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Allen Brain Adult Mouse
Gab-D-G edited this page Apr 10, 2019
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Files about the ABI mouse anatomical annotations and labels registered to the DSURQE atlas can be found here: /data/chamal/projects/Gabriel_DG/atlases/AllenBrain. The original label file is here: /opt/quarantine/resources/Dorr_2008_Steadman_2013_Ullmann_2013_Richards_2011_Qiu_2016_Egan_2015_40micron/allenbrain/labels3.mnc
ABI_labels_on_DSURQE_40micron.mnc: atlas registered over DSURQE_40microns space
structures.csv: label id and ontological hierarchy downloaded from http://download.alleninstitute.org/informatics-archive/october-2014/annotation/
Gene expression data is also available at /data/chamal/projects/Gabriel_DG/atlases/AllenBrain/gene_expression. The data was dowloaded using the abagen package https://github.com/rmarkello/abagen.
allen_reference_genes.csv: file with gene ids and corresponding names/acronyms
coronal_genes.csv: gene expression from the coronal slices in gray matter regions
sagittal_genes.csv: gene expression from the sagittal slices in gray matter regions