00000267680 19 44612479 44622479 + -ENSG00000267697 7 135602022 135612022 - -ENSG00000267710 19 56813464 56823464 + -ENSG00000267721 HG883_PATCH 26690705 26700705 + -ENSG00000267728 HSCHR17_5_CTG4 39412558 39422558 + -ENSG00000267740 19 5857626 5867626 - -ENSG00000267748 19 38795550 38805550 + -ENSG00000267757 19 46146098 46156098 + -ENSG00000267772 17 58663984 58673984 + -ENSG00000267795 16 4846282 4856282 + -ENSG00000267796 19 36245420 36255420 + -ENSG00000267802 14 52426014 52436014 - -ENSG00000267806 HG1502_PATCH 132892889 132902889 - -ENSG00000267807 HG271_PATCH 79473789 79483789 - -ENSG00000267812 21 37260353 37270353 - -ENSG00000267816 HG1459_PATCH 148548712 148558712 - -ENSG00000267819 12 131782763 131792763 + -ENSG00000267823 HG1436_HG1432_PATCH 48742847 48752847 - -ENSG00000267824 16 20500981 20510981 + -ENSG00000267825 HG1497_PATCH 152141952 152151952 + -ENSG00000267829 HG1436_HG1432_PATCH 48810785 48820785 - -ENSG00000267840 HSCHR6_MHC_SSTO 31474925 31484925 + -ENSG00000267841 HG1436_HG1432_PATCH 48653707 48663707 + -ENSG00000267843 HG1436_HG1432_PATCH 48464592 48474592 + -ENSG00000267845 9 139209089 139219089 - -ENSG00000267846 HG1287_PATCH 148836103 148846103 - -ENSG00000267848 20 62585495 62595495 + -ENSG00000267849 6 44390472 44400472 - -ENSG00000267854 HSCHR19LRC_PGF1_CTG1 55247769 55257769 + -ENSG00000267855 19 8366168 8376168 - -ENSG00000267857 21 46510728 46520728 - -ENSG00000267864 HG1433_PATCH 52429896 52439896 - -ENSG00000267867 HG122_PATCH 118528753 118538753 + -ENSG00000267873 12 52709790 52719790 + -ENSG00000267876 HG329_PATCH 19126089 19136089 - -ENSG00000267878 HG1436_HG1432_PATCH 48762581 48772581 - -ENSG00000267880 19 51367552 51377552 - -ENSG00000267881 19 42265190 42275190 + -ENSG00000267882 20 45949467 45959467 + -ENSG00000267883 21 47173565 47183565 - -ENSG00000267884 1 166016679 166026679 - -ENSG00000267885 1 33439642 33449642 + -ENSG00000267889 2 203104435 203114435 + -ENSG00000267891 HG1438_PATCH 72225562 72235562 + -ENSG00000267893 17 70036872 70046872 + -ENSG00000267894 HG27_PATCH 26626518 26636518 - -ENSG00000267900 HG1462_PATCH 114544026 114554026 + -ENSG00000267901 14 71673031 71683031 - -ENSG00000267906 7 16829246 16839246 + -ENSG00000267908 19 56758863 56768863 + -ENSG00000267909 14 70028216 70038216 - -ENSG00000267910 HG122_PATCH 118397539 118407539 + -ENSG00000267912 HG1436_HG1432_PATCH 48550826 48560826 + -ENSG00000267913 21 45577818 45587818 - -ENSG00000267915 HG1497_PATCH 152960638 152970638 - -ENSG00000267918 14 101285066 101295066 - -ENSG00000267923 HSCHR19LRC_PGF1_CTG1 54778062 54788062 - -ENSG00000267929 HG1436_HG1432_PATCH 48753839 48763839 - -ENSG00000267935 Y 25850592 25860592 + -ENSG00000267937 21 38888973 38898973 + -ENSG00000267941 7 65940709 65950709 + -ENSG00000267942 12 66281518 66291518 - -ENSG00000267946 HG1497_PATCH 154648583 154658583 - -ENSG00000267950 11 1296033 1306033 + -ENSG00000267951 HG1497_PATCH 153019990 153029990 - -ENSG00000267952 19 7584412 7594412 + -ENSG00000267954 22 24114467 24124467 - -ENSG00000267955 HG122_PATCH 118293836 118303836 - -ENSG00000267958 2 74418627 74428627 + -ENSG00000267960 HG1442_PATCH 119195846 119205846 - -ENSG00000267963 2 241064304 241074304 + -ENSG00000267964 10 75521935 75531935 - -ENSG00000267970 7 48891221 48901221 + -ENSG00000267972 HG1433_PATCH 50101880 50111880 - -ENSG00000267976 21 37860058 37870058 + -ENSG00000267977 HG1497_PATCH 152858971 152868971 - -ENSG00000267978 HG1459_PATCH 148653377 148663377 - -ENSG00000267979 3 172009438 172019438 - -ENSG00000267981 11 129944012 129954012 + -ENSG00000267983 HG1436_HG1432_PATCH 48771610 48781610 - -ENSG00000267985 7 72464996 72474996 + -ENSG00000267987 9 124110410 124120410 + -ENSG00000267988 7 45892684 45902684 - -ENSG00000267989 HG1497_PATCH 152944238 152954238 - -ENSG00000267993 HG1497_PATCH 153559706 153569706 - -ENSG00000267995 HG1433_PATCH 52377090 52387090 - -ENSG00000268000 19 50004614 50014614 + -ENSG00000268009 HG1436_HG1432_PATCH 48252742 48262742 + -ENSG00000268012 5 78513714 78523714 - -ENSG00000268013 HG1497_PATCH 153498818 153508818 + -ENSG00000268016 HG1436_HG1432_PATCH 49368048 49378048 + -ENSG00000268018 HG1433_PATCH 51645354 51655354 + -ENSG00000268021 HG122_PATCH 118518947 118528947 - -ENSG00000268024 17 32571900 32581900 - -ENSG00000268025 HG736_PATCH 56878439 56888439 - -ENSG00000268028 12 65080189 65090189 - -ENSG00000268029 HG1440_PATCH 101705518 101715518 - -ENSG00000268035 HG1438_PATCH 72335887 72345887 - -ENSG00000268037 HSCHR19LRC_PGF1_CTG1 54744264 54754264 - -ENSG00000268040 21 47337679 47347679 - -ENSG00000268043 HG1287_PATCH 147682613 147692613 + -ENSG00000268046 18 8326437 8336437 - -ENSG00000268059 6 13605728 13615728 - -ENSG00000268060 HG1082_HG167_PATCH 140575227 140585227 + -ENSG00000268064 HSCHR19LRC_PGF1_CTG1 54977336 54987336 + -ENSG00000268069 12 48179787 48189787 + -ENSG00000268076 12 25390840 25400840 + -ENSG00000268080 8 94242388 94252388 + -ENSG00000268083 19 39298111 39308111 - -ENSG00000268084 HG1497_PATCH 153981816 153991816 - -ENSG00000268085 8 23402287 23412287 - -ENSG00000268089 HG1497_PATCH 151821834 151831834 + -ENSG00000268090 HG1436_HG1432_PATCH 49643372 49653372 + -ENSG00000268091 12 131504221 131514221 - -ENSG00000268098 21 37417818 37427818 + -ENSG00000268103 HG1459_PATCH 147032842 147042842 + -ENSG00000268104 HG1463_PATCH 115575288 115585288 + -ENSG00000268109 HG1497_PATCH 154228771 154238771 + -ENSG00000268110 HG122_PATCH 118269922 118279922 + -ENSG00000268111 20 44085910 44095910 - -ENSG00000268113 HG1433_PATCH 51783860 51793860 - -ENSG00000268122 HG1459_PATCH 148858589 148868589 + -ENSG00000268123 HG344_PATCH 7055165 7065165 + -ENSG00000268126 5 147701891 147711891 + -ENSG00000268130 13 113745563 113755563 - -ENSG00000268133 19 57909952 57919952 + -ENSG00000268134 HG1433_PATCH 52651556 52661556 + -ENSG00000268135 HG344_PATCH 7023407 7033407 + -ENSG00000268136 HG344_PATCH 6947973 6957973 - -ENSG00000268138 HG1436_HG1432_PATCH 48380201 48390201 + -ENSG00000268139 HG1436_HG1432_PATCH 49024953 49034953 - -ENSG00000268141 1 154585190 154595190 + -ENSG00000268142 HG1436_HG1432_PATCH 48762541 48772541 + -ENSG00000268146 1 244231211 244241211 + -ENSG00000268151 HG1439_PATCH 100900268 100910268 - -ENSG00000268154 1 161035943 161045943 + -ENSG00000268155 9 5067163 5077163 - -ENSG00000268156 14 77883115 77893115 + -ENSG00000268158 HG1433_PATCH 53801324 53811324 - -ENSG00000268159 HG1438_PATCH 72068648 72078648 + -ENSG00000268160 HG1497_PATCH 153663487 153673487 - -ENSG00000268162 12 57391335 57401335 + -ENSG00000268163 19 57939338 57949338 - -ENSG00000268170 7 142909163 142919163 - -ENSG00000268171 4 57277131 57287131 + -ENSG00000268172 1 144991365 145001365 + -ENSG00000268175 3 149690535 149700535 + -ENSG00000268176 HG1441_PATCH 103370533 103380533 + -ENSG00000268179 1 851264 861264 - -ENSG00000268181 7 62848414 62858414 - -ENSG00000268182 19 57167134 57177134 + -ENSG00000268187 HG736_PATCH 56880421 56890421 - -ENSG00000268188 HG1433_PATCH 53164258 53174258 - -ENSG00000268190 HG344_PATCH 6970757 6980757 - -ENSG00000268192 11 119017590 119027590 - -ENSG00000268194 2 121211911 121221911 - -ENSG00000268195 HG344_PATCH 6956557 6966557 + -ENSG00000268196 HG1497_PATCH 151870818 151880818 + -ENSG00000268206 17 26642323 26652323 + -ENSG00000268208 14 78217711 78227711 - -ENSG00000268210 HG1459_PATCH 144911565 144921565 + -ENSG00000268211 9 131064212 131074212 + -ENSG00000268212 HG1423_PATCH 36403180 36413180 + -ENSG00000268213 HG1439_PATCH 100860113 100870113 - -ENSG00000268214 HSCHR19LRC_COX2_CTG1 54961268 54971268 + -ENSG00000268217 5 72896845 72906845 + -ENSG00000268218 16 89339452 89349452 + -ENSG00000268221 HG1497_PATCH 153364610 153374610 + -ENSG00000268223 5 115395815 115405815 + -ENSG00000268226 HG1497_PATCH 153946157 153956157 + -ENSG00000268229 HG1437_PATCH 62844437 62854437 - -ENSG00000268235 HG1440_PATCH 101481536 101491536 + -ENSG00000268239 HG1453_PATCH 140672937 140682937 + -ENSG00000268241 2 175190601 175200601 - -ENSG00000268242 11 11737060 11747060 - -ENSG00000268248 HG736_PATCH 56871183 56881183 - -ENSG00000268249 HG1439_PATCH 100590649 100600649 - -ENSG00000268256 HG1436_HG1432_PATCH 48035619 48045619 - -ENSG00000268259 HG1441_PATCH 103494967 103504967 - -ENSG00000268260 HG1436_HG1432_PATCH 47869128 47879128 + -ENSG00000268264 HG1436_HG1432_PATCH 50159099 50169099 + -ENSG00000268265 21 34937431 34947431 - -ENSG00000268269 HG1433_PATCH 52831540 52841540 + -ENSG00000268273 HG1433_PATCH 51489228 51499228 + -ENSG00000268274 HG1497_PATCH 152655560 152665560 + -ENSG00000268275 6 41654127 41664127 + -ENSG00000268276 GL000221.1 52571 62571 - -ENSG00000268280 5 55214468 55224468 - -ENSG00000268281 HG1497_PATCH 153087712 153097712 - -ENSG00000268301 12 11187275 11197275 + -ENSG00000268302 20 25197122 25207122 - -ENSG00000268310 17 76200462 76210462 - -ENSG00000268312 HG1433_PATCH 53669676 53679676 - -ENSG00000268313 1 205684153 205694153 + -ENSG00000268314 HG1459_PATCH 148629031 148639031 + -ENSG00000268317 16 56652971 56662971 - -ENSG00000268320 HG417_PATCH 79067 89067 + -ENSG00000268324 3 46601178 46611178 + -ENSG00000268327 15 59440054 59450054 + -ENSG00000268328 2 70119482 70129482 - -ENSG00000268329 HG1208_PATCH 57791162 57801162 + -ENSG00000268330 HG1257_PATCH 74825589 74835589 - -ENSG00000268332 1 6090630 6100630 - -ENSG00000268337 HG1459_PATCH 148869459 148879459 + -ENSG00000268341 19 45842639 45852639 + -ENSG00000268343 15 21005367 21015367 + -ENSG00000268344 13 26442422 26452422 - -ENSG00000268349 HG1442_PATCH 119233016 119243016 - -ENSG00000268350 HG1433_PATCH 52680258 52690258 - -ENSG00000268351 11 69577254 69587254 - -ENSG00000268353 HG1436_HG1432_PATCH 49037215 49047215 - -ENSG00000268358 5 111756310 111766310 + -ENSG00000268359 HG1497_PATCH 154416709 154426709 - -ENSG00000268361 19 44048844 44058844 - -ENSG00000268365 1 240619183 240629183 - -ENSG00000268367 12 57810536 57820536 + -ENSG00000268368 HG1440_PATCH 101758648 101768648 - -ENSG00000268372 HG1433_PATCH 52965876 52975876 - -ENSG00000268377 HG1440_PATCH 101385448 101395448 - -ENSG00000268381 HG1441_PATCH 103256076 103266076 - -ENSG00000268384 HG1497_PATCH 153151663 153161663 + -ENSG00000268387 1 161192296 161202296 + -ENSG00000268393 HG1436_HG1432_PATCH 47992012 48002012 + -ENSG00000268394 HG1436_HG1432_PATCH 48388115 48398115 + -ENSG00000268396 2 239192498 239202498 + -ENSG00000268397 5 180684578 180694578 + -ENSG00000268402 6 143764295 143774295 + -ENSG00000268403 11 9471747 9481747 - -ENSG00000268412 2 26241074 26251074 - -ENSG00000268413 17 42355825 42365825 + -ENSG00000268417 HG1462_PATCH 114337092 114347092 - -ENSG00000268421 10 131298884 131308884 - -ENSG00000268422 HG1459_PATCH 148967557 148977557 + -ENSG00000268423 19 47040313 47050313 - -ENSG00000268424 5 101571279 101581279 + -ENSG00000268426 HG1436_HG1432_PATCH 48689537 48699537 + -ENSG00000268427 22 50714350 50724350 + -ENSG00000268429 HG417_PATCH 86017 96017 - -ENSG00000268430 HG865_PATCH 70303961 70313961 - -ENSG00000268431 HG1424_PATCH 37317354 37327354 + -ENSG00000268432 5 157150003 157160003 - -ENSG00000268434 19 46272729 46282729 - -ENSG00000268439 HG344_PATCH 7085166 7095166 + -ENSG00000268440 HG1497_PATCH 154408285 154418285 + -ENSG00000268444 HG1497_PATCH 152954200 152964200 + -ENSG00000268447 HG1433_PATCH 52504536 52514536 + -ENSG00000268456 HG1462_PATCH 114230445 114240445 - -ENSG00000268457 20 30309134 30319134 + -ENSG00000268461 19 20037769 20047769 - -ENSG00000268462 HG344_PATCH 6975793 6985793 + -ENSG00000268465 19 48975688 48985688 + -ENSG00000268466 14 58755865 58765865 + -ENSG00000268467 11 107463949 107473949 + -ENSG00000268470 17 76499138 76509138 + -ENSG00000268472 11 112132117 112142117 + -ENSG00000268476 HG1433_PATCH 52823615 52833615 + -ENSG00000268482 9 35351056 35361056 - -ENSG00000268484 15 96904900 96914900 + -ENSG00000268485 2 242168850 242178850 + -ENSG00000268486 HG1486_PATCH 16689848 16699848 - -ENSG00000268488 15 44065041 44075041 - -ENSG00000268489 HG1436_HG1432_PATCH 48437682 48447682 + -ENSG00000268490 HG1458_PATCH 142586521 142596521 - -ENSG00000268498 HG1438_PATCH 71539366 71549366 - -ENSG00000268500 19 52105344 52115344 - -ENSG00000268501 HG1436_HG1432_PATCH 49109925 49119925 + -ENSG00000268503 17 7517427 7527427 + -ENSG00000268509 3 5219227 5229227 - -ENSG00000268512 HG1497_PATCH 151985445 151995445 - -ENSG00000268519 12 77939297 77949297 - -ENSG00000268524 HG1436_HG1432_PATCH 49339384 49349384 + -ENSG00000268531 15 22012050 22022050 + -ENSG00000268533 19 57949825 57959825 + -ENSG00000268537 3 46917699 46927699 - -ENSG00000268538 22 30804212 30814212 - -ENSG00000268546 HG1436_HG1432_PATCH 48126843 48136843 + -ENSG00000268548 HG344_PATCH 6980112 6990112 + -ENSG00000268550 19 14835121 14845121 + -ENSG00000268551 HG122_PATCH 118280560 118290560 + -ENSG00000268552 1 28167085 28177085 - -ENSG00000268553 5 172026245 172036245 - -ENSG00000268556 2 105869601 105879601 + -ENSG00000268557 HG1497_PATCH 153549991 153559991 + -ENSG00000268563 HG1497_PATCH 153188702 153198702 - -ENSG00000268569 HG329_PATCH 19308211 19318211 - -ENSG00000268570 HG1441_PATCH 103450831 103460831 + -ENSG00000268574 HG1438_PATCH 72287126 72297126 - -ENSG00000268576 HG1287_PATCH 149273884 149283884 - -ENSG00000268578 9 45431273 45441273 - -ENSG00000268579 HG1438_PATCH 71790477 71800477 - -ENSG00000268590 GL000237.1 -9101 899 - -ENSG00000268591 HG1497_PATCH 152947818 152957818 + -ENSG00000268602 11 107595135 107605135 + -ENSG00000268604 HG1497_PATCH 153645779 153655779 - -ENSG00000268606 HG1497_PATCH 151908357 151918357 - -ENSG00000268612 HG27_PATCH 26600278 26610278 + -ENSG00000268624 HG1497_PATCH 152227744 152237744 + -ENSG00000268626 17 72336906 72346906 - -ENSG00000268628 20 19728296 19738296 - -ENSG00000268629 HG375_PATCH 104453614 104463614 - -ENSG00000268630 HG1443_HG1444_PATCH 134716538 134726538 + -ENSG00000268632 15 42063346 42073346 - -ENSG00000268635 11 77188074 77198074 + -ENSG00000268637 HSCHR6_MHC_DBB 31431226 31441226 - -ENSG00000268640 12 147377 157377 + -ENSG00000268642 HG1439_PATCH 100669121 100679121 + -ENSG00000268643 19 42728735 42738735 - -ENSG00000268644 HG1497_PATCH 152147297 152157297 - -ENSG00000268646 HG1436_HG1432_PATCH 48680493 48690493 - -ENSG00000268651 HG1497_PATCH 153755283 153765283 + -ENSG00000268656 2 27988851 27998851 - -ENSG00000268657 14 92028788 92038788 - -ENSG00000268662 1 186354123 186364123 - -ENSG00000268667 HG1441_PATCH 103221224 103231224 + -ENSG00000268668 HG1433_PATCH 50324647 50334647 - -ENSG00000268671 HG1497_PATCH 152606350 152616350 - -ENSG00000268674 1 16866070 16876070 + -ENSG00000268675 HG1436_HG1432_PATCH 48962795 48972795 - -ENSG00000268679 HG1436_HG1432_PATCH 48826322 48836322 - -ENSG00000268682 HG1433_PATCH 51794827 51804827 - -ENSG00000268688 2 37058327 37068327 - -ENSG00000268690 HG1497_PATCH 153611935 153621935 + -ENSG00000268691 HG1453_PATCH 140247921 140257921 - -ENSG00000268693 HG417_PATCH 142500 152500 - -ENSG00000268695 HG1443_HG1444_PATCH 134280566 134290566 - -ENSG00000268699 HG1497_PATCH 153836434 153846434 - -ENSG00000268700 HG1497_PATCH 154222502 154232502 - -ENSG00000268702 14 23780839 23790839 - -ENSG00000268706 18 61592042 61602042 - -ENSG00000268708 9 44315916 44325916 - -ENSG00000268709 HG1459_PATCH 148798970 148808970 + -ENSG00000268712 HG1436_HG1432_PATCH 48633045 48643045 + -ENSG00000268714 5 115394625 115404625 + -ENSG00000268716 12 52922980 52932980 + -ENSG00000268719 HSCHR6_MHC_COX 29799936 29809936 - -ENSG00000268722 HG1439_PATCH 100750794 100760794 + -ENSG00000268728 HSCHR6_MHC_QBL 31475278 31485278 + -ENSG00000268730 15 99849300 99859300 - -ENSG00000268733 HG1502_PATCH 132999583 133009583 + -ENSG00000268735 13 24323901 24333901 + -ENSG00000268737 HG1459_PATCH 144907557 144917557 + -ENSG00000268738 HG1459_PATCH 148664245 148674245 - -ENSG00000268740 HG1436_HG1432_PATCH 48567204 48577204 + -ENSG00000268750 19 58370279 58380279 + -ENSG00000268757 HG1497_PATCH 152913233 152923233 + -ENSG00000268759 15 32780287 32790287 + -ENSG00000268760 HG1442_PATCH 119382613 119392613 - -ENSG00000268762 HG1437_PATCH 62556698 62566698 - -ENSG00000268763 HSCHR12_2_CTG2 11187275 11197275 + -ENSG00000268765 HG1424_PATCH 37673523 37683523 + -ENSG00000268767 HG1462_PATCH 114887331 114897331 + -ENSG00000268768 HG1497_PATCH 153106027 153116027 - -ENSG00000268779 HG344_PATCH 6929974 6939974 + -ENSG00000268781 4 3501523 3511523 - -ENSG00000268786 HG1436_HG1432_PATCH 48422493 48432493 - -ENSG00000268788 4 76878526 76888526 + -ENSG00000268790 19 16678462 16688462 - -ENSG00000268791 4 6683782 6693782 - -ENSG00000268792 HG1433_PATCH 52529144 52539144 - -ENSG00000268798 19 1441937 1451937 + -ENSG00000268800 5 162856447 162866447 - -ENSG00000268805 21 46501596 46511596 - -ENSG00000268809 2 105872490 105882490 - -ENSG00000268815 HG1439_PATCH 100642791 100652791 - -ENSG00000268818 22 36013040 36023040 - -ENSG00000268821 2 172550844 172560844 - -ENSG00000268822 2 241614478 241624478 - -ENSG00000268827 HG1459_PATCH 147108384 147118384 + -ENSG00000268828 HG344_PATCH 6949018 6959018 + -ENSG00000268829 HG344_PATCH 7075348 7085348 - -ENSG00000268832 HG1497_PATCH 153327500 153337500 + -ENSG00000268838 15 78831288 78841288 + -ENSG00000268843 HG736_PATCH 56876601 56886601 - -ENSG00000268846 2 187357219 187367219 - -ENSG00000268851 GL000215.1 13516 23516 - -ENSG00000268852 17 80216080 80226080 + -ENSG00000268853 HG1426_PATCH 76718232 76728232 + -ENSG00000268856 21 46482796 46492796 - -ENSG00000268857 2 157342597 157352597 - -ENSG00000268858 20 62482879 62492879 - -ENSG00000268861 19 7535131 7545131 + -ENSG00000268862 HG1497_PATCH 153642114 153652114 + -ENSG00000268863 16 30986808 30996808 - -ENSG00000268864 19 54092882 54102882 - -ENSG00000268865 12 25057615 25067615 + -ENSG00000268870 19 12492763 12502763 - -ENSG00000268871 HG1459_PATCH 149003919 149013919 - -ENSG00000268872 HG344_PATCH 7051484 7061484 + -ENSG00000268876 HG1497_PATCH 153065847 153075847 - -ENSG00000268882 10 135182720 135192720 - -ENSG00000268883 HG1497_PATCH 152234085 152244085 - -ENSG00000268885 5 668839 678839 + -ENSG00000268891 7 74989908 74999908 - -ENSG00000268897 HG1439_PATCH 100594438 100604438 - -ENSG00000268898 2 40490117 40500117 + -ENSG00000268904 HG1497_PATCH 153590188 153600188 + -ENSG00000268916 HG1497_PATCH 151928694 151938694 + -ENSG00000268919 HG1442_PATCH 119298002 119308002 + -ENSG00000268920 HG1497_PATCH 151885956 151895956 - -ENSG00000268923 6 31963945 31973945 - -ENSG00000268925 10 135331026 135341026 - 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HG1458_PATCH 142789741 142799741 - -ENSG00000268991 1 17050447 17060447 - -ENSG00000268996 9 139970807 139980807 - -ENSG00000269000 2 107089728 107099728 - -ENSG00000269002 HG1436_HG1432_PATCH 49100733 49110733 - -ENSG00000269003 HG1433_PATCH 51080525 51090525 + -ENSG00000269007 HG1497_PATCH 153635369 153645369 - -ENSG00000269010 HG1463_PATCH 115568015 115578015 - -ENSG00000269011 21 15041621 15051621 - -ENSG00000269016 HG1436_HG1432_PATCH 49406226 49416226 + -ENSG00000269018 11 65348665 65358665 - -ENSG00000269020 HSCHR6_MHC_MCF 31561338 31571338 + -ENSG00000269026 19 58264943 58274943 + -ENSG00000269027 5 35051198 35061198 + -ENSG00000269028 3 96325981 96335981 - -ENSG00000269030 HG1436_HG1432_PATCH 49179243 49189243 + -ENSG00000269031 HG1459_PATCH 149755044 149765044 + -ENSG00000269034 HG1436_HG1432_PATCH 49034638 49044638 + -ENSG00000269035 19 17537420 17547420 - -ENSG00000269036 HG1443_HG1444_PATCH 135181293 135191293 + -ENSG00000269041 HG1459_PATCH 148554265 148564265 - 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103327497 - -ENSG00000269230 HG1423_PATCH 37029783 37039783 + -ENSG00000269231 HG1443_HG1444_PATCH 135086107 135096107 - -ENSG00000269240 HG1436_HG1432_PATCH 49908634 49918634 + -ENSG00000269249 HG1433_PATCH 52561298 52571298 + -ENSG00000269257 HG1426_PATCH 77380702 77390702 - -ENSG00000269259 10 102883624 102893624 + -ENSG00000269261 HG1497_PATCH 153994263 154004263 - -ENSG00000269265 HG1433_PATCH 53174111 53184111 + -ENSG00000269267 5 60401538 60411538 - -ENSG00000269277 HG1479_PATCH 133812430 133822430 + -ENSG00000269278 HG122_PATCH 118405258 118415258 - -ENSG00000269279 1 116905890 116915890 - -ENSG00000269282 12 48761738 48771738 + -ENSG00000269283 HG971_PATCH 99678794 99688794 + -ENSG00000269285 HG1436_HG1432_PATCH 49990167 50000167 - -ENSG00000269291 Y 15429181 15439181 + -ENSG00000269295 9 71859331 71869331 - -ENSG00000269301 HG329_PATCH 19419290 19429290 - -ENSG00000269302 4 187101913 187111913 - -ENSG00000269305 9 4849120 4859120 - -ENSG00000269308 1 819983 829983 + 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101370646 + -ENSG00000269380 HG1424_PATCH 37592192 37602192 + -ENSG00000269381 HG122_PATCH 118259621 118269621 - -ENSG00000269382 HG122_PATCH 118473643 118483643 + -ENSG00000269383 2 100976705 100986705 - -ENSG00000269384 HG1433_PATCH 53107149 53117149 - -ENSG00000269389 HG1436_HG1432_PATCH 48921125 48931125 - -ENSG00000269390 HG1462_PATCH 114944800 114954800 - -ENSG00000269393 Y 28101776 28111776 - -ENSG00000269394 HG1146_PATCH 44115835 44125835 + -ENSG00000269395 HG1426_PATCH 77311349 77321349 + -ENSG00000269396 7 304070 314070 + -ENSG00000269402 17 30496379 30506379 - -ENSG00000269404 19 50934570 50944570 + -ENSG00000269405 HG1440_PATCH 101581691 101591691 + -ENSG00000269406 HG1257_PATCH 72459424 72469424 + -ENSG00000269407 