PPIP: Automated Software for Identification of Bioactive Endogenous Peptides.
J Proteome Res
; 18(2): 721-727, 2019 02 01.
Article
em En
| MEDLINE
| ID: mdl-30540478
ABSTRACT
Endogenous peptides play an important role in multiple biological processes in many species. Liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS) is an important technique for detecting these peptides on a large scale. We present PPIP, which is a dedicated peptidogenomics software for identifying endogenous peptides based on peptidomics and RNA-Seq data. This software automates the de novo transcript assembly based on RNA-Seq data, construction of a protein reference database based on the de novo assembled transcripts, peptide identification, function analysis, and HTML-based report generation. Different function components are integrated using Docker technology. The Docker image of PPIP is available at https//hub.docker.com/r/shawndp/ppip , and the source code under GPL-3 license is available at https//github.com/Shawn-Xu/PPIP . A user manual of PPIP is available at https//shawn-xu.github.io/PPIP .
Palavras-chave
Texto completo:
1
Base de dados:
MEDLINE
Assunto principal:
Peptídeos
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Software
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Sequência de Bases
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Proteômica
Tipo de estudo:
Diagnostic_studies
Idioma:
En
Ano de publicação:
2019
Tipo de documento:
Article