Skip to content
A RNA Encyclopaedia for Bacteria and Archaea
Gnuplot
Branch: master
Clone or download
Fetching latest commit…
Cannot retrieve the latest commit at this time.
Permalink
Type Name Latest commit message Commit time
Failed to load latest commit information.
data
manuscript
results
scripts
README.md

README.md

Bacterial & Archaeal Transcriptome Meta-analysis Project.

Project Status: Inactive – The project has reached a stable, usable state but is no longer being actively developed; support/maintenance will be provided as time allows.

This is a collection of RNA-seq datasets spanning Archaea and Bacteria. Each dataset has been converted into a consistent format, plotfiles, containing read-depths for each position of the corresponding genome. These files can be read by genome viewing tools such as Artemis so RNA-seq data can be viewed in the context of genome annotations.

Datasets for the next release:

Directional RNA-seq reveals highly complex condition-dependent transcriptomes in E. coliK12 through accurate full-length transcripts assembling.
Li S, Dong X, Su Z.
BMC Genomics. 2013 Jul 30;14(1):520.
http://www.biomedcentral.com/1471-2164/14/520/abstract

Computational analysis of bacterial RNA-Seq data.
McClure R, Balasubramanian D, Sun Y, Bobrovskyy M, Sumby P, Genco CA, Vanderpool CK, Tjaden B.
Nucleic Acids Res. 2013 May 28
http://nar.oxfordjournals.org/content/early/2013/05/28/nar.gkt444.long

RNA at 92°C: The non-coding transcriptome of the hyperthermophilic archaeon Pyrococcus abyssi.
Toffano-Nioche C, Ott A, Crozat E, Nguyen AN, Zytnicki M, Leclerc F, Forterre P, Bouloc P, Gautheret D.
RNA Biol. 2013 Jul 2;10(7).

Determination of sRNA Expressions by RNA-seq in Yersinia pestis Grown In Vitro and during Infection
Yan et al. 
PLoS One. 2013; 8(9): e74495.
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3770706/

RNA-Seq Analysis of Mycobacterium avium Non-Coding Transcriptome
Ignatov et al. 
PLoS One. 2013; 8(9): e74209. 
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0074209

Comparative analysis of non-coding RNAs in the antibiotic-producing Streptomyces bacteria
Moody et al. 
BMC Genomics. 2013
http://www.biomedcentral.com/1471-2164/14/558/abstract

Revealing of Mycobacterium marinum Transcriptome by RNA-seq
Wang et al.
PLoS ONE

RNA-Seq of Bacillus licheniformis: active regulatory RNA features expressed
within a productive fermentation
Wiegand et al.
BMC Genomics 2013, 14:667

Probing bacterial metabolism during infection using high-resolution transcriptomics
Jorth et al.
Aggregatibacter actinomycetemcomitans
http://jb.asm.org/content/early/2013/08/19/JB.00875-13.short?rss=1

Comprehensive analysis of the Corynebacterium glutamicum transcriptome using an improved RNAseq technique
Pfeifer-Sancar et al.
http://www.biomedcentral.com/1471-2164/14/888/abstract

Ammonium induces differential expression of methane and nitrogen metabolism-related genes in Methylocystis sp. strain SC2
Dam et al.
http://onlinelibrary.wiley.com/doi/10.1111/1462-2920.12367/abstract
You can’t perform that action at this time.