PamgeneAnalyzeR: open and reproducible pipeline for kinase profiling

Details

Serval ID
serval:BIB_F6B4F7EFAFFB
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
PamgeneAnalyzeR: open and reproducible pipeline for kinase profiling
Journal
Bioinformatics
Author(s)
Bekkar Amel, Nasrallah Anita, Guex Nicolas, Fajas Lluis, Xenarios Ioannis, Lopez-Mejia Isabel C
ISSN
1367-4811 (Electronic)
ISSN-L
1367-4803
Publication state
In Press
Peer-reviewed
Oui
Editor
Valencia Alfonso
Language
english
Notes
Publication types: Journal Article
Publication Status: aheadofprint
Abstract
Protein phosphorylation - catalyzed by protein kinases - is the most common post-translational modification. It increases the functional diversity of the proteome and influences various aspects of normal physiology and can be altered in disease states. High throughput profiling of kinases is becoming an essential experimental approach to investigate their activity and this can be achieved using technologies such as PamChip® arrays provided by PamGene for kinase activity measurement. Here we present "pamgeneAnalyzeR", an R package developed as an alternative to the manual steps necessary to extract the data from PamChip® peptide microarrays images in a reproducible and robust manner. The extracted data can be directly used for downstream analysis.
PamgeneAnalyzeR is implemented in R and can be obtained from https://github.com/amelbek/pamgeneAnalyzeR.
Keywords
Statistics and Probability, Computational Theory and Mathematics, Biochemistry, Molecular Biology, Computational Mathematics, Computer Science Applications
Pubmed
Open Access
Yes
Create date
17/01/2020 17:46
Last modification date
24/01/2020 7:26
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