Journal
BIOLOGY DIRECT
Volume 14, Issue 1, Pages -Publisher
BMC
DOI: 10.1186/s13062-019-0253-x
Keywords
Bioinformatics; Metaproteomics; Microbial ecology; Protein annotation; Protein search database
Categories
Funding
- Royal Society [RG160594]
- Open Access Fund of the Leibniz Association
Ask authors/readers for more resources
Metaproteomics allows to decipher the structure and functionality of microbial communities. Despite its rapid development, crucial steps such as the creation of standardized protein search databases and reliable protein annotation remain challenging. To overcome those critical steps, we developed a new program named mPies (metaProteomics in environmental sciences). mPies allows the creation of protein databases derived from assembled or unassembled metagenomes, and/or public repositories based on taxon IDs, gene or protein names. For the first time, mPies facilitates the automatization of reliable taxonomic and functional consensus annotations at the protein group level, minimizing the well-known protein inference issue, which is commonly encountered in metaproteomics. mPies' workflow is highly customizable with regards to input data, workflow steps, and parameter adjustment. mPies is implemented in Python 3/Snakemake and freely available on GitHub: .
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available