20 23320015 23330015 - -ENSG00000269408 9 138140512 138150512 - -ENSG00000269411 HG1459_PATCH 150072497 150082497 + -ENSG00000269415 3 59947215 59957215 - -ENSG00000269417 2 85112209 85122209 - -ENSG00000269422 16 88894545 88904545 + -ENSG00000269430 21 45882078 45892078 + -ENSG00000269433 HG1497_PATCH 153439479 153449479 + -ENSG00000269436 HG1459_PATCH 144337829 144347829 + -ENSG00000269437 HG1440_PATCH 101605368 101615368 - -ENSG00000269438 HG1433_PATCH 50094910 50104910 + -ENSG00000269446 7 156903764 156913764 + -ENSG00000269448 HG1433_PATCH 51151835 51161835 + -ENSG00000269449 7 95173854 95183854 + -ENSG00000269452 HG1497_PATCH 151906132 151916132 + -ENSG00000269459 HSCHR19LRC_PGF1_CTG1 55346752 55356752 - -ENSG00000269464 Y 5296691 5306691 - -ENSG00000269468 1 17645507 17655507 - -ENSG00000269478 HG1459_PATCH 149838059 149848059 - -ENSG00000269479 HG1433_PATCH 50659607 50669607 + -ENSG00000269490 6 33653196 33663196 - -ENSG00000269494 6 82252307 82262307 - -ENSG00000269496 3 172361740 172371740 + -ENSG00000269499 HG1436_HG1432_PATCH 48422008 48432008 + -ENSG00000269502 HG1438_PATCH 72081875 72091875 - -ENSG00000269503 HG1440_PATCH 101398680 101408680 - -ENSG00000269506 4 54927377 54937377 + -ENSG00000269510 9 35032390 35042390 - 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137341836 137351836 + -ENSG00000269572 HG1462_PATCH 114429338 114439338 + -ENSG00000269586 HG1443_HG1444_PATCH 134952963 134962963 - -ENSG00000269587 HG1436_HG1432_PATCH 48307944 48317944 - -ENSG00000269590 19 12765642 12775642 - -ENSG00000269591 13 20269240 20279240 + -ENSG00000269592 HG1497_PATCH 153810440 153820440 - -ENSG00000269594 HG1436_HG1432_PATCH 47781610 47791610 + -ENSG00000269601 11 120319880 120329880 - -ENSG00000269602 HG1463_PATCH 115291305 115301305 + -ENSG00000269603 HG1442_PATCH 119392361 119402361 + -ENSG00000269605 20 43224346 43234346 - -ENSG00000269612 HG122_PATCH 118610040 118620040 - -ENSG00000269618 HG1497_PATCH 154220090 154230090 - -ENSG00000269620 1 159869884 159879884 - -ENSG00000269623 HG1497_PATCH 153075287 153085287 + -ENSG00000269624 1 63075249 63085249 + -ENSG00000269630 18 60495640 60505640 - -ENSG00000269633 2 207220843 207230843 + -ENSG00000269636 5 150176297 150186297 + -ENSG00000269639 HG1426_PATCH 77077318 77087318 - -ENSG00000269645 HG1497_PATCH 153619122 153629122 + -ENSG00000269647 1 147621967 147631967 - -ENSG00000269649 HG1436_HG1432_PATCH 47907613 47917613 - -ENSG00000269650 20 34746461 34756461 - -ENSG00000269654 HG1425_PATCH 75651186 75661186 + -ENSG00000269655 HG1497_PATCH 153057461 153067461 + -ENSG00000269657 17 66542970 66552970 + -ENSG00000269663 HG1436_HG1432_PATCH 49415754 49425754 + -ENSG00000269666 HG1426_PATCH 77390250 77400250 + -ENSG00000269668 HG1497_PATCH 153604984 153614984 + -ENSG00000269670 HG1424_PATCH 37537456 37547456 + -ENSG00000269671 HG497_PATCH 51195934 51205934 - -ENSG00000269676 12 133039334 133049334 - -ENSG00000269679 18 77265812 77275812 - -ENSG00000269685 HG1441_PATCH 103297382 103307382 + -ENSG00000269686 2 133876625 133886625 + -ENSG00000269690 1 201592738 201602738 + -ENSG00000269698 HG1436_HG1432_PATCH 48924039 48934039 - -ENSG00000269699 19 57275930 57285930 - -ENSG00000269700 10 52154321 52164321 + -ENSG00000269703 HG1146_PATCH 43908327 43918327 + -ENSG00000269709 1 48569878 48579878 + -ENSG00000269710 HG1433_PATCH 51935266 51945266 + -ENSG00000269711 19 7747740 7757740 + -ENSG00000269713 HG1287_PATCH 149730448 149740448 - -ENSG00000269714 HG971_PATCH 99669552 99679552 - -ENSG00000269715 HG1497_PATCH 153643661 153653661 - -ENSG00000269719 HG1439_PATCH 100667153 100677153 + -ENSG00000269725 GL000213.1 70280 80280 + -ENSG00000269730 HSCHR6_MHC_COX 31472444 31482444 + -ENSG00000269733 HG971_PATCH 99501509 99511509 - -ENSG00000269738 9 125138344 125148344 - -ENSG00000269743 HG1441_PATCH 103344144 103354144 - -ENSG00000269746 16 70229303 70239303 - -ENSG00000269748 HG1436_HG1432_PATCH 48878130 48888130 - -ENSG00000269753 1 2259042 2269042 + -ENSG00000269754 HG1459_PATCH 148082384 148092384 + -ENSG00000269759 HG1459_PATCH 149846824 149856824 + -ENSG00000269764 HG736_PATCH 56874715 56884715 - -ENSG00000269766 11 35140091 35150091 - -ENSG00000269773 HG1497_PATCH 152828492 152838492 - -ENSG00000269781 7 6524873 6534873 + -ENSG00000269783 10 99631294 99641294 + -ENSG00000269790 HG1497_PATCH 152352350 152362350 + -ENSG00000269791 HG1436_HG1432_PATCH 48251481 48261481 - -ENSG00000269795 1 243395911 243405911 + -ENSG00000269797 HG1502_PATCH 132902443 132912443 + -ENSG00000269798 HG1497_PATCH 152819790 152829790 + -ENSG00000269801 HG1439_PATCH 100809687 100819687 + -ENSG00000269804 1 28527419 28537419 + -ENSG00000269805 HG1433_PATCH 52243812 52253812 + -ENSG00000269808 19 55741647 55751647 + -ENSG00000269810 15 100028447 100038447 - -ENSG00000269816 HG1433_PATCH 52925152 52935152 - -ENSG00000269820 HG1443_HG1444_PATCH 135047089 135057089 + -ENSG00000269823 HSCHR1_1_CTG31 153752078 153762078 - -ENSG00000269824 HG1436_HG1432_PATCH 47685352 47695352 - -ENSG00000269830 HG344_PATCH 6936583 6946583 + -ENSG00000269831 1 728532 738532 - -ENSG00000269832 14 50293258 50303258 + -ENSG00000269838 HG1453_PATCH 140769576 140779576 - -ENSG00000269840 HG1436_HG1432_PATCH 49486849 49496849 - -ENSG00000269846 20 35725581 35735581 + -ENSG00000269849 HG1459_PATCH 149594847 149604847 + -ENSG00000269853 HG1453_PATCH 140085871 140095871 + -ENSG00000269855 19 58908407 58918407 + -ENSG00000269858 19 41314338 41324338 + -ENSG00000269866 16 70258641 70268641 + -ENSG00000269870 HG1436_HG1432_PATCH 49147494 49157494 + -ENSG00000269871 17 6905928 6915928 - -ENSG00000269875 HG1436_HG1432_PATCH 48345704 48355704 + -ENSG00000269879 10 24760273 24770273 - -ENSG00000269881 16 319942 329942 + -ENSG00000269882 HG344_PATCH 7180195 7190195 + -ENSG00000269883 14 77609339 77619339 + -ENSG00000269884 HG1497_PATCH 154288618 154298618 + -ENSG00000269891 10 98747795 98757795 - -ENSG00000269897 10 22618471 22628471 + -ENSG00000269948 10 97744452 97754452 + -ENSG00000269955 7 139107345 139117345 + -ENSG00000269964 6 78636691 78646691 + -ENSG00000270011 19 9493293 9503293 + -ENSG00000270024 8 67772707 67782707 + -ENSG00000270136 1 19984549 19994549 + -ENSG00000270181 13 103524748 103534748 + -ENSG00000270186 HG1079_PATCH 55287120 55297120 + -ENSG00000270188 1 238097024 238107024 - -ENSG00000270216 HG1079_PATCH 54710182 54720182 - -ENSG00000270220 HG1079_PATCH 55046986 55056986 + -ENSG00000270231 HG1292_PATCH 121010467 121020467 + -ENSG00000270249 7 102171948 102181948 - -ENSG00000270262 HG1079_PATCH 54658961 54668961 + -ENSG00000270263 HG1287_PATCH 150540689 150550689 + -ENSG00000270272 HG29_PATCH 46991655 47001655 - -ENSG00000270276 HG1287_PATCH 150537179 150547179 - -ENSG00000270288 HG1592_PATCH 105965519 105975519 + -ENSG00000270290 HG1436_HG1432_PATCH 49348937 49358937 + -ENSG00000270299 20 617270 627270 - -ENSG00000270339 HG1287_PATCH 145280067 145290067 + -ENSG00000270349 HG29_PATCH 46952748 46962748 + -ENSG00000270365 HG1079_PATCH 54958280 54968280 - -ENSG00000270366 HG1079_PATCH 54826439 54836439 - -ENSG00000270370 HG1079_PATCH 55504397 55514397 + -ENSG00000270379 HG385_PATCH 34171970 34181970 - -ENSG00000270386 4 70444912 70454912 - -ENSG00000270392 HG1292_PATCH 120965013 120975013 - -ENSG00000270394 4 117221520 117231520 + 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34061530 34071530 - -ENSG00000270784 HG1592_PATCH 105955128 105965128 + -ENSG00000270787 HG1079_PATCH 55287579 55297579 + -ENSG00000270800 6 34246547 34256547 - -ENSG00000270806 HG385_PATCH 34092098 34102098 + -ENSG00000270816 HG1592_PATCH 106961852 106971852 + -ENSG00000270825 HG1079_PATCH 54563201 54573201 - -ENSG00000270827 HG1287_PATCH 150515953 150525953 - -ENSG00000270836 HG1079_PATCH 55591177 55601177 + -ENSG00000270848 HG1079_PATCH 54743663 54753663 - -ENSG00000270872 HG1287_PATCH 144754876 144764876 + -ENSG00000270882 HG1287_PATCH 150519467 150529467 + -ENSG00000270884 HG1079_PATCH 55416770 55426770 - -ENSG00000270885 HG385_PATCH 34070540 34080540 + -ENSG00000270886 HG1079_PATCH 55506960 55516960 - -ENSG00000270898 2 53887430 53897430 - -ENSG00000270913 HG1287_PATCH 145917830 145927830 - -ENSG00000270928 HG1436_HG1432_PATCH 49377604 49387604 + -ENSG00000270931 HG1592_PATCH 105946031 105956031 + -ENSG00000270942 HG1079_PATCH 54653352 54663352 - -ENSG00000270946 HG1443_HG1444_PATCH 134987808 134997808 - -ENSG00000270985 HG1079_PATCH 54965270 54975270 + -ENSG00000270998 HG1079_PATCH 55537598 55547598 - -ENSG00000270999 2 90458671 90468671 + -ENSG00000271000 HG1079_PATCH 55416328 55426328 + -ENSG00000271001 HG1287_PATCH 147020421 147030421 - -ENSG00000271016 HG1079_PATCH 54610822 54620822 + -ENSG00000271019 HG1079_PATCH 54666669 54676669 - -ENSG00000271039 HG1079_PATCH 55370248 55380248 + -ENSG00000271043 5 79935819 79945819 - -ENSG00000271079 7 143271480 143281480 + -ENSG00000271091 HG29_PATCH 46741793 46751793 + -ENSG00000271092 1 95710511 95720511 + -ENSG00000271107 HG1079_PATCH 55128976 55138976 - -ENSG00000271116 HG1079_PATCH 55013941 55023941 + -ENSG00000271121 HG1287_PATCH 146985587 146995587 + -ENSG00000271124 HG1079_PATCH 55239790 55249790 + -ENSG00000271188 HG1079_PATCH 55104329 55114329 + -ENSG00000271203 HG1079_PATCH 54600267 54610267 - -ENSG00000271210 HG1079_PATCH 55393727 55403727 + -ENSG00000271254 HG1287_PATCH 145966421 145976421 - -ENSG00000271271 4 70444135 70454135 - -ENSG00000271303 20 617259 627259 - -ENSG00000271310 HG29_PATCH 47074563 47084563 + -ENSG00000271321 7 143442182 143452182 - -ENSG00000271326 HG1079_PATCH 55171651 55181651 + -ENSG00000271342 HG29_PATCH 46454753 46464753 - -ENSG00000271352 HG29_PATCH 47046246 47056246 + -ENSG00000271354 HG1436_HG1432_PATCH 49396700 49406700 + -ENSG00000271363 HG29_PATCH 46920676 46930676 + -ENSG00000271374 HG1592_PATCH 105861592 105871592 + -ENSG00000271383 HG1287_PATCH 150242670 150252670 + -ENSG00000271425 HG1287_PATCH 146742733 146752733 - -ENSG00000271442 HG1079_PATCH 54634963 54644963 + -ENSG00000271447 HG385_PATCH 34082876 34092876 - -ENSG00000271449 HG1443_HG1444_PATCH 134918421 134928421 - -ENSG00000271467 HG1436_HG1432_PATCH 49387153 49397153 + -ENSG00000271481 HG1079_PATCH 54767720 54777720 - -ENSG00000271503 HG385_PATCH 34189021 34199021 - -ENSG00000271542 HG1079_PATCH 54648415 54658415 - -ENSG00000271567 HG1287_PATCH 145049290 145059290 - 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HG1074_PATCH 51218471 51228471 + -ENSG00000271968 HG1592_PATCH 106426075 106436075 - -ENSG00000272000 HSCHR22_2_CTG1 42524642 42534642 - -ENSG00000272014 HG1308_PATCH 130218782 130228782 + -ENSG00000272031 HG1287_PATCH 146635856 146645856 - -ENSG00000272032 HG506_HG507_HG1000_PATCH 61145820 61155820 + -ENSG00000272047 6 158620376 158630376 + -ENSG00000272058 HG1287_PATCH 150392131 150402131 + -ENSG00000272064 HG1074_PATCH 51341192 51351192 + -ENSG00000272067 HG1436_HG1432_PATCH 48927863 48937863 + -ENSG00000272089 HG1292_PATCH 120813868 120823868 - -ENSG00000272101 HG357_PATCH 107369652 107379652 - -ENSG00000272104 3 50405354 50415354 + -ENSG00000272120 HG1497_PATCH 152521398 152531398 + -ENSG00000272125 HG953_PATCH 71203069 71213069 - -ENSG00000272150 HG1287_PATCH 146250284 146260284 - -ENSG00000272165 HSCHR19_1_CTG3_1 34776522 34786522 + -ENSG00000272171 HG1595_PATCH 122080481 122090481 + -ENSG00000272185 HG1424_PATCH 37487256 37497256 + -ENSG00000272195 1 245122652 245132652 - 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54645140 + -ENSG00000273074 HSCHR19LRC_PGF2_CTG1 54587935 54597935 - -ENSG00000273078 HG1082_HG167_PATCH 140391929 140401929 + -ENSG00000273079 12 13683165 13693165 - -ENSG00000273086 HSCHR12_2_CTG2 10951736 10961736 - -ENSG00000273088 1 155131885 155141885 - -ENSG00000273089 HG417_PATCH -9132 868 - -ENSG00000273092 HSCHR12_2_CTG2 11139094 11149094 - -ENSG00000273095 HSCHR19LRC_LRC_S_CTG1 54610875 54620875 + -ENSG00000273099 HSCHR19LRC_PGF2_CTG1 54653902 54663902 - -ENSG00000273103 HSCHR19LRC_LRC_J_CTG1 54563149 54573149 - -ENSG00000273105 HG1133_PATCH 11050525 11060525 - -ENSG00000273109 HSCHR19LRC_PGF1_CTG1 54635140 54645140 + -ENSG00000273111 HG1350_HG959_PATCH 42332979 42342979 - -ENSG00000273114 HG237_PATCH 46078224 46088224 + -ENSG00000273121 HSCHR22_1_CTG1 42475445 42485445 + -ENSG00000273126 HSCHR19LRC_PGF1_CTG1 54610875 54620875 + -ENSG00000273128 HSCHR19LRC_LRC_J_CTG1 54648899 54658899 - -ENSG00000273130 HSCHR19LRC_LRC_I_CTG1 54667109 54677109 - -ENSG00000273135 HSCHR19LRC_COX2_CTG1 54711511 54721511 + -ENSG00000273136 HG1292_PATCH 121384104 121394104 + -ENSG00000273146 HG1082_HG167_PATCH 140391929 140401929 + -ENSG00000273150 HG1257_PATCH 74611888 74621888 + -ENSG00000273155 2 99811761 99821761 + -ENSG00000273157 HG237_PATCH 45960240 45970240 - -ENSG00000273159 HSCHR19LRC_LRC_T_CTG1 54659418 54669418 + -ENSG00000273171 17 26681310 26691310 - -ENSG00000273173 15 25223729 25233729 + -ENSG00000273178 HSCHR19LRC_LRC_J_CTG1 54610875 54620875 + -ENSG00000273182 HSCHR19LRC_COX2_CTG1 54648899 54658899 - -ENSG00000273201 HG1082_HG167_PATCH 140391929 140401929 + -ENSG00000273202 HSCHR19LRC_LRC_I_CTG1 54659418 54669418 + -ENSG00000273205 HG1350_HG959_PATCH 41950670 41960670 + -ENSG00000273207 HG1497_PATCH 154615383 154625383 - -ENSG00000273208 HG1497_PATCH 154054026 154064026 + -ENSG00000273215 HSCHR19LRC_COX1_CTG1 54563149 54573149 - -ENSG00000273217 5 130751584 130761584 - -ENSG00000273220 HG1082_HG167_PATCH 140391929 140401929 + -ENSG00000273222 HSCHR19LRC_LRC_J_CTG1 54587935 54597935 - -ENSG00000273223 HSCHR19LRC_LRC_J_CTG1 54659418 54669418 + -ENSG00000273224 HSCHR19LRC_PGF2_CTG1 54635140 54645140 + -ENSG00000273225 HG1211_PATCH 46868997 46878997 + -ENSG00000273227 HG1082_HG167_PATCH 140560085 140570085 + -ENSG00000273229 HG237_PATCH 45948864 45958864 - -ENSG00000273235 HSCHR19LRC_PGF2_CTG1 54697585 54707585 + -ENSG00000273239 HSCHR19LRC_LRC_I_CTG1 54587935 54597935 - -ENSG00000273242 HSCHR19LRC_COX2_CTG1 54534079 54544079 - -ENSG00000273246 HG736_PATCH 56887122 56897122 - -ENSG00000273256 HG1082_HG167_PATCH 140391929 140401929 + -ENSG00000273263 HG1082_HG167_PATCH 140391929 140401929 + -ENSG00000273266 12 54449814 54459814 + -ENSG00000273268 HSCHR19LRC_LRC_S_CTG1 54587935 54597935 - -ENSG00000273273 HSCHR19LRC_PGF2_CTG1 54659418 54669418 + -ENSG00000273274 1 32962287 32972287 + -ENSG00000273276 HSCHR19LRC_LRC_I_CTG1 54563149 54573149 - -ENSG00000273279 HG1133_PATCH 10967916 10977916 - -ENSG00000273291 3 43073784 43083784 + -ENSG00000273292 HSCHR19LRC_LRC_I_CTG1 54648899 54658899 - -ENSG00000273296 HG1287_PATCH 145377287 145387287 + -ENSG00000273303 3 44635665 44645665 + -ENSG00000273310 HG1082_HG167_PATCH 140605871 140615871 + -ENSG00000273315 HSCHR19LRC_LRC_T_CTG1 54648899 54658899 - -ENSG00000273316 HSCHR19LRC_COX2_CTG1 54667109 54677109 - -ENSG00000273317 HG1082_HG167_PATCH 140391929 140401929 + -ENSG00000273322 HG237_PATCH 45989338 45999338 - -ENSG00000273324 HG174_HG254_PATCH 114084 124084 - -ENSG00000273326 HSCHR12_2_CTG2 10944131 10954131 - -ENSG00000273347 HSCHR19LRC_LRC_I_CTG1 54653902 54663902 - -ENSG00000273349 HSCHR19LRC_PGF2_CTG1 54534079 54544079 - -ENSG00000273351 HG237_PATCH 45994993 46004993 + -ENSG00000273357 HG1082_HG167_PATCH 140597006 140607006 + -ENSG00000273358 HSCHR19LRC_LRC_S_CTG1 54563149 54573149 - -ENSG00000273359 HG1133_PATCH 10948650 10958650 - -ENSG00000273376 HSCHR19LRC_LRC_I_CTG1 54635140 54645140 + -ENSG00000273378 HSCHR22_2_CTG1 42475445 42485445 + -ENSG00000273380 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145164782 + -ENSG00000260230 9 111929571 111939571 - -ENSG00000260238 1 156172798 156182798 + -ENSG00000260240 16 59788718 59798718 - -ENSG00000260245 HG185_PATCH 40075239 40085239 - -ENSG00000260259 16 89752977 89762977 - -ENSG00000260272 16 2536033 2546033 + -ENSG00000260283 HG185_PATCH 40112993 40122993 + -ENSG00000260286 6 24799117 24809117 - -ENSG00000260287 HG75_PATCH 34641203 34651203 + -ENSG00000260313 HG243_PATCH 145483414 145493414 - -ENSG00000260314 HG544_PATCH 17841343 17851343 + -ENSG00000260319 HG104_HG975_PATCH 145084584 145094584 + -ENSG00000260320 HG185_PATCH 40219308 40229308 - -ENSG00000260324 HG544_PATCH 17784251 17794251 + -ENSG00000260325 HG185_PATCH 40267683 40277683 + -ENSG00000260334 HG185_PATCH 39858578 39868578 + -ENSG00000260342 16 18812841 18822841 - -ENSG00000260355 HG14_PATCH 57507884 57517884 + -ENSG00000260362 16 9770700 9780700 - -ENSG00000260371 16 69390209 69400209 - -ENSG00000260374 HG745_PATCH 36574663 36584663 + -ENSG00000260376 HG1032_PATCH 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155258711 155268711 - -ENSG00000261897 HG142_HG150_NOVEL_TEST 56009676 56019676 + -ENSG00000261899 HSCHR2_1_CTG1 36579102 36589102 + -ENSG00000261900 HG339_PATCH 97879472 97889472 + -ENSG00000261906 HSCHR19LRC_PGF1_CTG1 54897289 54907289 - -ENSG00000261910 HG414_PATCH 76829307 76839307 + -ENSG00000261911 HG1257_PATCH 73719401 73729401 - -ENSG00000261912 HSCHR19LRC_COX1_CTG1 55163049 55173049 + -ENSG00000261913 HG7_PATCH 142396772 142406772 + -ENSG00000261917 HSCHR19LRC_COX1_CTG1 54693499 54703499 - -ENSG00000261919 HG1257_PATCH 74228919 74238919 + -ENSG00000261920 HG1257_PATCH 73908927 73918927 + -ENSG00000261921 HG325_PATCH 50360214 50370214 - -ENSG00000261923 HG873_PATCH 14655269 14665269 + -ENSG00000261929 HSCHR19LRC_PGF2_CTG1 54849537 54859537 - -ENSG00000261930 HSCHR19LRC_LRC_T_CTG1 55287897 55297897 + -ENSG00000261931 HSCHR19LRC_PGF1_CTG1 54906806 54916806 - -ENSG00000261932 HSCHR5_1_CTG1 69956745 69966745 + -ENSG00000261934 5 140772520 140782520 + -ENSG00000261935 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54998628 55008628 + -ENSG00000262007 HSCHR19LRC_LRC_S_CTG1 55351247 55361247 + -ENSG00000262009 HSCHR19LRC_PGF2_CTG1 55207290 55217290 - -ENSG00000262015 HG325_PATCH 50296646 50306646 + -ENSG00000262018 HG1257_PATCH 73122782 73132782 + -ENSG00000262022 HSCHR19_2_CTG3 21959807 21969807 - -ENSG00000262023 HG418_PATCH 143751344 143761344 - -ENSG00000262024 HSCHR22_1_CTG1 42599297 42609297 - -ENSG00000262028 HG388_HG400_PATCH 111749903 111759903 - -ENSG00000262029 HG1257_PATCH 75254853 75264853 - -ENSG00000262030 HG1257_PATCH 73138583 73148583 + -ENSG00000262037 HSCHR19_1_CTG3 20949254 20959254 + -ENSG00000262039 17 47438102 47448102 + -ENSG00000262044 HSCHR19LRC_COX1_CTG1 54746384 54756384 - -ENSG00000262045 HSCHR17_1_CTG4 39538652 39548652 - -ENSG00000262046 HG883_PATCH 26636121 26646121 + -ENSG00000262053 HSCHR19LRC_PGF1_CTG1 54693666 54703666 - -ENSG00000262057 HSCHR5_1_CTG1 70088427 70098427 + -ENSG00000262062 HG883_PATCH 26697843 26707843 - -ENSG00000262063 HG1257_PATCH 73537890 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54631436 54641436 + -ENSG00000262139 HSCHR12_3_CTG2_1 101495377 101505377 + -ENSG00000262143 HSCHR19LRC_PGF1_CTG1 55072658 55082658 - -ENSG00000262145 HSCHR12_1_CTG2_1 58325360 58335360 + -ENSG00000262149 HG729_PATCH 8642307 8652307 - -ENSG00000262150 HG418_PATCH 143751817 143761817 + -ENSG00000262156 HSCHR22_1_CTG2 39343638 39353638 + -ENSG00000262163 HSCHR19LRC_LRC_S_CTG1 55574134 55584134 - -ENSG00000262164 HSCHR17_4_CTG4 39123271 39133271 - -ENSG00000262168 HSCHR19LRC_PGF1_CTG1 54663620 54673620 - -ENSG00000262169 HSCHR5_1_CTG1 68845835 68855835 + -ENSG00000262170 HSCHR5_1_CTG1 68998358 69008358 - -ENSG00000262174 HSCHR19LRC_COX1_CTG1 54663619 54673619 - -ENSG00000262175 HSCHR19LRC_LRC_J_CTG1 55491661 55501661 + -ENSG00000262176 HG388_HG400_PATCH 111741499 111751499 + -ENSG00000262180 1 186359704 186369704 + -ENSG00000262182 HSCHR19LRC_COX2_CTG1 55070219 55080219 + -ENSG00000262184 HG1257_PATCH 73483054 73493054 + -ENSG00000262186 HG883_PATCH 26733229 26743229 - -ENSG00000262191 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HSCHR19LRC_PGF2_CTG1 55196299 55206299 + -ENSG00000262261 HSCHR5_1_CTG1 69510541 69520541 - -ENSG00000262263 HG1257_PATCH 75512960 75522960 - -ENSG00000262264 HG414_PATCH 76735442 76745442 + -ENSG00000262273 HG311_PATCH 118340481 118350481 + -ENSG00000262275 HG747_PATCH 66287232 66297232 - -ENSG00000262277 HG388_HG400_PATCH 111797926 111807926 + -ENSG00000262279 HG306_PATCH 112821997 112831997 + -ENSG00000262284 HSCHR19LRC_COX2_CTG1 54849383 54859383 - -ENSG00000262287 HSCHR19LRC_LRC_I_CTG1 55574773 55584773 + -ENSG00000262289 HSCHR19LRC_LRC_T_CTG1 55226243 55236243 + -ENSG00000262304 17 3512705 3522705 - -ENSG00000262305 HSCHR5_1_CTG1 69022766 69032766 - -ENSG00000262306 HG1257_PATCH 75288313 75298313 - -ENSG00000262315 HG142_HG150_NOVEL_TEST 56140706 56150706 + -ENSG00000262317 HSCHR19LRC_COX1_CTG1 54927889 54937889 + -ENSG00000262318 HG883_PATCH 26695033 26705033 - -ENSG00000262320 HSCHR19LRC_PGF1_CTG1 54746602 54756602 - -ENSG00000262321 HG1257_PATCH 75656855 75666855 + 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68626305 - -ENSG00000262418 HSCHR1_3_CTG31 198609657 198619657 + -ENSG00000262421 HG1257_PATCH 72434423 72444423 - -ENSG00000262430 HSCHR19LRC_PGF2_CTG1 55306948 55316948 + -ENSG00000262439 HSCHR19LRC_LRC_J_CTG1 55332150 55342150 + -ENSG00000262446 HSCHR1_2_CTG31 155229865 155239865 - -ENSG00000262447 HG883_PATCH 26652730 26662730 + -ENSG00000262448 HSCHR10_1_CTG5 45975396 45985396 - -ENSG00000262452 HSCHR2_1_CTG12 169763018 169773018 - -ENSG00000262457 HSCHR19LRC_LRC_S_CTG1 55477201 55487201 - -ENSG00000262459 HG1257_PATCH 73316116 73326116 + -ENSG00000262462 HSCHR19LRC_PGF1_CTG1 55017419 55027419 + -ENSG00000262467 