The neXtProt peptide uniqueness checker: a tool for the proteomics community

Mathieu Schaeffer; Alain Gateau; Daniel Teixeira; Pierre-André Michel; Monique Zahn-Zabal; Lydie Lane

doi:10.1093/bioinformatics/btx318

The neXtProt peptide uniqueness checker: a tool for the proteomics community

Bioinformatics. 2017 Nov 1;33(21):3471-3472. doi: 10.1093/bioinformatics/btx318.

Authors

Mathieu Schaeffer¹, Alain Gateau², Daniel Teixeira², Pierre-André Michel², Monique Zahn-Zabal², Lydie Lane^{1

2}

Affiliations

¹ Department of Human Protein Science, Faculty of Medicine, University of Geneva, Geneva, Switzerland.
² CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, 1211 Geneva 4, Switzerland.

Abstract

Summary: The neXtProt peptide uniqueness checker allows scientists to define which peptides can be used to validate the existence of human proteins, i.e. map uniquely versus multiply to human protein sequences taking into account isobaric substitutions, alternative splicing and single amino acid variants.

Availability and implementation: The pepx program is available at https://github.com/calipho-sib/pepx and can be launched from the command line or through a cgi web interface. Indexing requires a sequence file in FASTA format. The peptide uniqueness checker tool is freely available on the web at https://www.nextprot.org/tools/peptide-uniqueness-checker and from the neXtProt API at https://api.nextprot.org/.

Contact: lydie.lane@sib.swiss.

MeSH terms

Databases, Protein
Humans
Peptides / analysis*
Proteins / analysis
Proteomics / methods*
Software*

Substances

Peptides
Proteins