quantms: a cloud-based pipeline for quantitative proteomics enables the reanalysis of public proteomics data.
Where this comes from
- Record sourced from PubMed, PMID 38965444.
- Also identified by DOI 10.1038/s41592-024-02343-1 and PMC identifier 11399091.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
The volume of public proteomics data is rapidly increasing, causing a computational challenge for large-scale reanalysis. Here, we introduce quantms ( https://quant,ms.org/ ), an open-source cloud-based pipeline for massively parallel proteomics data analysis. We used quantms to reanalyze 83 public ProteomeXchange datasets, comprising 29,354 instrument files from 13,132 human samples, to quantify 16,599 proteins based on 1.03 million unique peptides. quantms is based on standard file formats improving the reproducibility, submission and dissemination of the data to ProteomeXchange.
Medical subject headings
- Proteomics
- Cloud Computing
- Software