HSCHR19LRC_LRC_S_CTG1 55576859 55586859 + -ENSG00000262472 HG747_PATCH 66022076 66032076 + -ENSG00000262473 HSCHR21_4_CTG1_1 34924706 34934706 - -ENSG00000262484 19 39402798 39412798 - -ENSG00000262485 HG325_PATCH 50365675 50375675 - -ENSG00000262489 HG256_PATCH 14380731 14390731 - -ENSG00000262494 HSCHR19LRC_PGF2_CTG1 55016196 55026196 + -ENSG00000262499 HG1257_PATCH 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75419033 + -ENSG00000262572 HG748_PATCH 77793198 77803198 - -ENSG00000262573 HSCHR17_6_CTG4 39372879 39382879 + -ENSG00000262576 5 140724768 140734768 + -ENSG00000262577 HG388_HG400_PATCH 111742304 111752304 - -ENSG00000262578 HG730_PATCH 20676544 20686544 - -ENSG00000262582 HSCHR19LRC_COX1_CTG1 54957787 54967787 + -ENSG00000262589 HG1257_PATCH 72773773 72783773 - -ENSG00000262594 HSCHR17_6_CTG4 39390266 39400266 + -ENSG00000262595 HG75_PATCH 34919530 34929530 + -ENSG00000262596 HSCHR19LRC_PGF2_CTG1 54969431 54979431 + -ENSG00000262599 HSCHR7_1_CTG6 141401956 141411956 - -ENSG00000262600 HG388_HG400_PATCH 111779600 111789600 + -ENSG00000262601 16 85194882 85204882 + -ENSG00000262602 HSCHR19LRC_PGF1_CTG1 54874862 54884862 + -ENSG00000262605 HSCHR5_1_CTG1 68503587 68513587 + -ENSG00000262607 HSCHR12_1_CTG1 110780 120780 + -ENSG00000262610 HG1079_PATCH 54816336 54826336 - -ENSG00000262611 HG142_HG150_NOVEL_TEST 56058566 56068566 - -ENSG00000262612 HSCHR12_2_CTG2 11244933 11254933 - 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HSCHR19LRC_LRC_I_CTG1 55405012 55415012 + -ENSG00000262683 HG1091_PATCH 61237194 61247194 - -ENSG00000262684 HG185_PATCH 40173905 40183905 - -ENSG00000262690 HSCHR19LRC_LRC_I_CTG1 55475115 55485115 - -ENSG00000262694 HG1257_PATCH 72987229 72997229 - -ENSG00000262705 HG998_1_PATCH 139131824 139141824 + -ENSG00000262716 HSCHR19LRC_COX1_CTG1 54683971 54693971 + -ENSG00000262717 HSCHR19LRC_PGF1_CTG1 55329394 55339394 + -ENSG00000262722 HG1211_PATCH 47047139 47057139 - -ENSG00000262727 HSCHR19LRC_COX1_CTG1 55055906 55065906 + -ENSG00000262729 HSCHR19LRC_PGF2_CTG1 55279311 55289311 - -ENSG00000262731 HSCHR17_4_CTG4 39211741 39221741 - -ENSG00000262736 HSCHR19LRC_COX1_CTG1 55398528 55408528 - -ENSG00000262739 HG7_PATCH 142521859 142531859 + -ENSG00000262740 HG388_HG400_PATCH 111943929 111953929 - -ENSG00000262742 HSCHR5_1_CTG2 94636885 94646885 - -ENSG00000262744 HG1257_PATCH 75333905 75343905 + -ENSG00000262747 HG747_PATCH 66233690 66243690 + -ENSG00000262748 HSCHR17_1_CTG4 39545959 39555959 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39207838 - -ENSG00000262811 HSCHR19LRC_LRC_S_CTG1 55466210 55476210 + -ENSG00000262812 HG299_PATCH 118927847 118937847 - -ENSG00000262814 17 79660387 79670387 + -ENSG00000262826 HSCHR1_1_CTG31 153707774 153717774 + -ENSG00000262827 HSCHR19LRC_PGF1_CTG1 55297542 55307542 + -ENSG00000262832 HSCHR19LRC_LRC_T_CTG1 55343391 55353391 + -ENSG00000262835 HSCHR19LRC_LRC_J_CTG1 55602310 55612310 + -ENSG00000262840 HG280_PATCH 57578372 57588372 - -ENSG00000262841 HSCHR5_1_CTG1 68520698 68530698 + -ENSG00000262843 HSCHR19LRC_PGF2_CTG1 54823469 54833469 - -ENSG00000262845 HSCHR17_4_CTG4 39143514 39153514 - -ENSG00000262847 HG1257_PATCH 75503024 75513024 + -ENSG00000262851 HG142_HG150_NOVEL_TEST 56000737 56010737 - -ENSG00000262852 HG388_HG400_PATCH 111772965 111782965 + -ENSG00000262858 HG747_PATCH 65811781 65821781 + -ENSG00000262860 HSCHR19_1_CTG3_1 34653352 34663352 + -ENSG00000262862 HSCHR17_4_CTG4 39216596 39226596 - -ENSG00000262866 HG883_PATCH 26662475 26672475 - -ENSG00000262867 HSCHR19LRC_LRC_J_CTG1 55574673 55584673 - -ENSG00000262868 HSCHR19LRC_PGF1_CTG1 54684138 54694138 + -ENSG00000262872 HSCHR15_1_CTG4 28789675 28799675 - -ENSG00000262874 19 51893828 51903828 - -ENSG00000262875 HG414_PATCH 76768037 76778037 + -ENSG00000262878 HSCHR19LRC_PGF1_CTG1 55497570 55507570 + -ENSG00000262886 HSCHR19LRC_COX1_CTG1 55387537 55397537 + -ENSG00000262887 HSCHR19LRC_COX1_CTG1 54898993 54908993 - -ENSG00000262889 HG1133_PATCH 11217063 11227063 - -ENSG00000262895 HG1257_PATCH 74850713 74860713 + -ENSG00000262896 HSCHR17_6_CTG4 39384569 39394569 + -ENSG00000262897 HSCHR19LRC_COX2_CTG1 55014581 55024581 + -ENSG00000262900 HSCHR19LRC_COX1_CTG1 55018925 55028925 + -ENSG00000262907 HSCHR2_2_CTG12 149622819 149632819 + -ENSG00000262908 HG1133_PATCH 11283582 11293582 - -ENSG00000262909 HG183_PATCH 62739428 62749428 - -ENSG00000262911 HSCHR21_4_CTG1_1 34873338 34883338 - -ENSG00000262917 HG183_PATCH 62574426 62584426 - -ENSG00000262918 HSCHR19_3_CTG3 22467417 22477417 + 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8773706 - -ENSG00000263001 HG1257_PATCH 74112661 74122661 + -ENSG00000263002 19 44635759 44645759 + -ENSG00000263005 HG325_PATCH 50378273 50388273 - -ENSG00000263007 HG388_HG400_PATCH 111784572 111794572 - -ENSG00000263008 HG1257_PATCH 74538820 74548820 - -ENSG00000263012 HSCHR17_1_CTG4 39526052 39536052 - -ENSG00000263014 HSCHR1_3_CTG31 198521291 198531291 - -ENSG00000263020 6 31623879 31633879 + -ENSG00000263021 HSCHR19LRC_PGF2_CTG1 54761160 54771160 - -ENSG00000263022 HSCHR17_1_CTG4 39588100 39598100 - -ENSG00000263024 HG1257_PATCH 73184615 73194615 - -ENSG00000263026 HSCHR19LRC_COX2_CTG1 55140331 55150331 - -ENSG00000263027 HSCHR19LRC_PGF1_CTG1 55161753 55171753 + -ENSG00000263028 HSCHR12_2_CTG2 11175219 11185219 - -ENSG00000263030 HSCHR19LRC_COX1_CTG1 54908565 54918565 - -ENSG00000263031 HG1063_PATCH 102455855 102465855 - -ENSG00000263032 HG388_HG400_PATCH 111885537 111895537 + -ENSG00000263040 HG1133_PATCH 11002074 11012074 - -ENSG00000263042 HSCHR7_1_CTG6 141404161 141414161 + 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HSCHR19LRC_COX1_CTG1 55328425 55338425 + -ENSG00000263101 HSCHR17_4_CTG4 39150512 39160512 - -ENSG00000263108 HSCHR19LRC_COX1_CTG1 55088298 55098298 + -ENSG00000263109 HSCHR19LRC_COX1_CTG1 54840931 54850931 + -ENSG00000263136 16 29817832 29827832 + -ENSG00000263138 HSCHR15_1_CTG8 66558222 66568222 - -ENSG00000263140 HSCHR21_3_CTG1_1 34134411 34144411 + -ENSG00000263141 HSCHR21_3_CTG1_1 34144169 34154169 - -ENSG00000263148 HG1497_PATCH 152694594 152704594 + -ENSG00000263151 HG1257_PATCH 73022959 73032959 - -ENSG00000263155 15 57874139 57884139 + -ENSG00000263156 HG325_PATCH 50263384 50273384 + -ENSG00000263160 HSCHR21_4_CTG1_1 34861875 34871875 - -ENSG00000263162 HSCHR15_1_CTG4 28567298 28577298 - -ENSG00000263163 HSCHR1_1_CTG31 153754061 153764061 + -ENSG00000263166 HSCHR19LRC_COX1_CTG1 54676909 54686909 - -ENSG00000263168 HSCHR19LRC_LRC_J_CTG1 55502652 55512652 - -ENSG00000263175 HSCHR19LRC_PGF2_CTG1 54999655 55009655 + -ENSG00000263184 HSCHR19LRC_PGF1_CTG1 55273720 55283720 + 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54704601 + -ENSG00000263334 HG1257_PATCH 75203904 75213904 - -ENSG00000263341 HSCHR17_1_CTG4 39471947 39481947 - -ENSG00000263344 HG1257_PATCH 73629202 73639202 + -ENSG00000263353 HG1292_PATCH 121422369 121432369 + -ENSG00000263376 HG1287_PATCH 150498785 150508785 - -ENSG00000263417 18 68317980 68327980 - -ENSG00000263440 HG871_PATCH 5447022 5457022 - -ENSG00000263461 HG1287_PATCH 146545495 146555495 - -ENSG00000263464 HG1287_PATCH 149169742 149179742 - -ENSG00000263480 HG1211_PATCH 47063665 47073665 + -ENSG00000263513 HG1287_PATCH 144658404 144668404 - -ENSG00000263521 HG1287_PATCH 150563390 150573390 + -ENSG00000263528 HG1293_PATCH 206524056 206534056 + -ENSG00000263560 HG1292_PATCH 121456861 121466861 - -ENSG00000263563 17 21720695 21730695 + -ENSG00000263588 18 19658021 19668021 + -ENSG00000263620 17 8066293 8076293 - -ENSG00000263639 HG1211_PATCH 46541772 46551772 - -ENSG00000263687 HG1293_PATCH 206265981 206275981 - -ENSG00000263699 HG1304_PATCH 112575769 112585769 - 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46313036 46323036 - -ENSG00000264325 HG1322_PATCH 29749097 29759097 + -ENSG00000264337 HG1287_PATCH 146284405 146294405 + -ENSG00000264343 HG1287_PATCH 146915449 146925449 - -ENSG00000264364 17 56150776 56160776 + -ENSG00000264369 HSCHR3_1_CTG1 11888253 11898253 - -ENSG00000264416 HG1287_PATCH 145772415 145782415 + -ENSG00000264424 17 10372876 10382876 - -ENSG00000264440 HG1304_PATCH 112398802 112408802 + -ENSG00000264472 18 66569492 66579492 - -ENSG00000264499 HG1287_PATCH 148579235 148589235 + -ENSG00000264509 HG1308_PATCH 130010212 130020212 + -ENSG00000264522 HG1287_PATCH 150697152 150707152 - -ENSG00000264524 HG1287_PATCH 150623313 150633313 - -ENSG00000264528 HG1304_PATCH 112408716 112418716 - -ENSG00000264547 HG883_PATCH 26941204 26951204 - -ENSG00000264561 HG1211_PATCH 48045198 48055198 - -ENSG00000264606 HG1293_PATCH 206087470 206097470 - -ENSG00000264654 HG1287_PATCH 150934189 150944189 + -ENSG00000264668 8 144319280 144329280 + -ENSG00000264708 HG1287_PATCH 149565878 149575878 + -ENSG00000264717 HG1211_PATCH 48322968 48332968 + -ENSG00000264719 HG1287_PATCH 150573097 150583097 - -ENSG00000264751 HG1322_PATCH 29784491 29794491 + -ENSG00000264776 HG1287_PATCH 148604808 148614808 + -ENSG00000264806 HG1287_PATCH 146500644 146510644 + -ENSG00000264820 HG1292_PATCH 121726941 121736941 - -ENSG00000264832 HG1211_PATCH 47417871 47427871 + -ENSG00000264842 HG1211_PATCH 46342921 46352921 - -ENSG00000264863 HG1287_PATCH 145891266 145901266 + -ENSG00000264872 HG1308_PATCH 130121934 130131934 + -ENSG00000264883 HG1211_PATCH 47987141 47997141 - -ENSG00000264980 HG1287_PATCH 147919099 147929099 + -ENSG00000264983 HG1287_PATCH 150082791 150092791 + -ENSG00000264992 HG1287_PATCH 149581598 149591598 - -ENSG00000265027 HG1293_PATCH 206180916 206190916 - -ENSG00000265096 17 77023683 77033683 - -ENSG00000265107 HG1287_PATCH 148445686 148455686 - -ENSG00000265111 HG1287_PATCH 146378217 146388217 - -ENSG00000265118 17 29645849 29655849 - -ENSG00000265133 HG1287_PATCH 150500096 150510096 - -ENSG00000265184 HG1293_PATCH 206689097 206699097 + -ENSG00000265190 HG1211_PATCH 47979503 47989503 - -ENSG00000265203 HG1211_PATCH 47833819 47843819 + -ENSG00000265228 HG1287_PATCH 150997891 151007891 + -ENSG00000265231 HG871_PATCH 5060192 5070192 - -ENSG00000265232 HG1287_PATCH 144592381 144602381 - -ENSG00000265241 HG1287_PATCH 146613951 146623951 - -ENSG00000265277 HG1287_PATCH 148356927 148366927 - -ENSG00000265303 17 57264927 57274927 + -ENSG00000265307 HG1287_PATCH 150604297 150614297 - -ENSG00000265346 HG1287_PATCH 150922509 150932509 - -ENSG00000265352 18 69449517 69459517 - -ENSG00000265354 HG1211_PATCH 46457949 46467949 + -ENSG00000265385 HG962_PATCH 70866572 70876572 - -ENSG00000265434 HG1322_PATCH 29892213 29902213 + -ENSG00000265476 HG1293_PATCH 206561289 206571289 - -ENSG00000265491 HG1287_PATCH 146510487 146520487 - -ENSG00000265531 HG1287_PATCH 144551208 144561208 + -ENSG00000265551 HG1211_PATCH 46212667 46222667 + -ENSG00000265570 HG1287_PATCH 150564305 150574305 + -ENSG00000265590 21 33984591 33994591 - -ENSG00000265594 HG1308_PATCH 130081078 130091078 - -ENSG00000265608 HG871_PATCH 5397201 5407201 + -ENSG00000265629 2 14765215 14775215 + -ENSG00000265681 18 47018906 47028906 - -ENSG00000265685 HG871_PATCH 5125985 5135985 + -ENSG00000265763 HG1211_PATCH 47879786 47889786 - -ENSG00000265808 HG1292_PATCH 120719144 120729144 - -ENSG00000265817 8 95449170 95459170 - -ENSG00000265823 HG1293_PATCH 206676020 206686020 - -ENSG00000265832 HG1287_PATCH 146605252 146615252 - -ENSG00000265880 HG962_PATCH 70846397 70856397 + -ENSG00000265944 18 6501415 6511415 + -ENSG00000265970 HG1287_PATCH 146708150 146718150 - -ENSG00000265972 HG1287_PATCH 146682902 146692902 - -ENSG00000266028 HG1293_PATCH 206259470 206269470 + -ENSG00000266054 HG1287_PATCH 146522044 146532044 + -ENSG00000266074 HG271_PATCH 79359275 79369275 + -ENSG00000266086 17 56082614 56092614 - -ENSG00000266094 HG1293_PATCH 206561091 206571091 + -ENSG00000266095 HG1287_PATCH 148217827 148227827 + -ENSG00000266134 HG1304_PATCH 112365275 112375275 + -ENSG00000266157 HG962_PATCH 70907783 70917783 + -ENSG00000266159 HG1308_PATCH 130351086 130361086 - -ENSG00000266170 HG1211_PATCH 46961329 46971329 - -ENSG00000266173 17 61819169 61829169 - -ENSG00000266177 HG1287_PATCH 150944615 150954615 + -ENSG00000266198 HG1287_PATCH 147858959 147868959 - -ENSG00000266202 17 26220391 26230391 - -ENSG00000266208 17 38506907 38516907 + -ENSG00000266225 HG1287_PATCH 150527491 150537491 + -ENSG00000266249 HG1287_PATCH 146404640 146414640 + -ENSG00000266258 18 67992675 68002675 + -ENSG00000266265 HG1308_PATCH 130397715 130407715 - -ENSG00000266286 HSCHR17_4_CTG4 39230638 39240638 + -ENSG00000266292 HG1308_PATCH 129974687 129984687 + -ENSG00000266332 HG1287_PATCH 150459105 150469105 + -ENSG00000266334 HG1287_PATCH 150955414 150965414 - -ENSG00000266338 HG1287_PATCH 145143224 145153224 - -ENSG00000266359 HG871_PATCH 5229053 5239053 + -ENSG00000266412 HG1211_PATCH 46526162 46536162 - -ENSG00000266472 HG1287_PATCH 150970264 150980264 + -ENSG00000266524 HG1211_PATCH 47785834 47795834 + -ENSG00000266562 HG1287_PATCH 151041126 151051126 + -ENSG00000266592 HG871_PATCH 4995445 5005445 + -ENSG00000266607 HG962_PATCH 70961815 70971815 + -ENSG00000266614 18 73961121 73971121 + -ENSG00000266641 HG1293_PATCH 206738598 206748598 + -ENSG00000266662 HG271_PATCH 79492332 79502332 + -ENSG00000266714 17 73588598 73598598 + -ENSG00000266733 17 28874130 28884130 + -ENSG00000266741 HG1287_PATCH 146641118 146651118 + -ENSG00000266748 HG1287_PATCH 147912053 147922053 - -ENSG00000266764 HG1287_PATCH 150959234 150969234 + -ENSG00000266766 HG1292_PATCH 120612326 120622326 - -ENSG00000266779 HG1308_PATCH 130332402 130342402 - -ENSG00000266796 HG1322_PATCH 29839263 29849263 + -ENSG00000266949 1 248903150 248913150 - -ENSG00000266953 19 34877220 34887220 + -ENSG00000266956 17 34302621 34312621 + -ENSG00000266958 19 45680646 45690646 + -ENSG00000266964 19 35620926 35630926 + -ENSG00000266967 17 41116493 41126493 - -ENSG00000266996 18 44544607 44554607 - -ENSG00000267001 19 2740046 2750046 - -ENSG00000267041 19 37263716 37273716 - -ENSG00000267060 17 41132450 41142450 - -ENSG00000267106 19 9722193 9732193 + -ENSG00000267114 19 45457264 45467264 - -ENSG00000267140 18 33077904 33087904 - -ENSG00000267157 19 5785630 5795630 - -ENSG00000267168 17 74719060 74729060 + -ENSG00000267173 19 44905774 44915774 - -ENSG00000267179 19 12025890 12035890 + -ENSG00000267206 9 139642980 139652980 - -ENSG00000267229 HG388_HG400_PATCH 111750144 111760144 - -ENSG00000267260 19 37254055 37264055 + -ENSG00000267261 17 40306934 40316934 - -ENSG00000267270 18 77895808 77905808 + -ENSG00000267281 12 54019763 54029763 - -ENSG00000267318 17 58008269 58018269 + -ENSG00000267335 19 49540152 49550152 - -ENSG00000267360 19 37697976 37707976 - -ENSG00000267368 7 102283238 102293238 - -ENSG00000267467 19 45435495 45445495 + -ENSG00000267483 HG748_PATCH 77478680 77488680 - -ENSG00000267496 17 41984576 41994576 + -ENSG00000267508 19 44905755 44915755 - -ENSG00000267531 19 55841254 55851254 + -ENSG00000267534 19 10341948 10351948 - -ENSG00000267556 HG883_PATCH 26689154 26699154 + -ENSG00000267561 1 87448692 87458692 + -ENSG00000267596 17 34329084 34339084 - -ENSG00000267618 17 33448512 33458512 - -ENSG00000267619 HG299_PATCH 118879476 118889476 + -ENSG00000267631 19 49540073 49550073 - -ENSG00000267635 HSCHR17_5_CTG4 39411610 39421610 + -ENSG00000267673 19 10426691 10436691 - -ENSG00000267680 19 44588545 44598545 + -ENSG00000267697 7 135612198 135622198 - -ENSG00000267710 19 56785550 56795550 + -ENSG00000267721 HG883_PATCH 26674604 26684604 + -ENSG00000267728 HSCHR17_5_CTG4 39401573 39411573 + -ENSG00000267740 19 5903714 5913714 - -ENSG00000267748 19 38769791 38779791 + -ENSG00000267757 19 46134949 46144949 + -ENSG00000267772 17 58631908 58641908 + -ENSG00000267795 16 4828457 4838457 + -ENSG00000267796 19 36229262 36239262 + -ENSG00000267802 14 52436247 52446247 - -ENSG00000267806 HG1502_PATCH 132906498 132916498 - -ENSG00000267807 HG271_PATCH 79486581 79496581 - -ENSG00000267812 21 37270727 37280727 - -ENSG00000267816 HG1459_PATCH 148587069 148597069 - -ENSG00000267819 12 131770067 131780067 + -ENSG00000267823 HG1436_HG1432_PATCH 48757542 48767542 - -ENSG00000267824 16 20489024 20499024 + -ENSG00000267825 HG1497_PATCH 152072914 152082914 + -ENSG00000267829 HG1436_HG1432_PATCH 48830968 48840968 - -ENSG00000267840 HSCHR6_MHC_SSTO 31464452 31474452 + -ENSG00000267841 HG1436_HG1432_PATCH 48635953 48645953 + -ENSG00000267843 HG1436_HG1432_PATCH 48446891 48456891 + -ENSG00000267845 9 139219640 139229640 - -ENSG00000267846 HG1287_PATCH 148846564 148856564 - -ENSG00000267848 20 62575007 62585007 + -ENSG00000267849 6 44400720 44410720 - -ENSG00000267854 HSCHR19LRC_PGF1_CTG1 55226659 55236659 + -ENSG00000267855 19 8386280 8396280 - -ENSG00000267857 21 46534873 46544873 - -ENSG00000267864 HG1433_PATCH 52450161 52460161 - -ENSG00000267867 HG122_PATCH 118467213 118477213 + -ENSG00000267873 12 52699128 52709128 + -ENSG00000267876 HG329_PATCH 19137796 19147796 - -ENSG00000267878 HG1436_HG1432_PATCH 48778423 48788423 - -ENSG00000267880 19 51378040 51388040 - -ENSG00000267881 19 42202531 42212531 + -ENSG00000267882 20 45937246 45947246 + -ENSG00000267883 21 47190005 47200005 - -ENSG00000267884 1 166028709 166038709 - -ENSG00000267885 1 33429268 33439268 + -ENSG00000267889 2 203094292 203104292 + -ENSG00000267891 HG1438_PATCH 72213363 72223363 + -ENSG00000267893 17 70026164 70036164 + -ENSG00000267894 HG27_PATCH 26659980 26669980 - -ENSG00000267900 HG1462_PATCH 114516223 114526223 + -ENSG00000267901 14 71683462 71693462 - -ENSG00000267906 7 16818866 16828866 + -ENSG00000267908 19 56741773 56751773 + -ENSG00000267909 14 70040339 70050339 - -ENSG00000267910 HG122_PATCH 118297205 118307205 + -ENSG00000267912 HG1436_HG1432_PATCH 48533178 48543178 + -ENSG00000267913 21 45593580 45603580 - -ENSG00000267915 HG1497_PATCH 152998962 153008962 - -ENSG00000267918 14 101295537 101305537 - -ENSG00000267923 HSCHR19LRC_PGF1_CTG1 54798404 54808404 - -ENSG00000267929 HG1436_HG1432_PATCH 48771045 48781045 - -ENSG00000267935 Y 25837479 25847479 + -ENSG00000267937 21 38878740 38888740 + -ENSG00000267941 7 65929543 65939543 + -ENSG00000267942 12 66317967 66327967 - -ENSG00000267946 HG1497_PATCH 154781404 154791404 - -ENSG00000267950 11 1285809 1295809 + -ENSG00000267951 HG1497_PATCH 153044416 153054416 - -ENSG00000267952 19 7561968 7571968 + -ENSG00000267954 22 24126145 24136145 - -ENSG00000267955 HG122_PATCH 118305921 118315921 - -ENSG00000267958 2 74408517 74418517 + -ENSG00000267960 HG1442_PATCH 119211705 119221705 - -ENSG00000267963 2 241043907 241053907 + -ENSG00000267964 10 75532378 75542378 - -ENSG00000267970 7 48877362 48887362 + -ENSG00000267972 HG1433_PATCH 50213722 50223722 - -ENSG00000267976 21 37848165 37858165 + -ENSG00000267977 HG1497_PATCH 152892566 152902566 - -ENSG00000267978 HG1459_PATCH 148669174 148679174 - -ENSG00000267979 3 172019686 172029686 - -ENSG00000267981 11 129926836 129936836 + -ENSG00000267983 HG1436_HG1432_PATCH 48817030 48827030 - -ENSG00000267985 7 72449478 72459478 + -ENSG00000267987 9 124093625 124103625 + -ENSG00000267988 7 45906045 45916045 - -ENSG00000267989 HG1497_PATCH 152962995 152972995 - -ENSG00000267993 HG1497_PATCH 153580558 153590558 - -ENSG00000267995 HG1433_PATCH 52397900 52407900 - -ENSG00000268000 19 49993781 50003781 + -ENSG00000268009 HG1436_HG1432_PATCH 48232915 48242915 + -ENSG00000268012 5 78523911 78533911 - -ENSG00000268013 HG1497_PATCH 153454139 153464139 + -ENSG00000268016 HG1436_HG1432_PATCH 49350732 49360732 + -ENSG00000268018 HG1433_PATCH 51626639 51636639 + -ENSG00000268021 HG122_PATCH 118550387 118560387 - -ENSG00000268024 17 32582306 32592306 - -ENSG00000268025 HG736_PATCH 56889377 56899377 - -ENSG00000268028 12 65090329 65100329 - -ENSG00000268029 HG1440_PATCH 101726784 101736784 - -ENSG00000268035 HG1438_PATCH 72347930 72357930 - -ENSG00000268037 HSCHR19LRC_PGF1_CTG1 54761159 54771159 - -ENSG00000268040 21 47352477 47362477 - -ENSG00000268043 HG1287_PATCH 147636386 147646386 + -ENSG00000268046 18 8337038 8347038 - -ENSG00000268059 6 13621126 13631126 - -ENSG00000268060 HG1082_HG167_PATCH 140561954 140571954 + -ENSG00000268064 HSCHR19LRC_PGF1_CTG1 54956403 54966403 + -ENSG00000268069 12 48168706 48178706 + -ENSG00000268076 12 25371515 25381515 + -ENSG00000268080 8 94231867 94241867 + -ENSG00000268083 19 39330818 39340818 - -ENSG00000268084 HG1497_PATCH 154001139 154011139 - -ENSG00000268085 8 23420651 23430651 - -ENSG00000268089 HG1497_PATCH 151796655 151806655 + -ENSG00000268090 HG1436_HG1432_PATCH 49628702 49638702 + -ENSG00000268091 12 131514769 131524769 - -ENSG00000268098 21 37392368 37402368 + -ENSG00000268103 HG1459_PATCH 146983767 146993767 + -ENSG00000268104 HG1463_PATCH 115542912 115552912 + -ENSG00000268109 HG1497_PATCH 154185153 154195153 + -ENSG00000268110 HG122_PATCH 118220359 118230359 + -ENSG00000268111 20 44107452 44117452 - -ENSG00000268113 HG1433_PATCH 51797255 51807255 - -ENSG00000268122 HG1459_PATCH 148845790 148855790 + -ENSG00000268123 HG344_PATCH 7043186 7053186 + -ENSG00000268126 5 147688550 147698550 + -ENSG00000268130 13 113756608 113766608 - -ENSG00000268133 19 57864934 57874934 + -ENSG00000268134 HG1433_PATCH 52630400 52640400 + -ENSG00000268135 HG344_PATCH 7003897 7013897 + -ENSG00000268136 HG344_PATCH 6961230 6971230 - -ENSG00000268138 HG1436_HG1432_PATCH 48359177 48369177 + -ENSG00000268139 HG1436_HG1432_PATCH 49045768 49055768 - -ENSG00000268141 1 154575067 154585067 + -ENSG00000268142 HG1436_HG1432_PATCH 48747655 48757655 + -ENSG00000268146 