Delhomme, Nicolas
- Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences
Research article2021Peer reviewedOpen access
ProkSeq for complete analysis of RNA-Seq data from prokaryotes
Mahmud, A. K. M. Firoj; Delhomme, Nicolas; Nandi, Soumyadeep; Fallman, Maria
Abstract
Since its introduction, RNA-Seq technology has been used extensively in studies of pathogenic bacteria to identify and quantify differences in gene expression across multiple samples from bacteria exposed to different conditions. With some exceptions, tools for studying gene expression, determination of differential gene expression, downstream pathway analysis and normalization of data collected in extreme biological conditions is still lacking. Here, we describe ProkSeq, a user-friendly, fully automated RNA-Seq data analysis pipeline designed for prokaryotes. ProkSeq provides a wide variety of options for analysing differential expression, normalizing expression data and visualizing data and results.
Published in
Bioinformatics
2021, Volume: 37, number: 1, pages: 126-128 Publisher: OXFORD UNIV PRESS
SLU Authors
UKÄ Subject classification
Bioinformatics and Systems Biology
Publication identifier
DOI: https://doi.org/10.1093/bioinformatics/btaa1063
Permanent link to this page (URI)
https://res.slu.se/id/publ/112515