Home About Browse Search
Svenska


ProkSeq for complete analysis of RNA-Seq data from prokaryotes

Mahmud, A. K. M. Firoj and Delhomme, Nicolas and Nandi, Soumyadeep and Fallman, Maria (2021). ProkSeq for complete analysis of RNA-Seq data from prokaryotes. Bioinformatics. 37 , 126-128
[Research article]

[img] PDF
230kB

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.

Authors/Creators:Mahmud, A. K. M. Firoj and Delhomme, Nicolas and Nandi, Soumyadeep and Fallman, Maria
Title:ProkSeq for complete analysis of RNA-Seq data from prokaryotes
Series Name/Journal:Bioinformatics
Year of publishing :2021
Volume:37
Page range:126-128
Number of Pages:3
Publisher:OXFORD UNIV PRESS
ISSN:1367-4803
Language:English
Publication Type:Research article
Article category:Scientific peer reviewed
Version:Published version
Copyright:Creative Commons: Attribution 4.0
Full Text Status:Public
Subjects:(A) Swedish standard research categories 2011 > 1 Natural sciences > 106 Biological Sciences (Medical to be 3 and Agricultural to be 4) > Bioinformatics and Systems Biology (methods development to be 10203)
URN:NBN:urn:nbn:se:slu:epsilon-p-112515
Permanent URL:
http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-p-112515
Additional ID:
Type of IDID
DOI10.1093/bioinformatics/btaa1063
Web of Science (WoS)000649437800019
ID Code:24757
Faculty:S - Faculty of Forest Sciences
Department:(S) > Dept. of Forest Genetics and Plant Physiology
Deposited By: SLUpub Connector
Deposited On:29 Jun 2021 14:25
Metadata Last Modified:29 Jun 2021 14:31

Repository Staff Only: item control page

Downloads

Downloads per year (since September 2012)

View more statistics

Downloads
Hits