1 244217632 244227632 + -ENSG00000268151 HG1439_PATCH 100914831 100924831 - -ENSG00000268154 1 161025655 161035655 + -ENSG00000268155 9 5084580 5094580 - -ENSG00000268156 14 77872741 77882741 + -ENSG00000268158 HG1433_PATCH 53926255 53936255 - -ENSG00000268159 HG1438_PATCH 71986998 71996998 + -ENSG00000268160 HG1497_PATCH 153684710 153694710 - -ENSG00000268162 12 57380745 57390745 + -ENSG00000268163 19 57988871 57998871 - -ENSG00000268170 7 142919360 142929360 - -ENSG00000268171 4 57266682 57276682 + -ENSG00000268172 1 144979309 144989309 + -ENSG00000268175 3 149679066 149689066 + -ENSG00000268176 HG1441_PATCH 103357440 103367440 + -ENSG00000268179 1 866445 876445 - -ENSG00000268181 7 62858860 62868860 - -ENSG00000268182 19 57144513 57154513 + -ENSG00000268187 HG736_PATCH 56891226 56901226 - -ENSG00000268188 HG1433_PATCH 53177373 53187373 - -ENSG00000268190 HG344_PATCH 6982500 6992500 - -ENSG00000268192 11 119027930 119037930 - -ENSG00000268194 2 121223697 121233697 - -ENSG00000268195 HG344_PATCH 6939375 6949375 + -ENSG00000268196 HG1497_PATCH 151857224 151867224 + -ENSG00000268206 17 26628667 26638667 + -ENSG00000268208 14 78228033 78238033 - -ENSG00000268210 HG1459_PATCH 144899125 144909125 + -ENSG00000268211 9 131052367 131062367 + -ENSG00000268212 HG1423_PATCH 36236735 36246735 + -ENSG00000268213 HG1439_PATCH 100872988 100882988 - -ENSG00000268214 HSCHR19LRC_COX2_CTG1 54940192 54950192 + -ENSG00000268217 5 72884203 72894203 + -ENSG00000268218 16 89324512 89334512 + -ENSG00000268221 HG1497_PATCH 153341086 153351086 + -ENSG00000268223 5 115377163 115387163 + -ENSG00000268226 HG1497_PATCH 153921224 153931224 + -ENSG00000268229 HG1437_PATCH 62974583 62984583 - -ENSG00000268235 HG1440_PATCH 101460273 101470273 + -ENSG00000268239 HG1453_PATCH 140661600 140671600 + -ENSG00000268241 2 175202151 175212151 - -ENSG00000268242 11 11747257 11757257 - -ENSG00000268248 HG736_PATCH 56883671 56893671 - -ENSG00000268249 HG1439_PATCH 100604184 100614184 - -ENSG00000268256 HG1436_HG1432_PATCH 48056162 48066162 - -ENSG00000268259 HG1441_PATCH 103509862 103519862 - -ENSG00000268260 HG1436_HG1432_PATCH 47853735 47863735 + -ENSG00000268264 HG1436_HG1432_PATCH 50004164 50014164 + -ENSG00000268265 21 34947645 34957645 - -ENSG00000268269 HG1433_PATCH 52815367 52825367 + -ENSG00000268273 HG1433_PATCH 51476385 51486385 + -ENSG00000268274 HG1497_PATCH 152644328 152654328 + -ENSG00000268275 6 41643964 41653964 + -ENSG00000268276 GL000221.1 62753 72753 - -ENSG00000268280 5 55224569 55234569 - -ENSG00000268281 HG1497_PATCH 153103693 153113693 - -ENSG00000268301 12 11177087 11187087 + -ENSG00000268302 20 25207370 25217370 - -ENSG00000268310 17 76220740 76230740 - -ENSG00000268312 HG1433_PATCH 53788249 53798249 - -ENSG00000268313 1 205672497 205682497 + -ENSG00000268314 HG1459_PATCH 148612364 148622364 + -ENSG00000268317 16 56666150 56676150 - -ENSG00000268320 HG417_PATCH 67571 77571 + -ENSG00000268324 3 46588888 46598888 + -ENSG00000268327 15 59429899 59439899 + -ENSG00000268328 2 70129841 70139841 - -ENSG00000268329 HG1208_PATCH 57759642 57769642 + -ENSG00000268330 HG1257_PATCH 74841107 74851107 - -ENSG00000268332 1 6101399 6111399 - -ENSG00000268337 HG1459_PATCH 148853652 148863652 + -ENSG00000268341 19 45832445 45842445 + -ENSG00000268343 15 20994687 21004687 + -ENSG00000268344 13 26452679 26462679 - -ENSG00000268349 HG1442_PATCH 119249900 119259900 - -ENSG00000268350 HG1433_PATCH 52701414 52711414 - -ENSG00000268351 11 69587718 69597718 - -ENSG00000268353 HG1436_HG1432_PATCH 49059658 49069658 - -ENSG00000268358 5 111745280 111755280 + -ENSG00000268359 HG1497_PATCH 154433057 154443057 - -ENSG00000268361 19 44097188 44107188 - -ENSG00000268365 1 240643504 240653504 - -ENSG00000268367 12 57800198 57810198 + -ENSG00000268368 HG1440_PATCH 101771756 101781756 - -ENSG00000268372 HG1433_PATCH 53064324 53074324 - -ENSG00000268377 HG1440_PATCH 101397477 101407477 - -ENSG00000268381 HG1441_PATCH 103268616 103278616 - -ENSG00000268384 HG1497_PATCH 153130795 153140795 + -ENSG00000268387 1 161180160 161190160 + -ENSG00000268393 HG1436_HG1432_PATCH 47980056 47990056 + -ENSG00000268394 HG1436_HG1432_PATCH 48370557 48380557 + -ENSG00000268396 2 239182329 239192329 + -ENSG00000268397 5 180672720 180682720 + -ENSG00000268402 6 143749575 143759575 + -ENSG00000268403 11 9482010 9492010 - -ENSG00000268412 2 26251481 26261481 - -ENSG00000268413 17 42325297 42335297 + -ENSG00000268417 HG1462_PATCH 114470542 114480542 - -ENSG00000268421 10 131309525 131319525 - -ENSG00000268422 HG1459_PATCH 148952863 148962863 + -ENSG00000268423 19 47104118 47114118 - -ENSG00000268424 5 101559696 101569696 + -ENSG00000268426 HG1436_HG1432_PATCH 48678272 48688272 + -ENSG00000268427 22 50704103 50714103 + -ENSG00000268429 HG417_PATCH 121634 131634 - -ENSG00000268430 HG865_PATCH 71020867 71030867 - -ENSG00000268431 HG1424_PATCH 37199392 37209392 + -ENSG00000268432 5 157161727 157171727 - -ENSG00000268434 19 46288971 46298971 - -ENSG00000268439 HG344_PATCH 7069944 7079944 + -ENSG00000268440 HG1497_PATCH 154374834 154384834 + -ENSG00000268444 HG1497_PATCH 152934884 152944884 + -ENSG00000268447 HG1433_PATCH 52484231 52494231 + -ENSG00000268456 HG1462_PATCH 114255443 114265443 - -ENSG00000268457 20 30299001 30309001 + -ENSG00000268461 19 20048639 20058639 - -ENSG00000268462 HG344_PATCH 6951292 6961292 + -ENSG00000268465 19 48959094 48969094 + -ENSG00000268466 14 58744751 58754751 + -ENSG00000268467 11 107452471 107462471 + -ENSG00000268470 17 76484911 76494911 + -ENSG00000268472 11 112120988 112130988 + -ENSG00000268476 HG1433_PATCH 52782091 52792091 + -ENSG00000268482 9 35361262 35371262 - -ENSG00000268484 15 96894487 96904487 + -ENSG00000268485 2 242157319 242167319 + -ENSG00000268486 HG1486_PATCH 16713306 16723306 - -ENSG00000268488 15 44075231 44085231 - -ENSG00000268489 HG1436_HG1432_PATCH 48423937 48433937 + -ENSG00000268490 HG1458_PATCH 142605261 142615261 - -ENSG00000268498 HG1438_PATCH 71792953 71802953 - -ENSG00000268500 19 52150142 52160142 - -ENSG00000268501 HG1436_HG1432_PATCH 49084866 49094866 + -ENSG00000268503 17 7507264 7517264 + -ENSG00000268509 3 5229982 5239982 - -ENSG00000268512 HG1497_PATCH 151999249 152009249 - -ENSG00000268519 12 77950568 77960568 - -ENSG00000268524 HG1436_HG1432_PATCH 49329268 49339268 + -ENSG00000268531 15 22001370 22011370 + 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153659096 153669096 - -ENSG00000268606 HG1497_PATCH 151922350 151932350 - -ENSG00000268612 HG27_PATCH 26587180 26597180 + -ENSG00000268624 HG1497_PATCH 152215502 152225502 + -ENSG00000268626 17 72348271 72358271 - -ENSG00000268628 20 19738679 19748679 - -ENSG00000268629 HG375_PATCH 104465356 104475356 - -ENSG00000268630 HG1443_HG1444_PATCH 134644688 134654688 + -ENSG00000268632 15 42076229 42086229 - -ENSG00000268635 11 77174416 77184416 + -ENSG00000268637 HSCHR6_MHC_DBB 31443933 31453933 - -ENSG00000268640 12 137052 147052 + -ENSG00000268642 HG1439_PATCH 100653283 100663283 + -ENSG00000268643 19 42759284 42769284 - -ENSG00000268644 HG1497_PATCH 152160689 152170689 - -ENSG00000268646 HG1436_HG1432_PATCH 48695033 48705033 - -ENSG00000268651 HG1497_PATCH 153743622 153753622 + -ENSG00000268656 2 28009186 28019186 - -ENSG00000268657 14 92041383 92051383 - -ENSG00000268662 1 186365908 186375908 - -ENSG00000268667 HG1441_PATCH 103207580 103217580 + -ENSG00000268668 HG1433_PATCH 50557044 50567044 - -ENSG00000268671 HG1497_PATCH 152639059 152649059 - -ENSG00000268674 1 16855561 16865561 + -ENSG00000268675 HG1436_HG1432_PATCH 48983200 48993200 - -ENSG00000268679 HG1436_HG1432_PATCH 48861663 48871663 - -ENSG00000268682 HG1433_PATCH 51812272 51822272 - -ENSG00000268688 2 37068530 37078530 - -ENSG00000268690 HG1497_PATCH 153595388 153605388 + -ENSG00000268691 HG1453_PATCH 140259290 140269290 - -ENSG00000268693 HG417_PATCH 292805 302805 - -ENSG00000268695 HG1443_HG1444_PATCH 134305428 134315428 - -ENSG00000268699 HG1497_PATCH 153919545 153929545 - -ENSG00000268700 HG1497_PATCH 154239694 154249694 - -ENSG00000268702 14 23791484 23801484 - -ENSG00000268706 18 61609601 61619601 - -ENSG00000268708 9 44326077 44336077 - -ENSG00000268709 HG1459_PATCH 148783800 148793800 + -ENSG00000268712 HG1436_HG1432_PATCH 48611149 48621149 + -ENSG00000268714 5 115348088 115358088 + -ENSG00000268716 12 52912915 52922915 + -ENSG00000268719 HSCHR6_MHC_COX 29810766 29820766 - -ENSG00000268722 HG1439_PATCH 100733031 100743031 + -ENSG00000268728 HSCHR6_MHC_QBL 31464803 31474803 + -ENSG00000268730 15 99859828 99869828 - -ENSG00000268733 HG1502_PATCH 132924857 132934857 + -ENSG00000268735 13 24312243 24322243 + -ENSG00000268737 HG1459_PATCH 144889886 144899886 + -ENSG00000268738 HG1459_PATCH 148677036 148687036 - -ENSG00000268740 HG1436_HG1432_PATCH 48544953 48554953 + -ENSG00000268750 19 58321174 58331174 + -ENSG00000268757 HG1497_PATCH 152883340 152893340 + -ENSG00000268759 15 32764822 32774822 + -ENSG00000268760 HG1442_PATCH 119445396 119455396 - -ENSG00000268762 HG1437_PATCH 62570809 62580809 - -ENSG00000268763 HSCHR12_2_CTG2 11177087 11187087 + -ENSG00000268765 HG1424_PATCH 37630073 37640073 + -ENSG00000268767 HG1462_PATCH 114819977 114829977 + -ENSG00000268768 HG1497_PATCH 153139652 153149652 - -ENSG00000268779 HG344_PATCH 6888638 6898638 + -ENSG00000268781 4 3511678 3521678 - -ENSG00000268786 HG1436_HG1432_PATCH 48434286 48444286 - -ENSG00000268788 4 76861883 76871883 + 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- -ENSG00000268858 20 62493217 62503217 - -ENSG00000268861 19 7435850 7445850 + -ENSG00000268862 HG1497_PATCH 153616749 153626749 + -ENSG00000268863 16 30997533 31007533 - -ENSG00000268864 19 54106751 54116751 - -ENSG00000268865 12 25045243 25055243 + -ENSG00000268870 19 12551896 12561896 - -ENSG00000268871 HG1459_PATCH 149020533 149030533 - -ENSG00000268872 HG344_PATCH 7023626 7033626 + -ENSG00000268876 HG1497_PATCH 153094731 153104731 - -ENSG00000268882 10 135193102 135203102 - -ENSG00000268883 HG1497_PATCH 152246021 152256021 - -ENSG00000268885 5 657759 667759 + -ENSG00000268891 7 75005425 75015425 - -ENSG00000268897 HG1439_PATCH 100641183 100651183 - -ENSG00000268898 2 40478147 40488147 + -ENSG00000268904 HG1497_PATCH 153570024 153580024 + -ENSG00000268916 HG1497_PATCH 151917690 151927690 + -ENSG00000268919 HG1442_PATCH 119282524 119292524 + -ENSG00000268920 HG1497_PATCH 151902207 151912207 - -ENSG00000268923 6 31974881 31984881 - -ENSG00000268925 10 135342661 135352661 - 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HG1458_PATCH 142809209 142819209 - -ENSG00000268991 1 17060956 17070956 - -ENSG00000268996 9 139981121 139991121 - -ENSG00000269000 2 107103848 107113848 - -ENSG00000269002 HG1436_HG1432_PATCH 49117904 49127904 - -ENSG00000269003 HG1433_PATCH 51065231 51075231 + -ENSG00000269007 HG1497_PATCH 153647725 153657725 - -ENSG00000269010 HG1463_PATCH 115579336 115589336 - -ENSG00000269011 21 15053459 15063459 - -ENSG00000269016 HG1436_HG1432_PATCH 49388928 49398928 + -ENSG00000269018 11 65359947 65369947 - -ENSG00000269020 HSCHR6_MHC_MCF 31550862 31560862 + -ENSG00000269026 19 58183413 58193413 + -ENSG00000269027 5 35041012 35051012 + -ENSG00000269028 3 96337000 96347000 - -ENSG00000269030 HG1436_HG1432_PATCH 49153068 49163068 + -ENSG00000269031 HG1459_PATCH 149640341 149650341 + -ENSG00000269034 HG1436_HG1432_PATCH 49021325 49031325 + -ENSG00000269035 19 17571613 17581613 - -ENSG00000269036 HG1443_HG1444_PATCH 135109497 135119497 + -ENSG00000269041 HG1459_PATCH 148615657 148625657 - 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103341141 - -ENSG00000269230 HG1423_PATCH 37016476 37026476 + -ENSG00000269231 HG1443_HG1444_PATCH 135107976 135117976 - -ENSG00000269240 HG1436_HG1432_PATCH 49722014 49732014 + -ENSG00000269249 HG1433_PATCH 52545204 52555204 + -ENSG00000269257 HG1426_PATCH 77400660 77410660 - -ENSG00000269259 10 102872536 102882536 + -ENSG00000269261 HG1497_PATCH 154191221 154201221 - -ENSG00000269265 HG1433_PATCH 53155941 53165941 + -ENSG00000269267 5 60411762 60421762 - -ENSG00000269277 HG1479_PATCH 133777054 133787054 + -ENSG00000269278 HG122_PATCH 118436750 118446750 - -ENSG00000269279 1 116926718 116936718 - -ENSG00000269282 12 48749919 48759919 + -ENSG00000269283 HG971_PATCH 99638309 99648309 + -ENSG00000269285 HG1436_HG1432_PATCH 50010412 50020412 - -ENSG00000269291 Y 15408467 15418467 + -ENSG00000269295 9 71869642 71879642 - -ENSG00000269301 HG329_PATCH 19435745 19445745 - -ENSG00000269302 4 187112626 187122626 - -ENSG00000269305 9 4859260 4869260 - -ENSG00000269308 1 808043 818043 + -ENSG00000269309 HG1453_PATCH 140324661 140334661 - -ENSG00000269313 HG1436_HG1432_PATCH 49012242 49022242 + -ENSG00000269314 HG1146_PATCH 43955041 43965041 - -ENSG00000269315 HG1439_PATCH 100635812 100645812 + -ENSG00000269319 HG122_PATCH 118391917 118401917 + -ENSG00000269324 HG1502_PATCH 133307044 133317044 + -ENSG00000269326 HG1497_PATCH 153973989 153983989 - -ENSG00000269327 HG1443_HG1444_PATCH 134468825 134478825 + -ENSG00000269329 HG1497_PATCH 153543094 153553094 - -ENSG00000269334 HG1436_HG1432_PATCH 47863377 47873377 - -ENSG00000269335 HG1497_PATCH 153705815 153715815 + -ENSG00000269336 HG1497_PATCH 151989439 151999439 + -ENSG00000269337 9 70636589 70646589 + -ENSG00000269339 12 51609860 51619860 + -ENSG00000269342 HG1497_PATCH 152639059 152649059 - -ENSG00000269343 19 58331663 58341663 + -ENSG00000269358 1 224216371 224226371 - -ENSG00000269360 15 93739295 93749295 + -ENSG00000269363 2 232571621 232581621 - -ENSG00000269367 12 42614050 42624050 + -ENSG00000269375 14 101349265 101359265 + -ENSG00000269380 HG1424_PATCH 37535821 37545821 + -ENSG00000269381 HG122_PATCH 118272610 118282610 - -ENSG00000269382 HG122_PATCH 118433139 118443139 + -ENSG00000269383 2 100987007 100997007 - -ENSG00000269384 HG1433_PATCH 53165728 53175728 - -ENSG00000269389 HG1436_HG1432_PATCH 48939286 48949286 - -ENSG00000269390 HG1462_PATCH 114955819 114965819 - -ENSG00000269393 Y 28114889 28124889 - -ENSG00000269394 HG1146_PATCH 44067977 44077977 + -ENSG00000269395 HG1426_PATCH 77161656 77171656 + -ENSG00000269396 7 292918 302918 + -ENSG00000269402 17 30506885 30516885 - -ENSG00000269404 19 50912195 50922195 + -ENSG00000269405 HG1440_PATCH 101492072 101502072 + -ENSG00000269406 HG1257_PATCH 72443906 72453906 + -ENSG00000269407 20 23334066 23344066 - -ENSG00000269408 9 138151275 138161275 - -ENSG00000269411 HG1459_PATCH 150055008 150065008 + -ENSG00000269415 3 59957583 59967583 - -ENSG00000269417 2 85122345 85132345 - -ENSG00000269422 16 88884366 88894366 + -ENSG00000269430 21 45869814 45879814 + -ENSG00000269433 HG1497_PATCH 153416025 153426025 + -ENSG00000269436 HG1459_PATCH 144318545 144328545 + -ENSG00000269437 HG1440_PATCH 101694980 101704980 - -ENSG00000269438 HG1433_PATCH 49959416 49969416 + -ENSG00000269446 7 156892674 156902674 + -ENSG00000269448 HG1433_PATCH 51139915 51149915 + -ENSG00000269449 7 95161457 95171457 + -ENSG00000269452 HG1497_PATCH 151892334 151902334 + -ENSG00000269459 HSCHR19LRC_PGF1_CTG1 55397872 55407872 - -ENSG00000269464 Y 5312605 5322605 - -ENSG00000269468 1 17676070 17686070 - -ENSG00000269478 HG1459_PATCH 149980428 149990428 - -ENSG00000269479 HG1433_PATCH 50643784 50653784 + -ENSG00000269490 6 33663474 33673474 - -ENSG00000269494 6 82262537 82272537 - -ENSG00000269496 3 172351483 172361483 + -ENSG00000269499 HG1436_HG1432_PATCH 48388856 48398856 + -ENSG00000269502 HG1438_PATCH 72095638 72105638 - -ENSG00000269503 HG1440_PATCH 101410762 101420762 - -ENSG00000269506 4 54917213 54927213 + -ENSG00000269510 9 35042824 35052824 - -ENSG00000269511 HG1433_PATCH 54101005 54111005 - -ENSG00000269512 HG375_PATCH 103800996 103810996 + -ENSG00000269514 12 48582170 48592170 + -ENSG00000269515 10 44863687 44873687 + -ENSG00000269520 HG1497_PATCH 152951988 152961988 + -ENSG00000269523 HG1497_PATCH 152576794 152586794 + -ENSG00000269525 HG1146_PATCH 43910023 43920023 + -ENSG00000269526 19 53507174 53517174 + -ENSG00000269528 HG344_PATCH 7014371 7024371 + -ENSG00000269529 12 50680489 50690489 + -ENSG00000269531 12 80188742 80198742 + -ENSG00000269533 19 57891376 57901376 + -ENSG00000269547 19 39440495 39450495 - -ENSG00000269549 20 44064071 44074071 + -ENSG00000269550 HG1424_PATCH 37199392 37209392 + -ENSG00000269554 1 2111237 2121237 + -ENSG00000269556 HG1459_PATCH 148713446 148723446 - -ENSG00000269558 7 65113280 65123280 - -ENSG00000269559 4 75024085 75034085 - -ENSG00000269562 HG144_PATCH 35009640 35019640 + -ENSG00000269563 2 47789601 47799601 + -ENSG00000269570 11 58378759 58388759 - -ENSG00000269571 HG1501_PATCH 137221397 137231397 + -ENSG00000269572 HG1462_PATCH 114415870 114425870 + -ENSG00000269586 HG1443_HG1444_PATCH 135019384 135029384 - -ENSG00000269587 HG1436_HG1432_PATCH 48329576 48339576 - -ENSG00000269590 19 12780211 12790211 - -ENSG00000269591 13 20258547 20268547 + -ENSG00000269592 HG1497_PATCH 153822047 153832047 - -ENSG00000269594 HG1436_HG1432_PATCH 47686301 47696301 + -ENSG00000269601 11 120330047 120340047 - -ENSG00000269602 HG1463_PATCH 115277055 115287055 + -ENSG00000269603 HG1442_PATCH 119374715 119384715 + -ENSG00000269605 20 43248126 43258126 - -ENSG00000269612 HG122_PATCH 118661851 118671851 - -ENSG00000269618 HG1497_PATCH 154239830 154249830 - -ENSG00000269620 1 159880159 159890159 - -ENSG00000269623 HG1497_PATCH 153063472 153073472 + -ENSG00000269624 1 63063437 63073437 + -ENSG00000269630 18 60505948 60515948 - -ENSG00000269633 2 207210463 207220463 + -ENSG00000269636 5 150147867 150157867 + -ENSG00000269639 HG1426_PATCH 77156547 77166547 - -ENSG00000269645 HG1497_PATCH 153602594 153612594 + -ENSG00000269647 1 147632428 147642428 - -ENSG00000269649 HG1436_HG1432_PATCH 47930515 47940515 - -ENSG00000269650 20 34758180 34768180 - -ENSG00000269654 HG1425_PATCH 75637488 75647488 + -ENSG00000269655 HG1497_PATCH 153039144 153049144 + -ENSG00000269657 17 66529369 66539369 + -ENSG00000269663 HG1436_HG1432_PATCH 49398461 49408461 + -ENSG00000269666 HG1426_PATCH 77355128 77365128 + -ENSG00000269668 HG1497_PATCH 153587100 153597100 + -ENSG00000269670 HG1424_PATCH 37421714 37431714 + -ENSG00000269671 HG497_PATCH 51222070 51232070 - -ENSG00000269676 12 133050726 133060726 - -ENSG00000269679 18 77276057 77286057 - -ENSG00000269685 HG1441_PATCH 103258626 103268626 + -ENSG00000269686 2 133864577 133874577 + -ENSG00000269690 1 201582013 201592013 + -ENSG00000269698 HG1436_HG1432_PATCH 48939245 48949245 - -ENSG00000269699 19 57352097 57362097 - -ENSG00000269700 10 52142766 52152766 + -ENSG00000269703 HG1146_PATCH 43897914 43907914 + -ENSG00000269709 1 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99627889 + -ENSG00000269790 HG1497_PATCH 152337756 152347756 + -ENSG00000269791 HG1436_HG1432_PATCH 48271309 48281309 - -ENSG00000269795 1 243378058 243388058 + -ENSG00000269797 HG1502_PATCH 132805705 132815705 + -ENSG00000269798 HG1497_PATCH 152805667 152815667 + -ENSG00000269801 HG1439_PATCH 100795518 100805518 + -ENSG00000269804 1 28517070 28527070 + -ENSG00000269805 HG1433_PATCH 52228668 52238668 + -ENSG00000269808 19 55728587 55738587 + -ENSG00000269810 15 100038578 100048578 - -ENSG00000269816 HG1433_PATCH 52968422 52978422 - -ENSG00000269820 HG1443_HG1444_PATCH 135017663 135027663 + -ENSG00000269823 HSCHR1_1_CTG31 153763786 153773786 - -ENSG00000269824 HG1436_HG1432_PATCH 47696192 47706192 - -ENSG00000269830 HG344_PATCH 6920711 6930711 + -ENSG00000269831 1 739137 749137 - -ENSG00000269832 14 50281993 50291993 + -ENSG00000269838 HG1453_PATCH 140780904 140790904 - -ENSG00000269840 HG1436_HG1432_PATCH 49505392 49515392 - -ENSG00000269846 20 35714188 35724188 + -ENSG00000269849 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54618837 + -ENSG00000273074 HSCHR19LRC_PGF2_CTG1 54604106 54614106 - -ENSG00000273078 HG1082_HG167_PATCH 140155876 140165876 + -ENSG00000273079 12 14133053 14143053 - -ENSG00000273086 HSCHR12_2_CTG2 10962767 10972767 - -ENSG00000273088 1 155159748 155169748 - -ENSG00000273089 HG417_PATCH 3903 13903 - -ENSG00000273092 HSCHR12_2_CTG2 11150474 11160474 - -ENSG00000273095 HSCHR19LRC_LRC_S_CTG1 54596145 54606145 + -ENSG00000273099 HSCHR19LRC_PGF2_CTG1 54676944 54686944 - -ENSG00000273103 HSCHR19LRC_LRC_J_CTG1 54579813 54589813 - -ENSG00000273105 HG1133_PATCH 11062161 11072161 - -ENSG00000273109 HSCHR19LRC_PGF1_CTG1 54608837 54618837 + -ENSG00000273111 HG1350_HG959_PATCH 42350578 42360578 - -ENSG00000273114 HG237_PATCH 46067815 46077815 + -ENSG00000273121 HSCHR22_1_CTG1 42460255 42470255 + -ENSG00000273126 HSCHR19LRC_PGF1_CTG1 54596145 54606145 + -ENSG00000273128 HSCHR19LRC_LRC_J_CTG1 54663620 54673620 - -ENSG00000273130 HSCHR19LRC_LRC_I_CTG1 54693666 54703666 - -ENSG00000273135 HSCHR19LRC_COX2_CTG1 54694726 54704726 + -ENSG00000273136 HG1292_PATCH 121346529 121356529 + -ENSG00000273146 HG1082_HG167_PATCH 140191361 140201361 + -ENSG00000273150 HG1257_PATCH 74547549 74557549 + -ENSG00000273155 2 99761461 99771461 + -ENSG00000273157 HG237_PATCH 45971388 45981388 - -ENSG00000273159 HSCHR19LRC_LRC_T_CTG1 54635112 54645112 + -ENSG00000273171 17 26695033 26705033 - -ENSG00000273173 15 25190135 25200135 + -ENSG00000273178 HSCHR19LRC_LRC_J_CTG1 54596145 54606145 + -ENSG00000273182 HSCHR19LRC_COX2_CTG1 54663620 54673620 - -ENSG00000273201 HG1082_HG167_PATCH 140164550 140174550 + -ENSG00000273202 HSCHR19LRC_LRC_I_CTG1 54635112 54645112 + -ENSG00000273205 HG1350_HG959_PATCH 41939063 41949063 + -ENSG00000273207 HG1497_PATCH 