ProteoClade: A taxonomic toolkit for multi-species and metaproteomic analysis.
Where this comes from
- Record sourced from PubMed, PMID 32150535.
- Also identified by DOI 10.1371/journal.pcbi.1007741 and PMC identifier 7082058.
- 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
We present ProteoClade, a Python toolkit that performs taxa-specific peptide assignment, protein inference, and quantitation for multi-species proteomics experiments. ProteoClade scales to hundreds of millions of protein sequences, requires minimal computational resources, and is open source, multi-platform, and accessible to non-programmers. We demonstrate its utility for processing quantitative proteomic data derived from patient-derived xenografts and its speed and scalability enable a novel de novo proteomic workflow for complex microbiota samples.
Medical subject headings
- Proteins
- Proteomics
- Software