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Maxquant and MSstats TMT: Adding missing MaxQuant parameters #5680

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Jan 8, 2025
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Maxquant and MSstats TMT: Adding missing MaxQuant parameters #5680

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4 changes: 3 additions & 1 deletion topics/proteomics/tutorials/maxquant-msstats-tmt/tutorial.md
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Expand Up @@ -94,7 +94,9 @@ We start the MaxQuant run with TMT parameters for MS2 based reporter quantitatio
> - {% icon param-file %} *"Specify an experimental design template"*: `experimental design template`
> - In *"Parameter Group"*:
> - {% icon param-collection %} *"Infiles"*: `MFA380.raw` `MFA381.raw` `MFA382.raw` `MFA383.raw` `MFA384.raw` `MFA385.raw` `MFA386.raw` `MFA387.raw` `MFA388.raw` `MFA389.raw` `MFA390.raw` `MFA391.raw`
> - *"Quantitation Methods"*: `reporter ion MS2`
> - *"variable Modifications"*: `Oxidation (M)` `Acetyl (Protein N-term)`
> - *"enzyme"*: `Trypsin/P`
> - *"Quantitation Methods"*: `reporter ion MS2`
> - *"isobaric labeling"*: `TMT11plex`
> - *"Filter by PIF"*: `Yes`
> - *"Generate PTXQC (proteomics quality control pipeline) report? (experimental setting)"*: `Yes`
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