154627083 154637083 - -ENSG00000273208 HG1497_PATCH 154043510 154053510 + -ENSG00000273215 HSCHR19LRC_COX1_CTG1 54579813 54589813 - -ENSG00000273217 5 131132676 131142676 - -ENSG00000273220 HG1082_HG167_PATCH 140238689 140248689 + -ENSG00000273222 HSCHR19LRC_LRC_J_CTG1 54604106 54614106 - -ENSG00000273223 HSCHR19LRC_LRC_J_CTG1 54635112 54645112 + -ENSG00000273224 HSCHR19LRC_PGF2_CTG1 54608837 54618837 + -ENSG00000273225 HG1211_PATCH 46854535 46864535 + -ENSG00000273227 HG1082_HG167_PATCH 140547375 140557375 + -ENSG00000273229 HG237_PATCH 45960078 45970078 - -ENSG00000273235 HSCHR19LRC_PGF2_CTG1 54684138 54694138 + -ENSG00000273239 HSCHR19LRC_LRC_I_CTG1 54604106 54614106 - -ENSG00000273242 HSCHR19LRC_COX2_CTG1 54567207 54577207 - -ENSG00000273246 HG736_PATCH 56900285 56910285 - -ENSG00000273256 HG1082_HG167_PATCH 140197563 140207563 + -ENSG00000273263 HG1082_HG167_PATCH 140210907 140220907 + -ENSG00000273266 12 54437661 54447661 + -ENSG00000273268 HSCHR19LRC_LRC_S_CTG1 54604106 54614106 - -ENSG00000273273 HSCHR19LRC_PGF2_CTG1 54635112 54645112 + -ENSG00000273274 1 32920670 32930670 + -ENSG00000273276 HSCHR19LRC_LRC_I_CTG1 54579813 54589813 - -ENSG00000273279 HG1133_PATCH 10978957 10988957 - -ENSG00000273291 3 42968351 42978351 + -ENSG00000273292 HSCHR19LRC_LRC_I_CTG1 54663620 54673620 - -ENSG00000273296 HG1287_PATCH 145365927 145375927 + -ENSG00000273303 3 44597051 44607051 + -ENSG00000273310 HG1082_HG167_PATCH 140593091 140603091 + -ENSG00000273315 HSCHR19LRC_LRC_T_CTG1 54663620 54673620 - -ENSG00000273316 HSCHR19LRC_COX2_CTG1 54693666 54703666 - -ENSG00000273317 HG1082_HG167_PATCH 140245058 140255058 + -ENSG00000273322 HG237_PATCH 46000487 46010487 - -ENSG00000273324 HG174_HG254_PATCH 125541 135541 - -ENSG00000273326 HSCHR12_2_CTG2 10955226 10965226 - -ENSG00000273347 HSCHR19LRC_LRC_I_CTG1 54676944 54686944 - -ENSG00000273349 HSCHR19LRC_PGF2_CTG1 54567207 54577207 - -ENSG00000273351 HG237_PATCH 45983612 45993612 + -ENSG00000273357 HG1082_HG167_PATCH 140583522 140593522 + -ENSG00000273358 HSCHR19LRC_LRC_S_CTG1 54579813 54589813 - -ENSG00000273359 HG1133_PATCH 10959892 10969892 - -ENSG00000273376 HSCHR19LRC_LRC_I_CTG1 54608837 54618837 + -ENSG00000273378 HSCHR22_2_CTG1 42460255 42470255 + -ENSG00000273380 HSCHR19LRC_PGF1_CTG1 54604106 54614106 - -ENSG00000273383 HG1082_HG167_PATCH 140504803 140514803 + -ENSG00000273385 HSCHR19LRC_LRC_J_CTG1 54694726 54704726 + -ENSG00000273392 HG1082_HG167_PATCH 140519843 140529843 + -ENSG00000273395 1 48227290 48237290 - -ENSG00000273397 HSCHR22_2_CTG1 42486959 42496959 - -ENSG00000273400 HSCHR6_MHC_MANN 28720486 28730486 + -ENSG00000273404 HG1133_PATCH 10955226 10965226 - -ENSG00000273412 HG237_PATCH 46056297 46066297 + -ENSG00000273414 HSCHR19LRC_LRC_J_CTG1 54567207 54577207 - -ENSG00000273417 HSCHR19LRC_LRC_T_CTG1 54619055 54629055 - -ENSG00000273418 HSCHR19LRC_COX2_CTG1 54579813 54589813 - -ENSG00000273421 HG1079_PATCH 54567207 54577207 - -ENSG00000273425 HG444_PATCH 65235723 65245723 - -ENSG00000273426 HSCHR19LRC_PGF2_CTG1 54596145 54606145 + -ENSG00000273427 HSCHR19LRC_LRC_T_CTG1 54596145 54606145 + -ENSG00000273429 HG1292_PATCH 121256731 121266731 + -ENSG00000273430 HSCHR19LRC_LRC_I_CTG1 54619055 54629055 - -ENSG00000273431 HSCHR12_2_CTG2 11139511 11149511 - -ENSG00000273436 HG1350_HG959_PATCH 42340925 42350925 + -ENSG00000273439 19 58780318 58790318 + -ENSG00000273440 HG1497_PATCH 154539247 154549247 + -ENSG00000273446 HSCHR19LRC_LRC_S_CTG1 54693666 54703666 - -ENSG00000273452 17 12616199 12626199 + -ENSG00000273453 HSCHR19LRC_COX1_CTG1 54596145 54606145 + -ENSG00000273457 HSCHR12_2_CTG2 11062161 11072161 - -ENSG00000273458 HSCHR19LRC_LRC_J_CTG1 54619055 54629055 - -ENSG00000273459 HSCHR19LRC_LRC_S_CTG1 54635112 54645112 + -ENSG00000273460 HSCHR19LRC_LRC_S_CTG1 54567207 54577207 - -ENSG00000273462 HSCHR19LRC_COX2_CTG1 54608837 54618837 + -ENSG00000273467 HSCHR19LRC_LRC_S_CTG1 54694726 54704726 + -ENSG00000273469 HSCHR19LRC_COX1_CTG1 54608837 54618837 + -ENSG00000273470 HSCHR19LRC_LRC_T_CTG1 54693666 54703666 - -ENSG00000273482 HG957_PATCH 53185136 53195136 + -ENSG00000273490 HSCHR19LRC_LRC_J_CTG1 54684138 54694138 + diff --git a/resources/annotations/transcriptAnno-GRCh38.103.tsv.gz b/resources/annotations/transcriptAnno-GRCh38.103.tsv.gz new file mode 100644 index 0000000..6332848 Binary files /dev/null and b/resources/annotations/transcriptAnno-GRCh38.103.tsv.gz differ diff --git a/resources/blacklists/ENCODE/download.md b/resources/blacklists/ENCODE/download.md new file mode 100644 index 0000000..8f555e3 --- /dev/null +++ b/resources/blacklists/ENCODE/download.md @@ -0,0 +1,5 @@ +# download links +downloaded from: +hg19: [hg19-blacklist.v2.bed.gz](https://github.com/Boyle-Lab/Blacklist/raw/master/lists/hg19-blacklist.v2.bed.gz) + +hg38: [hg38-blacklist.v2.bed.gz](https://github.com/Boyle-Lab/Blacklist/raw/master/lists/hg38-blacklist.v2.bed.gz) diff --git a/resources/blacklists/ENCODE/hg19-blacklist.v2.bed b/resources/blacklists/ENCODE/hg19-blacklist.v2.bed new file mode 100644 index 0000000..03688d9 --- /dev/null +++ b/resources/blacklists/ENCODE/hg19-blacklist.v2.bed @@ -0,0 +1,834 @@ +chr10 38726200 42489100 High Signal Region +chr10 42524900 42819200 High Signal Region +chr10 98560400 98562500 High Signal Region +chr10 135437600 135534700 High Signal Region +chr11 0 196300 High Signal Region +chr11 584400 586500 High Signal Region +chr11 964000 966100 Low Mappability +chr11 1015700 1019100 High Signal Region +chr11 1088800 1094300 High Signal Region +chr11 1141100 1214300 High Signal Region +chr11 3674100 3676900 Low Mappability +chr11 6830800 6832700 High Signal Region +chr11 10528500 10532700 Low Mappability +chr11 11267200 11269500 High Signal Region +chr11 48700000 48964800 High Signal Region +chr11 50505600 50523400 High Signal Region +chr11 50635500 51200100 High Signal Region +chr11 51244400 51289000 High Signal Region +chr11 51566300 54834600 High Signal Region +chr11 54876800 55028400 High Signal Region +chr11 62606300 62651300 High Signal Region +chr11 77596600 77601800 High Signal Region +chr11 85172700 85196400 High Signal Region +chr11 93965500 93984500 High Signal Region +chr11 100156600 100162500 High Signal Region +chr11 102239800 102246000 High Signal Region +chr11 129208700 129234600 High Signal Region +chr12 0 187000 High Signal Region +chr12 479900 531700 High Signal Region +chr12 2364000 2366100 High Signal Region +chr12 2628700 2649700 Low Mappability +chr12 4618500 4624000 High Signal Region +chr12 6037400 6042400 Low Mappability +chr12 7705200 7717600 High Signal Region +chr12 19881600 19887000 High Signal Region +chr12 20703400 20705400 High Signal Region +chr12 20921400 20928000 High Signal Region +chr12 34371700 34400000 High Signal Region +chr12 34574500 34576400 Low Mappability +chr12 34761600 37887400 High Signal Region +chr12 37989200 38259900 High Signal Region +chr12 38330900 38375800 Low Mappability +chr12 38443400 38503500 High Signal Region +chr12 38534900 38537700 High Signal Region +chr12 41756500 41758400 Low Mappability +chr12 54205000 54206900 High Signal Region +chr12 66867700 66872600 High Signal Region +chr12 69385000 69391000 High Signal Region +chr12 70167100 70204100 High Signal Region +chr12 75903800 75916900 High Signal Region +chr12 93771900 93808100 High Signal Region +chr12 97117400 97122300 High Signal Region +chr12 101540100 101549000 High Signal Region +chr12 113517400 113519300 High Signal Region +chr12 125394300 125426400 Low Mappability +chr12 126072900 126074800 Low Mappability +chr12 127649500 127651900 High Signal Region +chr12 130863600 130878600 High Signal Region +chr12 132060500 132074200 High Signal Region +chr12 133343000 133345000 High Signal Region +chr12 133825400 133851800 Low Mappability +chr13 0 19194200 High Signal Region +chr13 19344200 19447900 High Signal Region +chr13 19641600 19652000 High Signal Region +chr13 19677800 19683400 High Signal Region +chr13 19711000 19713300 High Signal Region +chr13 20051500 20077000 Low Mappability +chr13 20150200 20228600 High Signal Region +chr13 20352400 20372400 High Signal Region +chr13 20966500 20984700 High Signal Region +chr13 21068500 21072900 High Signal Region +chr13 21816000 21826300 High Signal Region +chr13 21950600 21952600 High Signal Region +chr13 22125500 22129800 High Signal Region +chr13 22429700 22436000 High Signal Region +chr13 23095400 23108300 Low Mappability +chr13 24900500 24932100 High Signal Region +chr13 25122300 25128600 High Signal Region +chr13 26467000 26472000 Low Mappability +chr13 27977100 28035000 High Signal Region +chr13 28710500 28733700 High Signal Region +chr13 29767400 29769600 High Signal Region +chr13 30215700 30247400 Low Mappability +chr13 30397900 30426100 High Signal Region +chr13 30787000 30790100 High Signal Region +chr13 30819100 30845000 High Signal Region +chr13 31412800 31440600 High Signal Region +chr13 31521900 31523400 High Signal Region +chr13 31916200 31920700 High Signal Region +chr13 31970100 31971800 High Signal Region +chr13 33109900 33114000 High Signal Region +chr13 33149400 33182100 High Signal Region +chr13 33441700 33443500 Low Mappability +chr13 34163100 34164900 High Signal Region +chr13 34558900 34565000 High Signal Region +chr13 35054300 35073100 High Signal Region +chr13 35656000 35664300 High Signal Region +chr13 35977500 36001800 High Signal Region +chr13 36531200 36553700 High Signal Region +chr13 36582200 36588400 High Signal Region +chr13 37723900 37730200 High Signal Region +chr13 38396200 38402300 Low Mappability +chr13 38640900 38645800 High Signal Region +chr13 38687300 38721000 High Signal Region +chr13 40422400 40427800 High Signal Region +chr13 40560400 40580700 Low Mappability +chr13 40920400 40936600 Low Mappability +chr13 41309000 41315200 Low Mappability +chr13 41343800 41416000 High Signal Region +chr13 41438500 41477300 High Signal Region +chr13 41530500 41640400 High Signal Region +chr13 42108700 42114800 High Signal Region +chr13 42165400 42243300 High Signal Region +chr13 42321000 42324400 High Signal Region +chr13 42445300 42448800 High Signal Region +chr13 42479700 42497900 High Signal Region +chr13 42928200 42961000 Low Mappability +chr13 42999000 43005200 Low Mappability +chr13 43128800 43132300 High Signal Region +chr13 43734900 43740400 High Signal Region +chr13 44391900 44409800 Low Mappability +chr13 44540800 44550400 High Signal Region +chr13 45491200 45494100 High Signal Region +chr13 46190900 46244300 High Signal Region +chr13 47322400 47347500 Low Mappability +chr13 47795600 47799800 Low Mappability +chr13 48288000 48379400 High Signal Region +chr13 48551900 48636200 High Signal Region +chr13 48776900 48781200 High Signal Region +chr13 48955700 49045800 High Signal Region +chr13 49587600 49593700 High Signal Region +chr13 49726300 49750700 High Signal Region +chr13 50655600 50674000 High Signal Region +chr13 50739500 50760400 High Signal Region +chr13 50804000 50831700 High Signal Region +chr13 51045000 51047900 Low Mappability +chr13 51069400 51148800 High Signal Region +chr13 51538700 51562300 High Signal Region +chr13 51643200 51654900 High Signal Region +chr13 52056600 52177400 High Signal Region +chr13 52209900 52311100 High Signal Region +chr13 52628400 52634200 Low Mappability +chr13 52767000 52908600 High Signal Region +chr13 53056600 53198500 High Signal Region +chr13 53667700 53672500 Low Mappability +chr13 54170800 54195600 High Signal Region +chr13 55314400 55316200 Low Mappability +chr13 55924900 55928900 Low Mappability +chr13 56386000 56387700 Low Mappability +chr13 57149500 57152400 High Signal Region +chr13 57613800 57615800 Low Mappability +chr13 57713200 57748000 High Signal Region +chr13 57793400 57794800 High Signal Region +chr13 57929500 57933400 Low Mappability +chr13 58055700 58068300 High Signal Region +chr13 58756200 58759000 High Signal Region +chr13 59246600 59252600 Low Mappability +chr13 60399100 60401600 Low Mappability +chr13 60558600 60561900 Low Mappability +chr13 60819900 60825800 High Signal Region +chr13 60868000 60870400 Low Mappability +chr13 61508300 61510400 High Signal Region +chr13 62142000 62143900 Low Mappability +chr13 62379800 62381800 High Signal Region +chr13 62407700 62419700 High Signal Region +chr13 63602300 63649700 High Signal Region +chr13 64291000 64343600 Low Mappability +chr13 64395200 64410800 Low Mappability +chr13 66567000 66569000 Low Mappability +chr13 66827800 66833700 High Signal Region +chr13 67311600 67317700 Low Mappability +chr13 67350200 67352500 High Signal Region +chr13 68136600 68139600 Low Mappability +chr13 68254200 68260100 High Signal Region +chr13 68566600 68570000 High Signal Region +chr13 68901600 68915400 High Signal Region +chr13 70357600 70362900 Low Mappability +chr13 70783800 70789000 High Signal Region +chr13 71751300 71752700 High Signal Region +chr13 71958500 71963800 High Signal Region +chr13 72799900 72802600 High Signal Region +chr13 73184400 73190500 High Signal Region +chr13 74027000 74033300 High Signal Region +chr13 74202200 74220800 High Signal Region +chr13 74809900 74816100 High Signal Region +chr13 75111000 75116700 High Signal Region +chr13 75606300 75608100 Low Mappability +chr13 75653600 75655800 High Signal Region +chr13 75815200 75821400 High Signal Region +chr13 76251800 76322500 High Signal Region +chr13 76528000 76532300 High Signal Region +chr13 76841900 76843700 High Signal Region +chr13 77119100 77122400 Low Mappability +chr13 77179200 77192700 Low Mappability +chr13 77773200 77779300 High Signal Region +chr13 78250500 78260900 Low Mappability +chr13 78453800 78455300 High Signal Region +chr13 78857200 78859700 High Signal Region +chr13 79087100 79105000 High Signal Region +chr13 79590600 79592200 High Signal Region +chr13 79809800 79811600 High Signal Region +chr13 80391100 80420000 High Signal Region +chr13 80726100 80730600 Low Mappability +chr13 81490500 81492700 Low Mappability +chr13 81638000 81651500 High Signal Region +chr13 82132700 82135500 Low Mappability +chr13 82322400 82327400 High Signal Region +chr13 82619500 82625600 Low Mappability +chr13 82805900 82809300 High Signal Region +chr13 83315600 83317200 Low Mappability +chr13 84095600 84097700 High Signal Region +chr13 84535300 84540600 High Signal Region +chr13 85075900 85078300 Low Mappability +chr13 85299500 85302300 High Signal Region +chr13 85695400 85703500 High Signal Region +chr13 86143500 86147200 Low Mappability +chr13 86485900 86502200 Low Mappability +chr13 86572000 86573600 High Signal Region +chr13 87297900 87303700 High Signal Region +chr13 88351600 88353900 High Signal Region +chr13 89335000 89337000 Low Mappability +chr13 89482500 89486800 Low Mappability +chr13 89740300 89746300 Low Mappability +chr13 91181200 91182800 Low Mappability +chr13 91305800 91322300 Low Mappability +chr13 92256000 92259400 High Signal Region +chr13 92622900 92628600 High Signal Region +chr13 93127200 93129400 Low Mappability +chr13 93170900 93175000 High Signal Region +chr13 94140200 94148600 High Signal Region +chr13 95024400 95030600 Low Mappability +chr13 95471000 95472500 Low Mappability +chr13 95561600 95563600 High Signal Region +chr13 96217900 96220200 High Signal Region +chr13 96377900 96393100 High Signal Region +chr13 96481000 96493700 High Signal Region +chr13 96556500 96572100 High Signal Region +chr13 96616700 96633300 Low Mappability +chr13 96699300 96705200 High Signal Region +chr13 97807500 97812400 High Signal Region +chr13 97873500 98016000 High Signal Region +chr13 98083600 98086200 High Signal Region +chr13 98256400 98266100 Low Mappability +chr13 99386700 99407200 High Signal Region +chr13 100970400 100973100 High Signal Region +chr13 101327900 101356500 Low Mappability +chr13 102191500 102196900 High Signal Region +chr13 102250800 102254200 High Signal Region +chr13 102293700 102296000 High Signal Region +chr13 102560800 102562600 High Signal Region +chr13 103174700 103180600 High Signal Region +chr13 103770000 103772400 High Signal Region +chr13 104155400 104159600 High Signal Region +chr13 105306100 105307700 Low Mappability +chr13 105609500 105613300 High Signal Region +chr13 105951400 105953800 Low Mappability +chr13 106035100 106040800 Low Mappability +chr13 106536800 106542400 High Signal Region +chr13 106651900 106669100 High Signal Region +chr13 106866200 106872100 High Signal Region +chr13 107430500 107436700 High Signal Region +chr13 108868800 108909300 Low Mappability +chr13 109162700 109168900 High Signal Region +chr13 110075500 110098100 Low Mappability +chr13 110691900 110705300 High Signal Region +chr13 111036900 111039000 High Signal Region +chr13 111107500 111163000 High Signal Region +chr13 111512100 111527200 High Signal Region +chr13 111959100 111964000 High Signal Region +chr13 111992000 111994500 Low Mappability +chr13 112148400 112153300 High Signal Region +chr13 112628400 112630400 High Signal Region +chr13 112668600 112670300 High Signal Region +chr13 112931200 112973400 High Signal Region +chr13 113179900 113244400 High Signal Region +chr13 113319400 113321900 High Signal Region +chr13 113440500 113444300 High Signal Region +chr13 113526200 113540600 High Signal Region +chr13 113765500 113767700 High Signal Region +chr13 113916300 113951000 Low Mappability +chr13 114089500 114102600 High Signal Region +chr13 114191600 114218700 High Signal Region +chr13 114247100 114280800 High Signal Region +chr13 114452900 114520000 High Signal Region +chr13 114553300 114571100 High Signal Region +chr13 114601800 114772500 High Signal Region +chr13 114848900 114852600 High Signal Region +chr14 0 20303800 High Signal Region +chr14 27098600 27104100 High Signal Region +chr14 32263100 32280800 High Signal Region +chr14 32350600 32352500 High Signal Region +chr14 32934800 32955200 Low Mappability +chr14 35006400 35031800 Low Mappability +chr14 36416700 36419200 High Signal Region +chr14 39980200 39995800 High Signal Region +chr14 54700600 54706600 High Signal Region +chr14 67508000 67534600 High Signal Region +chr14 80556900 80561000 High Signal Region +chr14 86540300 86577300 High Signal Region +chr14 87058300 87078200 High Signal Region +chr14 87879900 87894500 High 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21739542 21741441 +chrY 21747863 21748371 +chrY 21750013 21750314 +chrY 21789281 21805281 +chrY 26673214 56673214 +chrY 56771509 56821509 +chrY 57217415 57227415 +chr3_KN196476v1_fix 2183 8699 +chr3_KN196476v1_fix 10168 12458 +chr3_KN196476v1_fix 17659 29272 +chr3_KN196476v1_fix 34453 35012 +chr3_KN196476v1_fix 43347 43496 +chr15_KN538374v1_fix 1076278 1079711 +chr15_KN538374v1_fix 4501706 4535264 +chr15_KQ031389v1_alt 529084 1869010 diff --git a/resources/blacklists/UCSC/download.md b/resources/blacklists/UCSC/download.md new file mode 100644 index 0000000..2b2a3ea --- /dev/null +++ b/resources/blacklists/UCSC/download.md @@ -0,0 +1,5 @@ +# download links +downloaded from: +hg19: [UCSC_gap.hg38.txt](https://hgdownload.soe.ucsc.edu/goldenPath/hg19/database/gap.txt.gz) + +hg38: [UCSC_._gap.hg38.txt](https://hgdownload.soe.ucsc.edu/goldenPath/hg38/database/gap.txt.gz) diff --git a/resources/blacklists/UCSC/metadata/UCSC_gap.gh38.txt.gz b/resources/blacklists/UCSC/metadata/UCSC_gap.gh38.txt.gz new file mode 100644 index 0000000..a9f3ffb Binary files /dev/null and b/resources/blacklists/UCSC/metadata/UCSC_gap.gh38.txt.gz differ diff --git a/resources/blacklists/UCSC/metadata/UCSC_gap.hg19.txt.gz b/resources/blacklists/UCSC/metadata/UCSC_gap.hg19.txt.gz new file mode 100644 index 0000000..9d45f51 Binary files /dev/null and b/resources/blacklists/UCSC/metadata/UCSC_gap.hg19.txt.gz differ diff --git a/resources/blacklists/universal_blacklist.hg19.bed b/resources/blacklists/universal_blacklist.hg19.bed new file mode 100644 index 0000000..07c2588 --- /dev/null +++ b/resources/blacklists/universal_blacklist.hg19.bed @@ -0,0 +1,1117 @@ +chr1 0 750100 +chr1 814500 845200 +chr1 2052400 2056000 +chr1 2582800 2693900 +chr1 3845268 3995268 +chr1 4362200 4364300 +chr1 5714800 5736800 +chr1 13052998 13102998 +chr1 13219912 13319912 +chr1 13557162 13607162 +chr1 16821600 17301500 +chr1 29878082 30028082 +chr1 38076400 38078300 +chr1 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154890200 +chrX 154938900 154945100 +chrX 155299600 155305100 +chrX 155454000 155522000 +chrX 155700400 155727500 +chrX 155983500 156040895 +chrY 0 10000 +chrY 44821 94821 +chrY 133871 222346 +chrY 226276 226351 +chrY 1949345 2132994 +chrY 2137388 2137488 +chrY 4343800 4345800 +chrY 9046914 9055174 +chrY 9057608 9107608 +chrY 9111868 9112715 +chrY 9114319 9116371 +chrY 9403713 9453713 +chrY 10246200 11041200 +chrY 11072100 11335300 +chrY 11486600 11757800 +chrY 20207793 20257793 +chrY 21739542 21741441 +chrY 21747863 21748371 +chrY 21750013 21750314 +chrY 21789281 21805281 +chrY 26637300 57227415 diff --git a/resources/genome/hg19.fa.genome b/resources/genome/hg19.fa.genome new file mode 100644 index 0000000..4b46577 --- /dev/null +++ b/resources/genome/hg19.fa.genome @@ -0,0 +1,84 @@ +chr1 249250621 +chr10 135534747 +chr11 135006516 +chr11_gl000202_random 40103 +chr12 133851895 +chr13 115169878 +chr14 107349540 +chr15 102531392 +chr16 90354753 +chr17 81195210 +chr17_gl000203_random 37498 +chr17_gl000204_random 81310 +chr17_gl000205_random 174588 +chr17_gl000206_random 41001 +chr18 78077248 +chr18_gl000207_random 4262 +chr19 59128983 +chr19_gl000208_random 92689 +chr19_gl000209_random 159169 +chr1_gl000191_random 106433 +chr1_gl000192_random 547496 +chr2 243199373 +chr20 63025520 +chr21 48129895 +chr21_gl000210_random 27682 +chr22 51304566 +chr3 198022430 +chr4 191154276 +chr4_gl000193_random 189789 +chr4_gl000194_random 191469 +chr5 180915260 +chr6 171115067 +chr7 159138663 +chr7_gl000195_random 182896 +chr8 146364022 +chr8_gl000196_random 38914 +chr8_gl000197_random 37175 +chr9 141213431 +chr9_gl000198_random 90085 +chr9_gl000199_random 169874 +chr9_gl000200_random 187035 +chr9_gl000201_random 36148 +chrM 16571 +chrUn_gl000211 166566 +chrUn_gl000212 186858 +chrUn_gl000213 164239 +chrUn_gl000214 137718 +chrUn_gl000215 172545 +chrUn_gl000216 172294 +chrUn_gl000217 172149 +chrUn_gl000218 161147 +chrUn_gl000219 179198 +chrUn_gl000220 161802 +chrUn_gl000221 155397 +chrUn_gl000222 186861 +chrUn_gl000223 180455 +chrUn_gl000224 179693 +chrUn_gl000225 211173 +chrUn_gl000226 15008 +chrUn_gl000227 128374 +chrUn_gl000228 129120 +chrUn_gl000229 19913 +chrUn_gl000230 43691 +chrUn_gl000231 27386 +chrUn_gl000232 40652 +chrUn_gl000233 45941 +chrUn_gl000234 40531 +chrUn_gl000235 34474 +chrUn_gl000236 41934 +chrUn_gl000237 45867 +chrUn_gl000238 39939 +chrUn_gl000239 33824 +chrUn_gl000240 41933 +chrUn_gl000241 42152 +chrUn_gl000242 43523 +chrUn_gl000243 43341 +chrUn_gl000244 39929 +chrUn_gl000245 36651 +chrUn_gl000246 38154 +chrUn_gl000247 36422 +chrUn_gl000248 39786 +chrUn_gl000249 38502 +chrX 155270560 +chrY 59373566 diff --git a/resources/genome/hg19.fa.genome.regular_autosomes b/resources/genome/hg19.fa.genome.regular_autosomes new file mode 100644 index 0000000..1698394 --- /dev/null +++ b/resources/genome/hg19.fa.genome.regular_autosomes @@ -0,0 +1,22 @@ +chr1 249250621 +chr2 243199373 +chr3 198022430 +chr4 191154276 +chr5 180915260 +chr6 171115067 +chr7 159138663 +chr8 146364022 +chr9 141213431 +chr10 135534747 +chr11 135006516 +chr12 133851895 +chr13 115169878 +chr14 107349540 +chr15 102531392 +chr16 90354753 +chr17 81195210 +chr18 78077248 +chr19 59128983 +chr20 63025520 +chr21 48129895 +chr22 51304566 \ No newline at end of file diff --git a/resources/genome/hg38.fa.genome b/resources/genome/hg38.fa.genome new file mode 100644 index 0000000..9402991 --- /dev/null +++ b/resources/genome/hg38.fa.genome @@ -0,0 +1,194 @@ +chr1 248956422 +chr10 133797422 +chr11 135086622 +chr11_KI270721v1_random 100316 +chr12 133275309 +chr13 114364328 +chr14 107043718 +chr14_GL000009v2_random 201709 +chr14_GL000194v1_random 191469 +chr14_GL000225v1_random 211173 +chr14_KI270722v1_random 194050 +chr14_KI270723v1_random 38115 +chr14_KI270724v1_random 39555 +chr14_KI270725v1_random 172810 +chr14_KI270726v1_random 43739 +chr15 101991189 +chr15_KI270727v1_random 448248 +chr16 90338345 +chr16_KI270728v1_random 1872759 +chr17 83257441 +chr17_GL000205v2_random 185591 +chr17_KI270729v1_random 280839 +chr17_KI270730v1_random 112551 +chr18 80373285 +chr19 58617616 +chr1_KI270706v1_random 175055 +chr1_KI270707v1_random 32032 +chr1_KI270708v1_random 127682 +chr1_KI270709v1_random 66860 +chr1_KI270710v1_random 40176 +chr1_KI270711v1_random 42210 +chr1_KI270712v1_random 176043 +chr1_KI270713v1_random 40745 +chr1_KI270714v1_random 41717 +chr2 242193529 +chr20 64444167 +chr21 46709983 +chr22 50818468 +chr22_KI270731v1_random 150754 +chr22_KI270732v1_random 41543 +chr22_KI270733v1_random 179772 +chr22_KI270734v1_random 165050 +chr22_KI270735v1_random 42811 +chr22_KI270736v1_random 181920 +chr22_KI270737v1_random 103838 +chr22_KI270738v1_random 99375 +chr22_KI270739v1_random 73985 +chr2_KI270715v1_random 161471 +chr2_KI270716v1_random 153799 +chr3 198295559 +chr3_GL000221v1_random 155397 +chr4 190214555 +chr4_GL000008v2_random 209709 +chr5 181538259 +chr5_GL000208v1_random 92689 +chr6 170805979 +chr7 159345973 +chr8 145138636 +chr9 138394717 +chr9_KI270717v1_random 40062 +chr9_KI270718v1_random 38054 +chr9_KI270719v1_random 176845 +chr9_KI270720v1_random 39050 +chrM 16569 +chrUn_GL000195v1 182896 +chrUn_GL000213v1 164239 +chrUn_GL000214v1 137718 +chrUn_GL000216v2 176608 +chrUn_GL000218v1 161147 +chrUn_GL000219v1 179198 +chrUn_GL000220v1 161802 +chrUn_GL000224v1 179693 +chrUn_GL000226v1 15008 +chrUn_KI270302v1 2274 +chrUn_KI270303v1 1942 +chrUn_KI270304v1 2165 +chrUn_KI270305v1 1472 +chrUn_KI270310v1 1201 +chrUn_KI270311v1 12399 +chrUn_KI270312v1 998 +chrUn_KI270315v1 2276 +chrUn_KI270316v1 1444 +chrUn_KI270317v1 37690 +chrUn_KI270320v1 4416 +chrUn_KI270322v1 21476 +chrUn_KI270329v1 1040 +chrUn_KI270330v1 1652 +chrUn_KI270333v1 2699 +chrUn_KI270334v1 1368 +chrUn_KI270335v1 1048 +chrUn_KI270336v1 1026 +chrUn_KI270337v1 1121 +chrUn_KI270338v1 1428 +chrUn_KI270340v1 1428 +chrUn_KI270362v1 3530 +chrUn_KI270363v1 1803 +chrUn_KI270364v1 2855 +chrUn_KI270366v1 8320 +chrUn_KI270371v1 2805 +chrUn_KI270372v1 1650 +chrUn_KI270373v1 1451 +chrUn_KI270374v1 2656 +chrUn_KI270375v1 2378 +chrUn_KI270376v1 1136 +chrUn_KI270378v1 1048 +chrUn_KI270379v1 1045 +chrUn_KI270381v1 1930 +chrUn_KI270382v1 4215 +chrUn_KI270383v1 1750 +chrUn_KI270384v1 1658 +chrUn_KI270385v1 990 +chrUn_KI270386v1 1788 +chrUn_KI270387v1 1537 +chrUn_KI270388v1 1216 +chrUn_KI270389v1 1298 +chrUn_KI270390v1 2387 +chrUn_KI270391v1 1484 +chrUn_KI270392v1 971 +chrUn_KI270393v1 1308 +chrUn_KI270394v1 970 +chrUn_KI270395v1 1143 +chrUn_KI270396v1 1880 +chrUn_KI270411v1 2646 +chrUn_KI270412v1 1179 +chrUn_KI270414v1 2489 +chrUn_KI270417v1 2043 +chrUn_KI270418v1 2145 +chrUn_KI270419v1 1029 +chrUn_KI270420v1 2321 +chrUn_KI270422v1 1445 +chrUn_KI270423v1 981 +chrUn_KI270424v1 2140 +chrUn_KI270425v1 1884 +chrUn_KI270429v1 1361 +chrUn_KI270435v1 92983 +chrUn_KI270438v1 112505 +chrUn_KI270442v1 392061 +chrUn_KI270448v1 7992 +chrUn_KI270465v1 1774 +chrUn_KI270466v1 1233 +chrUn_KI270467v1 3920 +chrUn_KI270468v1 4055 +chrUn_KI270507v1 5353 +chrUn_KI270508v1 1951 +chrUn_KI270509v1 2318 +chrUn_KI270510v1 2415 +chrUn_KI270511v1 8127 +chrUn_KI270512v1 22689 +chrUn_KI270515v1 6361 +chrUn_KI270516v1 1300 +chrUn_KI270517v1 3253 +chrUn_KI270518v1 2186 +chrUn_KI270519v1 138126 +chrUn_KI270521v1 7642 +chrUn_KI270522v1 5674 +chrUn_KI270528v1 2983 +chrUn_KI270529v1 1899 +chrUn_KI270530v1 2168 +chrUn_KI270538v1 91309 +chrUn_KI270539v1 993 +chrUn_KI270544v1 1202 +chrUn_KI270548v1 1599 +chrUn_KI270579v1 31033 +chrUn_KI270580v1 1553 +chrUn_KI270581v1 7046 +chrUn_KI270582v1 6504 +chrUn_KI270583v1 1400 +chrUn_KI270584v1 4513 +chrUn_KI270587v1 2969 +chrUn_KI270588v1 6158 +chrUn_KI270589v1 44474 +chrUn_KI270590v1 4685 +chrUn_KI270591v1 5796 +chrUn_KI270593v1 3041 +chrUn_KI270741v1 157432 +chrUn_KI270742v1 186739 +chrUn_KI270743v1 210658 +chrUn_KI270744v1 168472 +chrUn_KI270745v1 41891 +chrUn_KI270746v1 66486 +chrUn_KI270747v1 198735 +chrUn_KI270748v1 93321 +chrUn_KI270749v1 158759 +chrUn_KI270750v1 148850 +chrUn_KI270751v1 150742 +chrUn_KI270752v1 27745 +chrUn_KI270753v1 62944 +chrUn_KI270754v1 40191 +chrUn_KI270755v1 36723 +chrUn_KI270756v1 79590 +chrUn_KI270757v1 71251 +chrX 156040895 +chrY 57227415 +chrY_KI270740v1_random 37240 diff --git a/resources/genome/hg38.fa.genome.regular_autosomes b/resources/genome/hg38.fa.genome.regular_autosomes new file mode 100644 index 0000000..4baf0b6 --- /dev/null +++ b/resources/genome/hg38.fa.genome.regular_autosomes @@ -0,0 +1,22 @@ +chr1 248956422 +chr2 242193529 +chr3 198295559 +chr4 190214555 +chr5 181538259 +chr6 170805979 +chr7 159345973 +chr8 145138636 +chr9 138394717 +chr10 133797422 +chr11 135086622 +chr12 133275309 +chr13 114364328 +chr14 107043718 +chr15 101991189 +chr16 90338345 +chr17 83257441 +chr18 80373285 +chr19 58617616 +chr20 64444167 +chr21 46709983 +chr22 50818468 \ No newline at end of file diff --git a/resources/labels.txt b/resources/labels.txt deleted file mode 100644 index 1b77ef0..0000000 --- a/resources/labels.txt +++ /dev/null @@ -1,77 +0,0 @@ -Category Name Type Description RName -Skin A-431 Skin cancer (Squamous cells) Epidermoid carcinoma cell line A.431 -Lung A549 Lung carcinoma Lung carcinoma cell line A549 -Primary Tissue adipose_tissue adipose_tissue Primary tissue adipose_tissue -Primary Tissue adrenal_gland adrenal_gland Primary tissue adrenal_gland -Breast/Female Reproductive AN3-CA Uterine cancer Metastatic endometrial adenocarcinoma cell line AN3.CA -Primary Tissue appendix appendix Primary tissue appendix -Other BEWO Uterine cancer Metastatic choriocarcinoma cell line BEWO -Primary Tissue bone_marrow bone_marrow Primary tissue bone_marrow -Abdominal CACO-2 Colon adenocarcinoma Colon adenocarcinoma cell line CACO.2 -Abdominal CAPAN-2 Pancreas adenocarcinoma Pancreas adenocarcinoma cell line CAPAN.2 -Primary Tissue cerebral_cortex cerebral_cortex Primary tissue cerebral_cortex -Primary Tissue colon colon Primary tissue colon -Lymphoid Daudi Human Burkitt lymphoma Human Burkitt lymphoma cell line Daudi -Primary Tissue duodenum duodenum Primary tissue duodenum -Breast/Female Reproductive EFO-21 Ovarian cancer Metastatic ovarian serous cystadenocarcinoma cell line EFO.21 -Primary Tissue endometrium endometrium Primary tissue endometrium -Primary Tissue esophagus esophagus Primary tissue esophagus -Primary Tissue fallopian_tube fallopian_tube Primary tissue fallopian_tube -Primary Tissue gallbladder gallbladder Primary tissue gallbladder -Skin HaCaT Keratinocyte cell line Keratinocyte cell line HaCaT -Lymphoid HDLM-2 Hodgkin lymphoma Hodgkin lymphoma cell line HDLM.2 -Primary Tissue heart_muscle heart_muscle Primary tissue heart_muscle -Other HEK_293 Kidney adrenal precursor cell line Embryonal kidney cell line, transformed by adenovirus type 5 HEK_293 -Myeloid HEL Erythroleukemia Erythroleukemia cell line (AML M6 in relapse after treatment for Hodgkin's disease) HEL -Breast/Female Reproductive HeLa Cervical cancer Cervical epithelial adenocarcinoma cell line HeLa -Abdominal Hep_G2 Hepatocellular carcinoma Hepatocellular carcinoma cell line Hep_G2 -Myeloid HL-60 Promyelocytic leukemia Acute promyelocytic leukemia (APL) cell line HL.60 -Myeloid HMC-1 Mastcell leukemia Mastcell leukemia cell line HMC.1 -Lymphoid K-562 Leukemia Chronic myeloid leukemia (CML) cell line K.562 -Lymphoid Karpas-707 Multiple myeloma Multiple myeloma cell line Karpas.707 -Primary Tissue kidney kidney Primary tissue kidney -Primary Tissue liver liver Primary tissue liver -Primary Tissue lung lung Primary tissue lung -Primary Tissue lymph_node lymph_node Primary tissue lymph_node -Breast/Female Reproductive MCF7 Breast cancer Metastatic breast adenocarcinoma cell line MCF7 -Lymphoid MOLT-4 Leukemia (ALL) Acute lymphoblastic leukemia (T-ALL) cell line MOLT.4 -Myeloid NB-4 Promyelocytic leukemia Acute promyelocytic leukemia (APL) cell line NB.4 -Urinary/Male Reproductive NTERA-2 Urinary cancer Metastatic embryonal carcinoma cell line, cloned from TERA-2 NTERA.2 -Primary Tissue ovary ovary Primary tissue ovary -Primary Tissue pancreas pancreas Primary tissue pancreas -Urinary/Male Reproductive PC-3 Prostate cancer Metastatic poorly differentiated prostate adenocarcinoma cell line PC.3 -Primary Tissue placenta placenta Primary tissue placenta -Primary Tissue prostate prostate Primary tissue prostate -Primary Tissue rectum rectum Primary tissue rectum -Lymphoid REH Leukemia (ALL) Pre-B cell leukemia cell line (ALL, first relapse) REH -Sarcoma RH-30 Rhabdomyosarcoma Metastatic rhabdomyosarcoma cell line RH.30 -Lymphoid RPMI-8226 Multiple Myeloma Multiple myeloma cell line RPMI.8226 -Urinary/Male Reproductive RT4 Bladder cancer Urinary bladder transitional cell carcinoma cell line RT4 -Primary Tissue salivary_gland salivary_gland Primary tissue salivary_gland -Lung SCLC-21H Small cell lung carcinoma Small cell lung carcinoma cell line SCLC.21H -Brain SH-SY5Y Neuroblastoma Metastatic neuroblastoma, clonal subline of neuroepithelioma cell line SK-N-SH SH.SY5Y -Breast/Female Reproductive SiHa Cervical cancer Cervical squamous cell carcinoma cell line, integrated 1-2 copies of HPV16 SiHa -Breast/Female Reproductive SK-BR-3 Breast cancer Metastatic breast adenocarcinoma cell line SK.BR.3 -Primary Tissue skeletal_muscle skeletal_muscle Primary tissue skeletal_muscle -Primary Tissue skin skin Primary tissue skin -Skin SK-MEL-30 Melanoma Metastatic malignant melanoma cell line SK.MEL.30 -Primary Tissue small_intestine small_intestine Primary tissue small_intestine -Primary Tissue smooth_muscle smooth_muscle Primary tissue smooth_muscle -Primary Tissue spleen spleen Primary tissue spleen -Primary Tissue stomach stomach Primary tissue stomach -Primary Tissue testis testis Primary tissue testis -Myeloid THP-1 Monocytic leukemia Acute monocytic leukemia (AML) cell line THP.1 -Primary Tissue thyroid_gland thyroid_gland Primary tissue thyroid_gland -Other TIME Microvascular endothelial cell line Telomerase-immortalized human microvascular endothelial cells (pooled) TIME -Primary Tissue tonsil tonsil Primary tissue tonsil -Brain U-138_MG Glioblastoma Glioblastoma cell line U.138_MG -Sarcoma U-2_OS Osteosarcoma Osteosarcoma cell line U.2_OS -Sarcoma U-2197 Sarcoma Malignant fibrous histiocytoma cell line U.2197 -Brain U-251_MG Glioblastoma Glioblastoma cell line U.251_MG -Lymphoid U-266/70 Multiple Myeloma Multiple myeloma cell line (1970, IL-6-dependent) U.266.70 -Lymphoid U-266/84 Multiple Myeloma Multiple myeloma cell line (1984, in vitro differentiated) U.266.84 -Lymphoid U-698 B-cell lymphoma B-cell lymphoma cell line (lymphoblastic lymphosarcoma) U.698 -Brain U-87_MG Glioblastoma, astrocytoma Glioblastoma, astrocytoma cell line U.87_MG -Myeloid U-937 Myelomonocytic histiocytic lymphoma Myelomonocytic histiocytic lymphoma cell line U.937 -Primary Tissue urinary_bladder urinary_bladder Primary tissue urinary_bladder -Skin WM-115 Melanoma Malignant melanoma cell line WM.115 diff --git a/resources/protein_atlas/RNAtable.tsv b/resources/protein_atlas/RNAtable.tsv deleted file mode 100644 index a6ef1e5..0000000 --- a/resources/protein_atlas/RNAtable.tsv +++ /dev/null @@ -1,20345 +0,0 @@ -GeneID A-431 A549 AN3-CA BEWO CACO-2 CAPAN-2 Daudi EFO-21 HDLM-2 HEK_293 HEL HL-60 HMC-1 HaCaT HeLa Hep_G2 K-562 Karpas-707 MCF7 MOLT-4 NB-4 NTERA-2 PC-3 REH RH-30 RPMI-8226 RT4 SCLC-21H SH-SY5Y SK-BR-3 SK-MEL-30 SiHa THP-1 TIME U-138_MG U-2197 U-251_MG U-266/70 U-266/84 U-2_OS U-698 U-87_MG U-937 WM-115 adipose_tissue adrenal_gland appendix bone_marrow cerebral_cortex colon duodenum endometrium esophagus fallopian_tube gallbladder heart_muscle kidney liver lung lymph_node ovary pancreas placenta prostate rectum salivary_gland skeletal_muscle skin small_intestine smooth_muscle spleen stomach testis thyroid_gland tonsil urinary_bladder -ENSG00000000003 21.3 32.5 38.2 31.4 63.9 34.2 0.0 52.4 0.1 51.5 3.9 0.1 4.8 15.9 16.5 64.3 0.0 0.0 24.1 0.2 0.1 115.7 24.5 0.0 36.8 0.1 160.8 5.9 24.3 9.3 17.4 13.0 2.5 12.1 13.3 22.0 8.2 0.0 0.1 23.9 0.0 13.1 0.0 9.7 24.1 21.6 7.2 0.6 11.8 49.8 24.4 26.4 47.6 72.8 29.7 6.7 44.4 52.9 13.4 4.4 59.7 14.3 21.4 30.4 52.1 55.8 2.1 5.6 16.3 12.6 9.9 20.1 57.9 30.5 10.5 54.5 -ENSG00000000005 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 22.4 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 12.3 0.6 0.7 0.0 0.2 0.8 0.4 0.4 0.3 0.3 0.6 0.9 1.2 0.0 0.1 0.2 2.5 0.4 3.4 1.2 0.8 0.6 0.2 0.3 0.2 0.8 0.2 0.1 0.3 0.1 0.1 0.2 -ENSG00000000419 73.8 38.6 34.0 53.7 155.5 65.5 46.9 65.7 24.5 41.6 51.2 79.2 28.3 87.0 37.7 94.4 83.0 59.8 40.5 76.8 82.1 55.4 84.4 44.0 71.4 66.8 50.4 44.2 46.2 112.6 100.1 83.4 95.8 33.0 72.2 46.0 60.4 43.6 59.7 71.1 64.6 87.0 56.6 33.8 31.5 50.1 34.5 31.5 21.4 37.3 30.2 36.7 42.8 33.3 34.6 42.6 34.3 27.5 27.1 46.7 33.3 21.1 39.5 34.0 39.1 24.4 22.3 25.0 32.4 33.3 29.6 29.6 38.0 45.4 47.6 42.3 -ENSG00000000457 2.8 3.7 3.8 5.8 3.1 4.7 5.1 4.1 11.0 2.8 3.6 5.9 4.0 5.2 3.4 1.5 7.0 5.7 2.3 4.3 3.6 4.5 2.0 4.7 2.9 6.6 4.5 4.5 6.9 9.5 6.6 4.1 4.9 2.6 3.5 3.6 3.1 9.9 9.8 2.0 5.7 2.8 4.1 3.8 4.8 6.2 7.7 1.9 4.4 8.2 7.8 8.2 7.3 8.8 9.2 4.4 6.7 5.0 5.7 10.3 8.4 4.1 8.7 8.3 10.1 6.4 2.9 6.3 6.5 6.6 7.2 7.5 7.7 8.2 10.4 9.9 -ENSG00000000460 25.2 14.2 10.6 24.3 14.2 18.8 20.0 11.7 15.0 17.1 18.6 26.8 11.0 19.0 13.2 9.8 33.7 24.9 5.0 23.2 8.6 22.7 13.3 17.2 18.1 12.6 11.6 13.8 14.5 16.3 7.8 11.4 16.3 5.9 16.6 14.0 20.4 11.3 16.3 15.3 19.5 7.1 19.6 18.0 2.4 2.1 5.9 6.8 1.7 3.6 2.7 4.3 3.5 3.1 3.2 1.3 1.7 2.2 2.3 8.4 4.2 0.9 4.8 2.7 4.8 1.6 0.4 3.3 2.8 4.0 3.6 2.3 13.6 2.6 9.2 4.4 -ENSG00000000938 0.0 0.0 0.0 0.0 0.0 0.1 52.0 0.0 0.4 0.0 0.5 1.4 20.8 0.0 0.0 0.0 0.0 0.2 0.0 2.6 3.6 0.1 0.0 0.0 0.0 0.0 0.9 0.0 0.1 0.0 0.0 0.0 7.2 0.0 0.0 0.0 0.0 107.7 1.7 0.0 4.4 0.0 13.5 0.0 23.1 4.0 68.1 128.0 2.4 5.1 3.5 6.9 6.1 6.2 16.8 2.7 2.4 4.7 34.6 30.4 1.6 2.7 8.0 3.1 5.2 2.8 1.0 3.7 6.0 18.0 79.3 5.1 2.5 2.9 24.4 16.6 -ENSG00000000971 0.0 45.3 0.1 0.1 0.1 7.8 0.1 7.4 0.9 0.2 13.2 0.4 0.2 1.5 47.0 0.0 49.3 1.6 0.1 0.3 0.0 0.2 0.1 0.2 57.7 14.1 148.2 0.1 0.1 0.0 0.5 0.1 0.0 2.9 44.4 0.7 0.6 0.5 0.0 0.7 0.1 8.6 0.2 3.8 56.6 45.3 34.9 0.9 7.8 57.9 27.1 13.8 67.6 13.7 149.7 86.8 19.3 697.5 47.2 27.8 114.4 6.9 17.5 24.2 79.6 22.3 4.8 36.8 45.7 30.5 11.4 47.1 18.9 33.1 23.1 108.3 -ENSG00000001036 56.7 39.7 60.4 55.5 68.3 58.0 0.1 47.8 54.3 67.3 20.9 0.1 10.4 0.2 60.5 96.2 77.5 29.4 78.2 0.1 43.4 43.5 56.2 0.1 62.9 44.3 37.4 29.5 17.6 38.2 50.0 67.0 52.5 34.7 37.1 92.8 97.8 12.7 15.3 38.7 0.1 46.0 39.8 14.0 24.2 33.7 24.4 14.4 9.6 42.6 35.5 25.6 14.6 26.3 30.7 21.3 38.8 27.4 24.2 16.1 27.7 16.5 45.1 21.7 50.6 11.6 3.1 7.1 33.7 25.9 21.4 34.1 13.8 31.6 17.1 34.6 -ENSG00000001084 19.1 155.1 24.5 12.6 23.5 40.2 35.8 17.5 35.9 27.1 25.8 37.2 14.3 27.8 25.4 97.5 17.4 12.1 24.2 33.0 11.9 20.3 16.8 10.8 8.8 30.1 122.0 31.4 14.1 22.4 15.0 23.6 12.7 14.3 6.9 17.4 13.1 17.0 32.2 29.7 20.3 14.6 21.4 12.2 23.0 18.7 15.5 27.0 26.5 21.1 34.4 19.1 30.3 61.7 23.5 11.9 22.7 78.8 10.1 22.0 7.0 6.9 7.7 23.9 22.1 9.4 6.5 14.5 24.8 15.2 34.3 29.5 12.6 27.6 19.0 33.4 -ENSG00000001167 20.1 17.7 53.3 13.1 20.7 14.5 23.9 14.6 18.8 27.7 32.0 32.6 27.0 12.9 13.0 29.0 33.5 26.4 20.9 39.2 13.1 15.2 18.1 32.3 17.7 18.3 25.4 37.7 23.9 10.8 22.6 13.0 31.8 15.7 36.2 7.6 27.3 11.9 13.5 24.9 36.1 8.2 29.5 15.6 9.0 8.0 13.7 23.7 10.9 11.1 8.5 15.0 9.5 13.4 12.7 5.5 8.2 6.9 10.2 18.6 17.1 4.9 13.1 11.5 14.1 6.4 2.7 8.9 9.9 10.4 12.1 10.8 38.8 18.3 19.1 13.8 -ENSG00000001460 9.4 4.0 7.0 4.7 2.3 9.9 2.0 7.4 7.5 6.8 3.4 3.9 3.0 4.3 2.3 2.3 3.9 0.0 2.6 0.6 3.9 6.6 7.4 2.2 0.0 1.0 1.7 9.4 4.4 2.1 14.1 5.0 4.0 4.2 5.1 1.7 3.4 4.3 4.7 5.0 2.6 3.8 1.4 7.2 4.9 3.3 3.1 1.7 6.9 8.4 4.7 4.1 4.3 21.8 4.3 3.0 5.6 1.1 6.2 3.2 4.5 2.3 1.9 5.3 6.5 2.5 0.7 3.7 4.9 5.7 2.5 4.5 29.1 7.6 3.9 4.6 -ENSG00000001461 23.0 10.2 3.0 3.3 3.5 25.4 10.4 25.5 23.2 32.7 12.1 10.4 10.2 20.2 14.5 3.2 7.7 6.0 5.1 9.5 3.7 5.3 29.5 4.4 0.0 12.3 7.0 39.0 3.3 12.4 20.0 10.8 7.8 10.9 21.8 7.9 15.6 21.1 19.6 6.4 3.6 15.6 18.8 20.5 8.3 8.3 9.7 5.4 42.1 16.4 11.5 7.6 16.5 19.9 11.8 12.9 15.7 1.5 15.8 12.2 9.1 9.3 4.8 48.4 14.9 13.4 3.0 10.8 13.6 13.1 8.3 14.8 6.8 36.3 13.7 15.1 -ENSG00000001497 40.4 70.8 28.0 30.4 34.0 30.5 61.2 39.2 27.8 60.2 28.5 66.4 24.7 28.4 52.3 29.6 71.7 57.9 51.6 56.6 50.4 48.3 71.0 49.4 41.6 67.0 17.4 28.9 33.0 26.3 19.0 41.6 37.2 16.2 21.4 65.1 34.8 24.7 32.4 51.7 61.9 21.5 75.8 12.3 14.0 14.5 17.4 17.6 18.1 14.0 9.9 23.5 15.2 24.9 11.8 10.1 15.4 10.8 15.1 21.4 24.0 7.0 14.3 16.1 15.6 13.6 6.9 19.3 10.9 17.9 17.7 13.0 26.2 15.4 24.7 13.9 -ENSG00000001561 0.1 0.8 1.1 0.0 1.4 8.9 10.1 10.4 12.9 8.7 5.5 7.1 9.7 0.2 0.0 0.0 0.0 0.0 1.3 5.4 0.6 2.1 0.4 4.2 2.0 3.9 1.2 14.8 0.0 1.6 0.0 0.0 2.9 0.0 0.0 0.3 7.5 15.0 20.5 5.2 3.4 6.9 0.0 1.0 12.9 14.8 8.1 22.2 20.0 13.0 10.5 4.5 5.7 12.7 9.4 12.0 16.7 4.2 18.2 7.7 2.2 5.8 3.0 17.6 12.6 15.9 9.4 1.2 10.0 7.0 12.2 11.4 8.9 12.4 6.3 8.4 -ENSG00000001617 9.7 2.7 10.9 2.3 4.9 4.1 0.2 48.2 0.1 1.9 0.5 1.4 2.2 28.1 59.4 11.5 1.9 0.0 6.8 0.8 3.7 5.0 10.0 7.4 0.0 0.6 58.1 1.1 2.6 88.6 0.3 7.7 5.4 151.8 4.0 16.6 3.8 0.2 0.0 21.2 0.2 0.4 2.5 0.5 16.5 4.7 8.6 1.3 1.3 8.3 11.0 8.7 46.2 18.3 11.0 7.3 14.1 1.6 18.6 3.5 1.3 3.7 27.2 16.7 6.0 14.4 3.2 56.8 11.2 8.9 23.7 15.5 2.3 18.1 13.3 23.2 -ENSG00000001626 0.0 0.4 0.0 0.0 22.1 0.0 0.1 3.4 0.3 0.0 0.0 0.0 1.2 0.0 0.1 0.0 0.0 0.0 0.0 75.7 0.2 1.5 0.0 0.0 0.0 0.3 0.0 0.1 0.1 0.2 0.0 0.8 0.0 0.0 0.2 0.1 0.0 40.7 0.0 0.2 0.1 0.0 0.0 0.0 0.6 0.0 5.1 0.0 0.9 44.0 38.2 1.5 0.9 2.5 56.5 0.1 1.0 1.2 7.5 0.1 0.1 90.0 0.7 1.9 44.1 20.9 0.0 0.3 19.5 2.2 0.1 3.9 3.2 0.1 0.4 1.7 -ENSG00000001629 26.9 21.3 24.3 16.9 16.3 39.4 14.9 19.6 26.0 13.6 9.4 12.8 21.9 13.0 18.2 10.6 14.9 29.4 29.9 31.9 12.7 17.5 23.2 12.2 17.7 17.0 24.3 23.5 25.6 29.4 16.7 32.0 7.9 16.9 32.4 39.4 20.8 20.5 34.1 32.9 16.5 19.8 16.1 38.1 11.8 13.4 12.9 6.5 22.5 13.9 11.7 15.0 13.4 13.2 18.5 8.8 23.8 6.8 12.1 16.1 13.9 7.2 13.1 11.3 15.0 11.7 4.2 15.3 13.1 14.8 14.3 12.3 30.3 19.9 12.4 17.4 -ENSG00000001630 44.1 17.9 36.9 7.8 44.2 78.6 37.0 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0.2 0.0 0.2 0.0 0.1 0.0 0.0 0.1 2.5 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.1 0.1 0.2 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.1 0.0 0.2 0.0 0.0 0.0 0.0 -ENSG00000273395 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.4 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.3 0.0 0.0 0.0 0.0 0.0 0.0 0.2 0.1 0.0 0.0 0.0 0.4 0.0 0.0 0.2 0.0 0.0 0.0 0.0 0.6 0.0 0.0 0.0 0.0 0.0 0.0 0.2 0.1 0.0 0.0 0.0 0.0 -ENSG00000273398 0.0 0.2 0.0 0.1 0.0 0.0 