RiboGalaxy statistics

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Citations per year

Number of citations per year for the bioinformatics software tool RiboGalaxy
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Tool usage distribution map

This map represents all the scientific publications referring to RiboGalaxy per scientific context
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RiboGalaxy specifications

Information


Unique identifier OMICS_11201
Name RiboGalaxy
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Pavel Baranov

Publication for RiboGalaxy

RiboGalaxy citations

 (5)
library_books

Ribosome profiling uncovers selective mRNA translation associated with eIF2 phosphorylation in erythroid progenitors

2018
PLoS One
PMCID: 5892948
PMID: 29634759
DOI: 10.1371/journal.pone.0193790

[…] njamini-Hochberg (FDR) at a threshold of 5%.For UCSC browser snapshots we visualised the peak at the first nucleotide of the RFP and the sum of all three replicates. For metagene analysis we used the RiboGalaxy webtool []. […]

library_books

RNA editing by ADAR1 leads to context dependent transcriptome wide changes in RNA secondary structure

2017
Nat Commun
PMCID: 5682290
PMID: 29129909
DOI: 10.1038/s41467-017-01458-8

[…] D∕Normalizedreadcountcontrol 4TE = NormalizedreadcountRibo-seq∕NormalizedreadcountRNA - seq 5TER = TEKD∕TEcontrol= FCRibo-seq∕FCRNA-seq Ribosome occupancy was calculated using the GWIPS-viz method in Ribogalaxy Meta-gene analysis was done in the span of 150 bases upstream/downstream to translation start/stop sites. […]

library_books

riboviz: analysis and visualization of ribosome profiling datasets

2017
BMC Bioinformatics
PMCID: 5657068
PMID: 29070028
DOI: 10.1186/s12859-017-1873-8

[…] sed codon usage, presence of poly-basic amino-acids, and protein-domain architecture affect the distribution of footprinting reads along a transcript []. Recently, several tools such as GWIPS-viz [], RiboGalaxy [], and RPFdb [] have been developed for both analysis and visualization of ribosome-profiling datasets. While GWIPS-viz and RPFdb use unified pipelines for processing and mapping footprint […]

library_books

Small RNA profiling in Chlamydomonas: insights into chloroplast RNA metabolism

2017
Nucleic Acids Res
PMCID: 5737564
PMID: 28985404
DOI: 10.1093/nar/gkx668

[…] PM) or reads Per Kilobase of transcript per Million mapped reads (RPKM) (). Differential expression analysis was performed with the EdgeR package (). The three-nt periodicity was determined using the RiboGalaxy tools (). Raw datasets were deposited in the Short Read Archive (SRA) database as part of BioProject PRJNA379963. Finally, 313 bi-directional WTSS datasets of C. reinhardtii were collected […]

library_books

Insights into the mechanisms of eukaryotic translation gained with ribosome profiling

2016
Nucleic Acids Res
PMCID: 5314775
PMID: 27923997
DOI: 10.1093/nar/gkw1190

[…] spectrum of computational resources. At RiboSeq.Org, GWIPS-viz (,) provides visualizations of genomic alignments for publicly available RiboSeq data aligned to the genomes of a dozen of organisms and RiboGalaxy () allows researchers to analyse their data on a cloud server via an internet browser using a variety of tools from such packages as RUST (), riboSeqR () and RiboTools (). Publicly availabl […]


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RiboGalaxy institution(s)
School of Biochemistry & Cell Biology, University College Cork, Cork, Ireland

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