0.1 0.5 0.9 0.4 0.5 0.0 0.0 0.0 0.0 0.0 0.3 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.2 0.0 0.0 0.0 0.0 0.1 0.0 0.3 0.0 0.7 0.0 0.1 0.0 0.0 0.0 0.0 0.0 0.1 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.1 0.0 0.2 0.0 0.0 0.0 -ENSG00000273439 1.4 1.9 3.4 1.9 1.5 0.8 1.5 1.6 1.8 12.4 3.1 1.4 2.3 1.0 3.2 1.1 2.4 0.3 0.9 3.4 0.8 2.3 1.9 3.6 2.9 1.1 4.4 6.5 2.3 1.0 1.0 1.8 1.4 1.2 5.3 0.5 1.4 2.3 3.5 1.3 1.4 0.4 0.0 1.0 1.0 0.9 1.0 1.8 1.9 0.7 1.0 1.4 1.0 1.6 1.1 1.3 1.1 0.4 1.3 1.3 1.1 0.5 1.2 0.9 1.1 0.6 0.2 1.0 0.5 1.5 1.3 0.9 2.7 1.4 1.1 1.2 -ENSG00000273452 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.7 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.4 0.0 0.0 0.0 0.0 0.0 0.0 0.1 0.0 0.0 0.0 0.0 0.1 0.3 0.3 0.2 1.8 0.0 0.0 0.0 0.0 0.1 0.0 0.1 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.1 0.0 0.0 0.1 diff --git a/resources/protein_atlas/RNAtable.tsv.gz b/resources/protein_atlas/RNAtable.tsv.gz deleted file mode 100644 index 9f075cb..0000000 Binary files a/resources/protein_atlas/RNAtable.tsv.gz and /dev/null differ diff --git a/resources/protein_atlas/RNAtableBlood.tsv.gz b/resources/protein_atlas/RNAtableBlood.tsv.gz new file mode 100644 index 0000000..56138cd Binary files /dev/null and b/resources/protein_atlas/RNAtableBlood.tsv.gz differ diff --git a/resources/protein_atlas/RNAtableExtended.tsv.gz b/resources/protein_atlas/RNAtableExtended.tsv.gz new file mode 100644 index 0000000..5f494e0 Binary files /dev/null and b/resources/protein_atlas/RNAtableExtended.tsv.gz differ diff --git a/resources/protein_atlas/RNAtableTissue.tsv.gz b/resources/protein_atlas/RNAtableTissue.tsv.gz new file mode 100644 index 0000000..877b0e8 Binary files /dev/null and b/resources/protein_atlas/RNAtableTissue.tsv.gz differ diff --git a/resources/protein_atlas/labels_Blood.tsv b/resources/protein_atlas/labels_Blood.tsv new file mode 100644 index 0000000..9092235 --- /dev/null +++ b/resources/protein_atlas/labels_Blood.tsv @@ -0,0 +1,20 @@ +Category Name Type +Blood cell basophil Myeloid cell (progenitor: Myoblast) +Blood cell classical_monocyte Myeloid cell (progenitor: Myoblast) +Blood cell eosinophil Myeloid cell (progenitor: Myoblast) +Blood cell gdT_cell gdT_cell +Blood cell intermediate_monocyte Myeloid cell (progenitor: Myoblast) +Blood cell MAIT_T_cell Lymphoid cell +Blood cell memory_B_cell Lymphoid cell +Blood cell memory_CD4_T_cell Lymphoid cell +Blood cell memory_CD8_T_cell Lymphoid cell +Blood cell myeloid_DC Lymphoid cell +Blood cell naive_B_cell Lymphoid cell +Blood cell naive_CD4_T_cell Lymphoid cell +Blood cell naive_CD8_T_cell Lymphoid cell +Blood cell neutrophil Myeloid cell (progenitor: Myoblast) +Blood cell NK_cell NK_cell +Blood cell non_classical_monocyte Myeloid cell (progenitor: Myoblast) +Blood cell plasmacytoid_DC Dendritic cell +Blood cell T_reg Lymphoid cell +Blood cell total_PBMC Peripheral blood mononuclear cells diff --git a/resources/protein_atlas/labels_Extended.tsv b/resources/protein_atlas/labels_Extended.tsv new file mode 100644 index 0000000..d1af342 --- /dev/null +++ b/resources/protein_atlas/labels_Extended.tsv @@ -0,0 +1,131 @@ +Category Name Type +Skin A-431 Epidermoid carcinoma cell line +Lung A549 Lung carcinoma cell line +Primary Tissue adipose tissue Connective and soft tissue +Primary Tissue adrenal gland Endocrine tissues +Skin AF22 iPS derived Neuroepithelia stem (NES) cell line +Primary Tissue amygdala Brain +Lymph node AN3-CA Metastatic endometrial adenocarcinoma cell line +Primary Tissue appendix Bone marrow and lymphoid tissues +Adipose tissue ASC diff Differentiated imortalized adipose-derived mesenchymal stem cell line +Adipose tissue ASC TERT1 Adipose tissue-derived mesenchymal stem cell line +Primary Tissue B-cells Blood cell +Primary Tissue basal ganglia Brain +Brain BEWO Metastatic choriocarcinoma cell line +Foreskin BJ Adherent fibroblast cell line +Foreskin BJ hTERT+ Adherent BJ fibroblast cell line immortalized with ectopic expression of hTERT +Foreskin BJ hTERT+ SV40 Large T+ Adherent BJ fibroblast cell line immortalized with ectopic expression of hTERT, transformed with SV40 Large-T infection +Foreskin BJ hTERT+ SV40 Large T+ RasG12V Adherent BJ fibroblast cell line immortalized with ectopic expression of hTERT, transformed with SV40 Large-T infection, made metastasizing with oncogenic H-Ras +Primary Tissue bone marrow Bone marrow and lymphoid tissues +Primary Tissue breast Female tissues +Colon CACO-2 Colon adenocarcinoma cell line +Pancreas CAPAN-2 Pancreas adenocarcinoma cell line +Primary Tissue cerebellum Brain +Primary Tissue cerebral cortex Brain +Primary Tissue cervix, uterine Female tissues +Primary Tissue colon Gastointestinal tract +Primary Tissue corpus callosum Brain +Orbital biopsy Daudi Human Burkitt lymphoma cell line +Primary Tissue dendritic cells Blood cell +Primary Tissue ductus deferens Male tissues +Primary Tissue duodenum Gastointestinal tract +Ascites EFO-21 Metastatic ovarian serous cystadenocarcinoma cell line +Primary Tissue endometrium Female tissues +Primary Tissue epididymis Male tissues +Primary Tissue esophagus Proximal digestive tract +Primary Tissue fallopian tube Female tissues +Skin fHDF/TERT166 hTERT immortalized human foreskin fibroblast cell line +Primary Tissue gallbladder Liver and gallblader +Glioma GAMG Glioblastoma cell line +Primary Tissue granulocytes Blood cell +Skin HaCaT Keratinocyte cell line +Leukemia HAP1 Haploid karyotype cell line from Chronic myelogenous leukemia +Central lung bronchiole HBEC3-KT Immortalized human bronchial epithelial cell line +Brain HBF TERT88 Adherent brain fibroblast cell line +Pleural effusion HDLM-2 Hodgkin lymphoma cell line +Primary Tissue heart muscle Muscle tissues +Embryonal kidney HEK 293 Embryonal kidney cell line, transformed by adenovirus type 5 +Peripheral blood HEL Erythroleukemia cell line (AML M6 in relapse after treatment for Hodgkin's disease) +Cervix HeLa Cervical epithelial adenocarcinoma cell line +Liver Hep G2 Hepatocellular carcinoma cell line +Liver HHSteC Primary hepatic stellate cells +Primary Tissue hippocampal formation Brain +Peripheral blood HL-60 Acute promyelocytic leukemia (APL) cell line +Peripheral blood HMC-1 Mastcell leukemia cell line +Trapezius and erector spinae muscles HSkMC Primary skeletal muscle cells +Corneal epithelium hTCEpi hTERT immortalized human corneal epithelial cell line +Thymic epithelium hTEC/SVTERT24-B hTERT and SV40 early region immortalized human thymic epithelial cell line +Breast hTERT-HME1 Mammary Gland, Epithelium +Retina hTERT-RPE1 Epithelial retina cells immortalized with hTERT +Umbilical vein HUVEC TERT2 Umbilical vein endothelial cell line +Primary Tissue hypothalamus Brain +Peripheral blood JURKAT T-cell leukemia cell line +Pleural effusion K-562 Chronic myeloid leukemia (CML) cell line +Bone marrow and peripheral blood Karpas-707 Multiple myeloma cell line +Primary Tissue kidney Kidney and urinary bladder +Satellite cells (from pectoralis major muscle) LHCN-M2 Adherent myoblast cell line +Primary Tissue liver Liver and gallblader +Primary Tissue lung Respiratory system +Primary Tissue lymph node Bone marrow and lympoid tissues +Pleural effusion MCF7 Metastatic breast adenocarcinoma cell line +Primary Tissue midbrain Brain +Peripheral blood MOLT-4 Acute lymphoblastic leukemia (T-ALL) cell line +Primary Tissue monocytes Blood cell +Bone marrow NB-4 Acute promyelocytic leukemia (APL) cell line +Primary Tissue NK-cells Blood cell + NTERA-2 Metastatic embryonal carcinoma cell line, cloned from TERA-2 +Esophagus OE19 Esophageal adenocarcinoma cell line +Primary Tissue olfactory region Brain +Primary Tissue ovary Female tissues +Primary Tissue pancreas Pancreas +Primary Tissue parathyroid gland Endocrine tissues +Bone marrow PC-3 Metastatic poorly differentiated prostate adenocarcinoma cell line +Primary Tissue pituitary gland Brain +Primary Tissue placenta Female tissues +Primary Tissue pons and medulla Brain +Primary Tissue prostate Male tissues +Primary Tissue rectum Gastointestinal tract +Peripheral blood REH B cell precursor leukemia +Primary Tissue retina Eye +Bone marrow RH-30 Metastatic rhabdomyosarcoma cell line +Peripheral blood RPMI-8226 Multiple myeloma cell line +Human kidney cortex RPTEC TERT1 Proximal tubular epithelial cell line +Urinary bladder RT4 Urinary bladder transitional cell carcinoma cell line +Primary Tissue salivary gland Proximal digestive tract +Pleural effusion SCLC-21H Small cell lung carcinoma cell line +Primary Tissue seminal vesicle Male tissues +Bone marrow SH-SY5Y Metastatic neuroblastoma, clonal subline of neuroepithelioma cell line SK-N-SH +Cervix SiHa Cervical squamous cell carcinoma cell line, integrated 1-2 copies of HPV16 +Pleural effusion SK-BR-3 Metastatic breast adenocarcinoma cell line +Subcutis SK-MEL-30 Metastatic malignant melanoma cell line +Primary Tissue skeletal muscle Muscle tissues +Primary Tissue skin Skin +Primary Tissue small intestine Gastointestinal tract +Primary Tissue smooth muscle Muscle tissues +Primary Tissue spinal cord Spinal cord +Primary Tissue spleen Bone marrow and lymphoid tissues +Primary Tissue stomach Gastointestinal tract +Testis SuSa Testicular germ cell tumor +Mammary gland; derived from metastatic site: pleural effusion T-47d Invasive ductal carcinoma +Primary Tissue T-cells Blood cell +Primary Tissue testis Male tissues +Primary Tissue thalamus Brain +Peripheral blood THP-1 Acute monocytic leukemia (AML) cell line +Primary Tissue thymus Bone marrow and lympoid tissues +Primary Tissue thyroid gland Endocrine tissues +Skin TIME Telomerase-immortalized human microvascular endothelial cells (pooled) +Primary Tissue tongue Tongue +Primary Tissue tonsil Bone marrow and lympoid tissues +Primary Tissue total PBMC Peripheral blood mononuclear cell +Brain U-138 MG Glioblastoma cell line +Bone U-2 OS Osteosarcoma cell line +Subcutis U-2197 Malignant fibrous histiocytoma cell line +Brain U-251 MG Glioblastoma cell line +Peripheral blood U-266/70 Multiple myeloma cell line (1970, IL-6-dependent) +Peripheral blood U-266/84 Multiple myeloma cell line (1984, in vitro differentiated) +Tonsil U-698 B-cell lymphoma cell line (lymphoblastic lymphosarcoma) +Brain U-87 MG Likely glioblastoma, epithelial +Pleural effusion U-937 Myelomonocytic histiocytic lymphoma cell line +Primary Tissue urinary bladder Kidney and urinary bladder +Primary Tissue vagina Female tissues +Skin WM-115 Malignant melanoma cell line diff --git a/resources/protein_atlas/labels_Tissue.tsv b/resources/protein_atlas/labels_Tissue.tsv new file mode 100644 index 0000000..9c4a676 --- /dev/null +++ b/resources/protein_atlas/labels_Tissue.tsv @@ -0,0 +1,33 @@ +Category Name Type +Primary Tissue amygdala Brain +Primary Tissue appendix Bone marrow and lymphoid tissues +Primary Tissue breast Female tissues +Primary Tissue cerebellum Brain +Primary Tissue colon Gastointestinal tract +Primary Tissue duodenum Gastointestinal tract +Primary Tissue endometrium Female tissues +Primary Tissue epididymis Male tissues +Primary Tissue esophagus Proximal digestive tract +Primary Tissue gallbladder Liver and gallblader +Primary Tissue granulocytes Blood cell +Primary Tissue hypothalamus Brain +Primary Tissue kidney Kidney and urinary bladder +Primary Tissue liver Liver and gallblader +Primary Tissue lung Respiratory system +Primary Tissue midbrain Brain +Primary Tissue monocytes Blood cell +Primary Tissue ovary Female tissues +Primary Tissue pancreas Pancreas +Primary Tissue placenta Female tissues +Primary Tissue prostate Male tissues +Primary Tissue rectum Gastointestinal tract +Primary Tissue retina Eye +Primary Tissue skin Skin +Primary Tissue spleen Bone marrow and lymphoid tissues +Primary Tissue stomach Gastointestinal tract +Primary Tissue testis Male tissues +Primary Tissue thalamus Brain +Primary Tissue thymus Bone marrow and lympoid tissues +Primary Tissue tongue Tongue +Primary Tissue tonsil Bone marrow and lympoid tissues +Primary Tissue vagina Female tissues diff --git a/resources/protein_atlas/tissue_key.tsv b/resources/protein_atlas/tissue_key.tsv deleted file mode 100644 index 1bd831c..0000000 --- a/resources/protein_atlas/tissue_key.tsv +++ /dev/null @@ -1,78 +0,0 @@ -#Name Type Description -A-431 Skin cancer (Squamous cells) Epidermoid carcinoma cell line -A549 Lung carcinoma Lung carcinoma cell line -AN3-CA Uterine cancer Metastatic endometrial adenocarcinoma cell line -BEWO Uterine cancer Metastatic choriocarcinoma cell line -CACO-2 Colon adenocarcinoma Colon adenocarcinoma cell line -CAPAN-2 Pancreas adenocarcinoma Pancreas adenocarcinoma cell line -Daudi Lymphoid: Human Burkitt lymphoma Human Burkitt lymphoma cell line -EFO-21 Ovarian cancer Metastatic ovarian serous cystadenocarcinoma cell line -HaCaT Keratinocyte cell line Keratinocyte cell line -HDLM-2 Lymphoid: Hodgkin lymphoma Hodgkin lymphoma cell line -HEK_293 Kidney adrenal precursor cell line Embryonal kidney cell line, transformed by adenovirus type 5 -HEL Myeloid: Erythroleukemia Erythroleukemia cell line (AML M6 in relapse after treatment for Hodgkin's disease) -HeLa Cervical cancer Cervical epithelial adenocarcinoma cell line -Hep_G2 Hepatocellular carcinoma Hepatocellular carcinoma cell line -HL-60 Myeloid: Promyelocytic leukemia Acute promyelocytic leukemia (APL) cell line -HMC-1 Myeloid: Mastcell leukemia Mastcell leukemia cell line -K-562 Myeloid: Leukemia Chronic myeloid leukemia (CML) cell line -Karpas-707 Lymphoid: Multiple myeloma Multiple myeloma cell line -MCF7 Breast cancer Metastatic breast adenocarcinoma cell line -MOLT-4 Lymphoid: Leukemia (ALL) Acute lymphoblastic leukemia (T-ALL) cell line -NB-4 Myeloid: Promyelocytic leukemia Acute promyelocytic leukemia (APL) cell line -NTERA-2 Urinary cancer Metastatic embryonal carcinoma cell line, cloned from TERA-2 -PC-3 Prostate cancer Metastatic poorly differentiated prostate adenocarcinoma cell line -REH Lymphoid: Leukemia (ALL) Pre-B cell leukemia cell line (ALL, first relapse) -RH-30 Rhabdomyosarcoma Metastatic rhabdomyosarcoma cell line -RPMI-8226 Lymphoid: Multiple Myeloma Multiple myeloma cell line -RT4 Bladder cancer Urinary bladder transitional cell carcinoma cell line -SCLC-21H Small cell lung carcinoma Small cell lung carcinoma cell line -SH-SY5Y Neuroblastoma Metastatic neuroblastoma, clonal subline of neuroepithelioma cell line SK-N-SH -SiHa Cervical cancer Cervical squamous cell carcinoma cell line, integrated 1-2 copies of HPV16 -SK-BR-3 Breast cancer Metastatic breast adenocarcinoma cell line -SK-MEL-30 Melanoma Metastatic malignant melanoma cell line -THP-1 Myeloid: Monocytic leukemia Acute monocytic leukemia (AML) cell line -TIME Microvascular endothelial cell line Telomerase-immortalized human microvascular endothelial cells (pooled) -U-138_MG Glioblastoma Glioblastoma cell line -U-2197 Sarcoma Malignant fibrous histiocytoma cell line -U-251_MG Glioblastoma Glioblastoma cell line -U-266/70 Lymphoid: Multiple Myeloma Multiple myeloma cell line (1970, IL-6-dependent) -U-266/84 Lymphoid: Multiple Myeloma Multiple myeloma cell line (1984, in vitro differentiated) -U-2_OS Osteosarcoma Osteosarcoma cell line -U-698 Lymphoid: B-cell lymphoma B-cell lymphoma cell line (lymphoblastic lymphosarcoma) -U-87_MG Glioblastoma, astrocytoma Glioblastoma, astrocytoma cell line -U-937 Myeloid: Myelomonocytic histiocytic lymphoma Myelomonocytic histiocytic lymphoma cell line -WM-115 Melanoma Malignant melanoma cell line -adipose_tissue adipose_tissue Primary tissue -adrenal_gland adrenal_gland Primary tissue -appendix appendix Primary tissue -bone_marrow bone_marrow Primary tissue -cerebral_cortex cerebral_cortex Primary tissue -colon colon Primary tissue -duodenum duodenum Primary tissue -endometrium endometrium Primary tissue -esophagus esophagus Primary tissue -fallopian_tube fallopian_tube Primary tissue -gallbladder gallbladder Primary tissue -heart_muscle heart_muscle Primary tissue -kidney kidney Primary tissue -liver liver Primary tissue -lung lung Primary tissue -lymph_node lymph_node Primary tissue -ovary ovary Primary tissue -pancreas pancreas Primary tissue -placenta placenta Primary tissue -placentaDH placenta Primary tissue from pooled individuals -prostate prostate Primary tissue -rectum rectum Primary tissue -salivary_gland salivary_gland Primary tissue -skeletal_muscle skeletal_muscle Primary tissue -skin skin Primary tissue -small_intestine small_intestine Primary tissue -smooth_muscle smooth_muscle Primary tissue -spleen spleen Primary tissue -stomach stomach Primary tissue -testis testis Primary tissue -thyroid_gland thyroid_gland Primary tissue -tonsil tonsil Primary tissue -urinary_bladder urinary_bladder Primary tissue diff --git a/resources/transcriptAnno-GRCh37.75.tsv.gz b/resources/transcriptAnno-GRCh37.75.tsv.gz deleted file mode 100644 index 0069c5d..0000000 Binary files a/resources/transcriptAnno-GRCh37.75.tsv.gz and /dev/null differ diff --git a/snakefile_GE_analysis.smk b/snakefile_GE_analysis.smk index 62a1c77..7c201c5 100644 --- a/snakefile_GE_analysis.smk +++ b/snakefile_GE_analysis.smk @@ -10,10 +10,14 @@ validate(samples, schema="workflow/schemas/samples.schema.yaml") rule all: input: - "resources/annotations/transcriptAnno-GRCh37.75.upstream.tsv", - "resources/annotations/transcriptAnno-GRCh37.75.downstream.tsv", - "resources/annotations/transcriptAnno-GRCh37.75.body.tsv", - expand("results/intermediate/body/fft_summaries/fft_{SAMPLE}_WPS.tsv.gz", + expand("results/intermediate/transcriptAnno/transcriptAnno-{GENOME}.103.filtered.tsv.gz", + GENOME=samples["genome_build"].unique() + ), + expand("results/intermediate/transcriptAnno/transcriptAnno-{GENOME}.103.body.tsv.gz", + GENOME=samples["genome_build"].unique()), + expand("results/intermediate/body/fft_summaries/fft_{SAMPLE}-{GENOME}_WPS.tsv.gz", + zip, + GENOME=samples["genome_build"], SAMPLE=samples["sample"]), expand("results/plots/{ID}/{tissue}_allFreq_correlation_plot.pdf", tissue=config["tissue"], @@ -25,27 +29,45 @@ rule all: ID=samples["ID"]) + +rule join: + input: + transcriptAnno= lambda wc: config[wc.GENOME]["transcriptAnno"], + #"resources/annotations/transcriptAnno-{GENOME}.103.tsv.gz", + proteinAtlas= expand("resources/protein_atlas/RNAtable{SOURCE}.tsv.gz", + SOURCE=config["proteinAtlas"]), + output: + filteredTranscriptAnno="results/intermediate/transcriptAnno/transcriptAnno-{GENOME}.103.filtered.tsv.gz" + conda: "workflow/envs/cfDNA.yml" + shell: + """ + set +o pipefail; + (zcat {input.transcriptAnno} | \ + head -n 1; join -t"$(echo -e "\\t")" \ + <(\zcat {input.transcriptAnno}| tail -n +2 | sort -k1,1 ) \ + <(zcat {input.proteinAtlas} | tail -n +2 |cut -f 1 | sort )) | \ + gzip -c > {output.filteredTranscriptAnno} + """ + rule prep: input: - transcriptAnno="resources/transcriptAnno-GRCh37.75.tsv.gz" + transcriptAnno="results/intermediate/transcriptAnno/transcriptAnno-{GENOME}.103.filtered.tsv.gz" output: - upstream="resources/annotations/transcriptAnno-GRCh37.75.upstream.tsv", - downstream="resources/annotations/transcriptAnno-GRCh37.75.downstream.tsv", - body="resources/annotations/transcriptAnno-GRCh37.75.body.tsv" + body="results/intermediate/transcriptAnno/transcriptAnno-{GENOME}.103.body.tsv.gz" conda: "workflow/envs/cfDNA.yml" shell: """ - zcat {input.transcriptAnno} | awk 'BEGIN{{ FS="\\t"; OFS="\\t" }}{{ if ($5 == "+") {{ print $1,$2,$3-10000,$3,$5 }} else {{ print $1,$2,$4,$4+10000,$5 }} }}' > {output.upstream} - zcat {input.transcriptAnno} | awk 'BEGIN{{ FS="\\t"; OFS="\\t" }}{{ if ($5 == "+") {{ print $1,$2,$4,$4+10000,$5 }} else {{ print $1,$2,$3-10000,$3,$5 }} }}' > {output.downstream} - zcat {input.transcriptAnno} | awk 'BEGIN{{ FS="\\t"; OFS="\\t" }}{{ if ($5 == "+") {{ print $1,$2,$3-1,$3-1+10000,$5 }} else {{ print $1,$2,$4-1-10000,$4-1,$5 }} }}' >{output.body} + zcat {input.transcriptAnno} | tail -n +2 | \ + awk 'BEGIN{{ FS="\\t"; OFS="\\t" }}{{ if ($5 == "+") {{ print $1,$2,$3-1,$3-1+10000,$5 }} else {{ print $1,$2,$4-1-10000,$4-1,$5 }} }}'| \ + gzip -c > {output.body} """ rule extract_counts: input: - body="resources/annotations/transcriptAnno-GRCh37.75.body.tsv", + body="results/intermediate/transcriptAnno/transcriptAnno-{GENOME}.103.body.tsv.gz", BAMFILE= lambda wildcards: samples["path"][wildcards.SAMPLE] output: - "results/intermediate/body/fft_summaries/fft_{SAMPLE}_WPS.tsv.gz" + "results/intermediate/body/fft_summaries/fft_{SAMPLE}-{GENOME}_WPS.tsv.gz" params: minRL=config["minRL"], maxRL=config["maxRL"], @@ -75,7 +97,7 @@ rule extract_counts: -t results/tmp/ \ -r results/intermediate/ \ -p body \ - -i {wildcards.SAMPLE} + -i {wildcards.SAMPLE}-{wildcards.GENOME} rm -fR results/tmp/body/{wildcards.SAMPLE}/fft """ @@ -83,10 +105,13 @@ rule extract_counts: rule correlation_plots: input: - samples = expand("results/intermediate/body/fft_summaries/fft_{SAMPLE}_WPS.tsv.gz", - SAMPLE=samples["sample"]), - proteinAtlas = "resources/protein_atlas/RNAtable.tsv", - labels = "resources/labels.txt", + samples = expand("results/intermediate/body/fft_summaries/fft_{SAMPLE}-{GENOME}_WPS.tsv.gz", + GENOME=samples["genome_build"], + SAMPLE=samples["sample"]), + proteinAtlas= expand("resources/protein_atlas/RNAtable{SOURCE}.tsv.gz", + SOURCE=config["proteinAtlas"]), + labels = expand("resources/protein_atlas/labels_{SOURCE}.tsv", + SOURCE=config["proteinAtlas"]), output: allFreq = "results/plots/{ID}/{tissue}_allFreq_correlation_plot.pdf", conda: "workflow/envs/cfDNA.yml" @@ -100,10 +125,13 @@ rule correlation_plots: rule correlation_table: input: - samples = expand("results/intermediate/body/fft_summaries/fft_{SAMPLE}_WPS.tsv.gz", - SAMPLE=samples["sample"]), - proteinAtlas = "resources/protein_atlas/RNAtable.tsv", - labels = "resources/labels.txt", + samples = expand("results/intermediate/body/fft_summaries/fft_{SAMPLE}-{GENOME}_WPS.tsv.gz", + GENOME=samples["genome_build"], + SAMPLE=samples["sample"]), + proteinAtlas= expand("resources/protein_atlas/RNAtable{SOURCE}.tsv.gz", + SOURCE=config["proteinAtlas"]), + labels = expand("resources/protein_atlas/labels_{SOURCE}.tsv", + SOURCE=config["proteinAtlas"]), output: aveCor = "results/tables/{ID}/Ave193-199bp_correlation.pdf", conda: "workflow/envs/cfDNA.yml" @@ -116,10 +144,13 @@ rule correlation_table: rule rank_correlation_table: input: - samples = expand("results/intermediate/body/fft_summaries/fft_{SAMPLE}_WPS.tsv.gz", - SAMPLE=samples["sample"]), - proteinAtlas = "resources/protein_atlas/RNAtable.tsv", - labels = "resources/labels.txt", + samples = expand("results/intermediate/body/fft_summaries/fft_{SAMPLE}-{GENOME}_WPS.tsv.gz", + GENOME=samples["genome_build"], + SAMPLE=samples["sample"]), + proteinAtlas= expand("resources/protein_atlas/RNAtable{SOURCE}.tsv.gz", + SOURCE=config["proteinAtlas"]), + labels = expand("resources/protein_atlas/labels_{SOURCE}.tsv", + SOURCE=config["proteinAtlas"]), output: aveCorRank = "results/tables/{ID}/{refSample}_Ave193-199bp_correlation_rank.pdf", conda: "workflow/envs/cfDNA.yml" diff --git a/snakefile_WPS.smk b/snakefile_WPS.smk index 90e0e5e..a3028c6 100644 --- a/snakefile_WPS.smk +++ b/snakefile_WPS.smk @@ -1,8 +1,10 @@ from snakemake.utils import validate import pandas as pd + configfile: "config/config.yml" + validate(config, schema="workflow/schemas/config.schema.yaml") samples = pd.read_csv(config["samples"], sep="\t").set_index("sample", drop=False) @@ -12,42 +14,157 @@ regions = pd.read_csv(config["regions"], sep="\t").set_index("target", drop=Fals regions.index.names = ["region_id"] validate(regions, schema="workflow/schemas/regions.schema.yaml") + def get_WPS_ref(sample): - return expand("results/intermediate/table/{{ID}}/{{target_region}}.{ref_SAMPLE}_WPS.csv", - ref_SAMPLE=samples["ref_samples"][sample].split(",")) + ref_samples = samples["ref_samples"][sample].split(",") + genomes=samples["genome_build"][ref_samples].values.tolist() + return expand( + "results/intermediate/{{ID}}/target/{GENOME}/table/{{target_region}}--{ref_SAMPLE}_WPS.csv", + zip, + ref_SAMPLE=ref_samples, + GENOME=genomes, + ) + def get_COV_ref(sample): - return expand("results/intermediate/table/{{ID}}/{{target_region}}.{ref_SAMPLE}_COV.csv", - ref_SAMPLE=samples["ref_samples"][sample].split(",")) + ref_samples = samples["ref_samples"][sample].split(",") + genomes=samples["genome_build"][ref_samples].values.tolist() + return expand( + "results/intermediate/{{ID}}/target/{GENOME}/table/{{target_region}}--{ref_SAMPLE}_COV.csv", + zip, + ref_SAMPLE=ref_samples, + GENOME=genomes, + ) + + +def get_STARTS_ref(sample): + ref_samples = samples["ref_samples"][sample].split(",") + genomes=samples["genome_build"][ref_samples].values.tolist() + return expand( + "results/intermediate/{{ID}}/target/{GENOME}/table/{{target_region}}--{ref_SAMPLE}_STARTS.csv", + zip, + ref_SAMPLE=ref_samples, + GENOME=genomes, + ) + +def get_WPS_background_ref(sample): + ref_samples = samples["ref_samples"][sample].split(",") + genomes=samples["genome_build"][ref_samples].values.tolist() + return expand( + "results/intermediate/{{ID}}/background/{GENOME}/table/{{target_region}}--{ref_SAMPLE}_WPS.background.csv", + zip, + ref_SAMPLE=ref_samples, + GENOME=genomes, + ) + + +def get_COV_background_ref(sample): + ref_samples = samples["ref_samples"][sample].split(",") + genomes=samples["genome_build"][ref_samples].values.tolist() + return expand( + "results/intermediate/{{ID}}/background/{GENOME}/table/{{target_region}}--{ref_SAMPLE}_COV.background.csv", + zip, + ref_SAMPLE=ref_samples, + GENOME=genomes, + ) + + +def get_STARTS_background_ref(sample): + ref_samples = samples["ref_samples"][sample].split(",") + genomes=samples["genome_build"][ref_samples].values.tolist() + return expand( + "results/intermediate/{{ID}}/background/{{GENOME}}/table/{{target_region}}--{ref_SAMPLE}_STARTS.background.csv", + zip, + ref_SAMPLE=ref_samples, + GENOME=genomes, + ) + + + +def get_length(input): + df = pd.read_csv(input, sep="\t", header=None) + length = df[2] - df[1] + return length[0] rule all: input: - expand("results/intermediate/table/{ID}/{target_region}.{SAMPLE}_WPS.csv", - SAMPLE=samples["sample"], - ID=samples["ID"], - target_region=regions["target"]), - expand("results/intermediate/table/{ID}/{target_region}.{SAMPLE}_COV.csv", - SAMPLE=samples["sample"], - ID=samples["ID"], - target_region=regions["target"]), - expand("results/plots/overlays/{ID}/{target_region}.{SAMPLE}_overlays.pdf", - SAMPLE=samples["sample"], - ID=samples["ID"], - target_region=regions["target"]), + expand(expand( + "results/intermediate/{ID}/target/{GENOME}/table/{target_region}--{SAMPLE}_WPS.csv", + zip, + SAMPLE=samples["sample"], + ID=samples["ID"], + GENOME=samples["genome_build"], + allow_missing=True, + ),target_region=regions["target"], + ), + expand(expand( + "results/intermediate/{ID}/target/{GENOME}/table/{target_region}--{SAMPLE}_COV.csv", + zip, + SAMPLE=samples["sample"], + ID=samples["ID"], + GENOME=samples["genome_build"], + allow_missing=True, + ),target_region=regions["target"], + ), + expand(expand( + "results/intermediate/{ID}/target/{GENOME}/table/{target_region}--{SAMPLE}_STARTS.csv", + zip, + SAMPLE=samples["sample"], + ID=samples["ID"], + GENOME=samples["genome_build"], + allow_missing=True, + ),target_region=regions["target"], + ), + expand(expand( + "results/intermediate/{ID}/background/{GENOME}/{target_region}_background_regions.bed", + zip, + ID=samples["ID"], + GENOME=samples["genome_build"], + allow_missing=True, + ),target_region=regions["target"], + ), + expand(expand( + "results/plots/overlays/{ID}/{target_region}--{SAMPLE}_overlays.pdf", + zip, + SAMPLE=samples["sample"], + ID=samples["ID"], + allow_missing=True, + ),target_region=regions["target"], + ), + +rule generate_random_background: + input: + region=lambda wildcards: regions["path"][wildcards.target_region], + genome=lambda wildcards: config[wildcards.GENOME]["genome_autosomes"], + gap=lambda wildcards: config[wildcards.GENOME]["UCSC_gap"], + output: + "results/intermediate/{ID}/background/{GENOME}/{target_region}_background_regions.bed" + params: + length = lambda wildcards, input: get_length(input.region) + conda:"workflow/envs/background.yml" + shell: + """ + bedtools random -n 1000 -l {params.length} -g {input.genome} | \ + bedtools shuffle -i stdin -g {input.genome} -excl {input.gap} -noOverlapping \ + > {output} + """ + rule extract_counts: input: - target= lambda wildcards: regions["path"][wildcards.target_region], - BAMFILE= lambda wildcards: samples["path"][wildcards.SAMPLE] + target=lambda wildcards: regions["path"][wildcards.target_region], + BAMFILE=lambda wildcards: samples["path"][wildcards.SAMPLE], output: - WPS = "results/intermediate/table/{ID}/{target_region}.{SAMPLE}_WPS.csv", - COV = "results/intermediate/table/{ID}/{target_region}.{SAMPLE}_COV.csv" + WPS="results/intermediate/{ID}/target/{GENOME}/table/{target_region}--{SAMPLE}_WPS.csv", + COV="results/intermediate/{ID}/target/{GENOME}/table/{target_region}--{SAMPLE}_COV.csv", + STARTS="results/intermediate/{ID}/target/{GENOME}/table/{target_region}--{SAMPLE}_STARTS.csv", params: minRL=config["minRL"], maxRL=config["maxRL"], - out_pre="results/intermediate/table/{ID}/{target_region}.{SAMPLE}_%s.csv" - conda: "workflow/envs/cfDNA.yml" + out_pre="results/intermediate/{ID}/target/{GENOME}/table/{target_region}--{SAMPLE}_%s.csv", + conda: + "workflow/envs/cfDNA.yml" shell: """ workflow/scripts/WPS/extractFromBAM_RegionBed_WPS_Cov.py \ @@ -57,18 +174,47 @@ rule extract_counts: -o {params.out_pre} {input.BAMFILE} """ +rule extract_counts_background: + input: + background="results/intermediate/{ID}/background/{GENOME}/{target_region}_background_regions.bed", + BAMFILE=lambda wildcards: samples["path"][wildcards.SAMPLE], + output: + WPS="results/intermediate/{ID}/background/{GENOME}/table/{target_region}--{SAMPLE}_WPS.background.csv", + COV="results/intermediate/{ID}/background/{GENOME}/table/{target_region}--{SAMPLE}_COV.background.csv", + STARTS="results/intermediate/{ID}/background/{GENOME}/table/{target_region}--{SAMPLE}_STARTS.background.csv", + params: + minRL=config["minRL"], + maxRL=config["maxRL"], + out_pre="results/intermediate/{ID}/background/{GENOME}/table/{target_region}--{SAMPLE}_%s.background.csv", + conda: + "workflow/envs/cfDNA.yml" + shell: + """ + workflow/scripts/WPS/extractFromBAM_RegionBed_WPS_Cov.py \ + --minInsert={params.minRL} \ + --maxInsert={params.maxRL} \ + -i {input.background} \ + -o {params.out_pre} {input.BAMFILE} + """ + + rule plot_overlays: input: - WPS = "results/intermediate/table/{ID}/{target_region}.{SAMPLE}_WPS.csv", - WPS_ref = lambda wildcards: get_WPS_ref(wildcards.SAMPLE), - COV = "results/intermediate/table/{ID}/{target_region}.{SAMPLE}_COV.csv", - COV_ref = lambda wildcards: get_COV_ref(wildcards.SAMPLE), + WPS=lambda wc: "results/intermediate/{{ID}}/target/{GENOME}/table/{{target_region}}--{{SAMPLE}}_WPS.csv".format(GENOME=samples["genome_build"].loc[samples["sample"] == wc.SAMPLE].values[0]), + WPS_ref=lambda wildcards: get_WPS_ref(wildcards.SAMPLE), + COV=lambda wc: "results/intermediate/{{ID}}/target/{GENOME}/table/{{target_region}}--{{SAMPLE}}_COV.csv".format(GENOME=samples["genome_build"].loc[samples["sample"] == wc.SAMPLE].values[0]), + COV_ref=lambda wildcards: get_COV_ref(wildcards.SAMPLE), + WPS_back=lambda wc: "results/intermediate/{{ID}}/background/{GENOME}/table/{{target_region}}--{{SAMPLE}}_WPS.background.csv".format(GENOME=samples["genome_build"].loc[samples["sample"] == wc.SAMPLE].values[0]), + WPS_back_ref=lambda wildcards: get_WPS_background_ref(wildcards.SAMPLE), + COV_back=lambda wc: "results/intermediate/{{ID}}/background/{GENOME}/table/{{target_region}}--{{SAMPLE}}_COV.background.csv".format(GENOME=samples["genome_build"].loc[samples["sample"] == wc.SAMPLE].values[0]), + COV_back_ref=lambda wildcards: get_COV_background_ref(wildcards.SAMPLE), output: - "results/plots/overlays/{ID}/{target_region}.{SAMPLE}_overlays.pdf" + "results/plots/overlays/{ID}/{target_region}--{SAMPLE}_overlays.pdf", params: target="{target_region}", sample="{SAMPLE}", - ref_IDs = lambda wildcards: samples["ref_samples"][wildcards.SAMPLE].split(",") - conda: "workflow/envs/overlays.yml" + ref_IDs=lambda wildcards: samples["ref_samples"][wildcards.SAMPLE].split(","), + conda: + "workflow/envs/overlays.yml" script: "workflow/scripts/WPS/overlays.py" \ No newline at end of file diff --git a/workflow/envs/background.yml b/workflow/envs/background.yml new file mode 100644 index 0000000..ab7c2c2 --- /dev/null +++ b/workflow/envs/background.yml @@ -0,0 +1,6 @@ +name: background +channels: + - conda-forge + - bioconda +dependencies: + - bedtools diff --git a/workflow/envs/overlays.yml b/workflow/envs/overlays.yml index d6eecae..2ac9717 100644 --- a/workflow/envs/overlays.yml +++ b/workflow/envs/overlays.yml @@ -6,5 +6,7 @@ channels: dependencies: - python=3.8 - pandas + - numpy - matplotlib + - seaborn - scipy diff --git a/workflow/schemas/config.schema.yaml b/workflow/schemas/config.schema.yaml index 64fc13c..584cede 100644 --- a/workflow/schemas/config.schema.yaml +++ b/workflow/schemas/config.schema.yaml @@ -10,23 +10,20 @@ properties: type: string regions: type: string - refSample: - type: string - tissue: - type: array minRL: type: integer maxRL: type: integer bpProtection: type: integer - + proteinAtlas: + type: string + enum: ["Blood", "Tissue", "Extended"] + description: Type of ProteinAtlas to use. Blood=BloodAtlas, Tissue=ProteinAtlas, Extended=Tissue+cell-lines # entries that have to be in the config file for successful validation required: - samples - regions - - refSample - - tissue - minRL - maxRL - bpProtection diff --git a/workflow/schemas/samples.schema.yaml b/workflow/schemas/samples.schema.yaml index e89d665..31c6fec 100644 --- a/workflow/schemas/samples.schema.yaml +++ b/workflow/schemas/samples.schema.yaml @@ -16,9 +16,13 @@ properties: ref_samples: type: string description: reference samples contained in samples.tsv; multiple samples comma separated + genome_build: + type: string + enum: ["GRCh37", "GRCh38"] # columns that the config/samples.tsv file must have to pass schema validation required: - ID - sample - path - - ref_samples \ No newline at end of file + - ref_samples + - genome_build \ No newline at end of file diff --git a/workflow/scripts/WPS/extractFromBAM_RegionBed_WPS_Cov.py b/workflow/scripts/WPS/extractFromBAM_RegionBed_WPS_Cov.py index d076b98..8b9c95b 100755 --- a/workflow/scripts/WPS/extractFromBAM_RegionBed_WPS_Cov.py +++ b/workflow/scripts/WPS/extractFromBAM_RegionBed_WPS_Cov.py @@ -65,8 +65,11 @@ def aln_length(cigarlist): #validChroms = set(map(str,range(1,23)+["X","Y"])) #validChroms = set(map(str,range(1,23)+["X","Y"])) +validChroms = [str(i) for i in range(1, 23)] + ["X","Y"] + WPS_scores = list() COV_scores = list() +STARTS_scores = list() if os.path.exists(options.input): infile = open(options.input) @@ -75,9 +78,11 @@ def aln_length(cigarlist): # implement proper bedfile reading ######## chrom,start,end,cid,score,strand = line.split() # positions should be 0-based and end non-inclusive -# if chrom not in validChroms: continue + if chrom.startswith("chr"): + chrom = chrom.replace("chr","") + if chrom not in validChroms: continue - regionStart,regionEnd = int(start)-1000,int(end)+1000 + regionStart,regionEnd = int(start)-1300,int(end)+1300 if regionStart < 1: continue @@ -97,11 +102,11 @@ def aln_length(cigarlist): input_file = pysam.Samfile( bamfile, "rb" ) prefix = "" for tchrom in input_file.references: - if tchrom.startswith("chr"): + if tchrom.startswith("chr"): prefix = "chr" break - for read in input_file.fetch(chrom,regionStart-protection-1,regionEnd+protection+1): + for read in input_file.fetch(prefix+chrom,regionStart-protection-1,regionEnd+protection+1): if read.is_duplicate or read.is_qcfail or read.is_unmapped: continue if isSoftClipped(read.cigar): continue @@ -148,6 +153,8 @@ def aln_length(cigarlist): else: if (rstart >= regionStart and rstart <= regionEnd): posRange[rstart][1]+=1 + else: + sys.stderr.write("Using min/max length cutoffs: %d/%d\n"%(minInsSize,maxInsSize)) #filename = options.outfile%cid #outfile = gzip.open(filename,'w') @@ -155,7 +162,7 @@ def aln_length(cigarlist): outLines = [] wps_list = [] cov_list = [] - + starts_list = [] for pos in range(regionStart,regionEnd+1): rstart,rend = pos-protection,pos+protection @@ -168,12 +175,18 @@ def aln_length(cigarlist): outLines.append("%s\t%d\t%d\t%d\t%d\n"%(chrom,pos,covCount,startCount,gcount-bcount)) wps_list.append(gcount-bcount) cov_list.append(covCount) + starts_list.append(startCount) if strand == "-": outLines = outLines[::-1] + if strand == "-": wps_list = wps_list[::-1] + if strand == "-": cov_list = cov_list[::-1] + if strand == "-": starts_list = starts_list[::-1] WPS_scores.append(wps_list) COV_scores.append(cov_list) + STARTS_scores.append(starts_list) filen_WPS = options.outfile%"WPS" filen_COV = options.outfile%"COV" +filen_STARTS = options.outfile%"STARTS" #with open(options.outfile,"w") as file: with open(filen_WPS,"w") as file: @@ -184,4 +197,9 @@ def aln_length(cigarlist): with open(filen_COV,"w") as file: csvwriter = csv.writer(file) for cov_list in COV_scores: - csvwriter.writerow(cov_list) \ No newline at end of file + csvwriter.writerow(cov_list) + +with open(filen_STARTS,"w") as file: + csvwriter = csv.writer(file) + for start_list in STARTS_scores: + csvwriter.writerow(start_list) \ No newline at end of file diff --git a/workflow/scripts/WPS/overlays.py b/workflow/scripts/WPS/overlays.py index 349b94c..cd18c44 100755 --- a/workflow/scripts/WPS/overlays.py +++ b/workflow/scripts/WPS/overlays.py @@ -20,6 +20,11 @@ WPS_refs = snakemake.input["WPS_ref"] COV = snakemake.input["COV"] COV_refs = snakemake.input["COV_ref"] +WPS_back = snakemake.input["WPS_back"] +WPS_back_refs = snakemake.input["WPS_back_ref"] +COV_back = snakemake.input["COV_back"] +COV_back_refs = snakemake.input["COV_back_ref"] + sample_ID = snakemake.params["sample"] ref_IDs = snakemake.params["ref_IDs"] target = snakemake.params["target"] @@ -54,7 +59,7 @@ def calculate_flanking_regions(val: int): return region -def add_sample(path: str): +def add_sample(path_a: str, path_b: str): """Reads .csv file, calculates mean over all rows and divides by trimmed mean. Args: @@ -63,8 +68,9 @@ def add_sample(path: str): Returns: [type]: [description] """ - sample = pd.read_csv(path, header=None).mean() - sample = sample / stats.trim_mean(sample, 0.25) + sample_a = pd.read_csv(path_a, header=None).mean() + sample_b = pd.read_csv(path_b, header=None).mean(axis=1) + sample = sample_a / stats.trim_mean(sample_b, 0.1) return sample @@ -73,30 +79,30 @@ def add_sample(path: str): av_WPS = pd.DataFrame() -av_WPS[sample_ID] = add_sample(WPS) -for (ref_ID, WPS_ref) in zip(ref_IDs, WPS_refs): - av_WPS[ref_ID] = add_sample(WPS_ref) +av_WPS[sample_ID] = add_sample(WPS, WPS_back) +for (ref_ID, WPS_ref, WPS_back_ref) in zip(ref_IDs, WPS_refs, WPS_back_refs): + av_WPS[ref_ID] = add_sample(WPS_ref, WPS_back_ref) av_WPS["position"] = calculate_flanking_regions(len(av_WPS)) av_WPS = av_WPS.set_index("position") av_COV = pd.DataFrame() -av_COV[sample_ID] = add_sample(COV) -for (ref_ID, COV_ref) in zip(ref_IDs, COV_refs): - av_COV[ref_ID] = add_sample(COV_ref) +av_COV[sample_ID] = add_sample(COV, COV_back) +for (ref_ID, COV_ref, COV_back_ref) in zip(ref_IDs, COV_refs, COV_back_refs): + av_COV[ref_ID] = add_sample(COV_ref, COV_ref) -av_COV["position"] = calculate_flanking_regions(len(av_WPS)) +av_COV["position"] = calculate_flanking_regions(len(av_COV)) av_COV = av_COV.set_index("position") # create line plots and save to a single pdf with PdfPages(outfile) as pdf: - Fig_WPS = av_WPS.plot( + Fig_WPS = av_WPS.iloc[300:-300].plot( title=f"adjusted WPS: {target} target regions", xlabel="Position relative to target site", ylabel="normalized WPS", ) - Fig_Cov = av_COV.plot( + Fig_Cov = av_COV.iloc[300:-300].plot( title=f"adjusted read coverage: {target} target regions", xlabel="Position relative to target site", ylabel="normalized read coverage", diff --git a/workflow/scripts/expression_analysis/convert_files.py b/workflow/scripts/expression_analysis/convert_files.py index a043bea..4bd4fde 100755 --- a/workflow/scripts/expression_analysis/convert_files.py +++ b/workflow/scripts/expression_analysis/convert_files.py @@ -9,6 +9,10 @@ """ +########### +# transposes input file and splits in 3 values (COV,START,WPS) +########### + import sys, os import pysam import gzip @@ -36,7 +40,10 @@ geneIDs = set() if os.path.exists(options.annotation): - infile = open(options.annotation) + if ".gz" in options.annotation: + infile = gzip.open(options.annotation,"r") + else: + infile = open(options.annotation) for line in infile: cid,chrom,start,end,strand = line.split() # positions are 1-based and inclusive geneIDs.add(cid) diff --git a/workflow/scripts/expression_analysis/extractReadStartsFromBAM_Region_WPS.py b/workflow/scripts/expression_analysis/extractReadStartsFromBAM_Region_WPS.py index 0c7e943..c76e992 100755 --- a/workflow/scripts/expression_analysis/extractReadStartsFromBAM_Region_WPS.py +++ b/workflow/scripts/expression_analysis/extractReadStartsFromBAM_Region_WPS.py @@ -65,7 +65,10 @@ def aln_length(cigarlist): validChroms = set(map(str,range(1,23)+["X","Y"])) if os.path.exists(options.input): - infile = open(options.input) + if ".gz" in options.input: + infile = gzip.open(options.input,"r") + else: + infile = open(options.input) for line in infile: cid,chrom,start,end,strand = line.split() # positions should be 0-based and end non-inclusive if chrom not in validChroms: continue diff --git a/workflow/scripts/expression_analysis/fft_path.R b/workflow/scripts/expression_analysis/fft_path.R index 09f7ef4..7d89b2f 100644 --- a/workflow/scripts/expression_analysis/fft_path.R +++ b/workflow/scripts/expression_analysis/fft_path.R @@ -7,12 +7,13 @@ for (filename in args) { dataA1 <- read.table(paste(ipath,filename,sep="/"),as.is=T,header=F) - tdataA1 <- as.ts(dataA1$V3) + tdataA1 <- as.ts(dataA1$V3) + # Daniell smoothing filter (because auf fragments -> adds 300bp to beginning and removes them later) tdataA1 <- filter(c(window(tdataA1,1,300),tdataA1),filter=1/seq(5,100,4),method="recursive")[-(1:300)] tdataA1 <- tdataA1-mean(tdataA1,trim=0.1) resA1 <- spec.pgram(tdataA1,pad=0.3,tap=0.3,span=2,plot=F,detrend=TRUE,demean=TRUE) - resA1$freq <- 1/resA1$freq + resA1$freq <- 1/resA1$freq # periodic length -> bp restbl <- data.frame(Freq=round(resA1$freq[resA1$freq >= 120 & resA1$freq <= 280]),Cov=resA1$spec[resA1$freq >= 120 & resA1$freq <= 280])