RNASeq-er statistics

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Citations per year

Number of citations per year for the bioinformatics software tool RNASeq-er

Tool usage distribution map

This map represents all the scientific publications referring to RNASeq-er per scientific context
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RNASeq-er specifications


Unique identifier OMICS_17293
Name RNASeq-er
Software type Application/Script
Interface Command line interface
Restrictions to use None
Output format JSON
Operating system Unix/Linux
Programming languages C
License GNU General Public License version 3.0
Computer skills Advanced
Version 0.8.5
Stability Stable
Maintained Yes


No version available



  • person_outline Robert Petryszak
  • person_outline Robert Petryszak

Publication for RNASeq-er

RNASeq-er citations


Expression Atlas: gene and protein expression across multiple studies and organisms

Nucleic Acids Res
PMCID: 5753389
PMID: 29165655
DOI: 10.1093/nar/gkx1158

[…] luding the data from the Sequence Read Archive, SRA (), corresponding to species covered by Expression Atlas are processed automatically using the open source iRAP pipeline and made available via the RNAseq-er Application Programming Interface (API) (). This first level processing includes FASTQ QC, alignment, mapping QC and gene expression quantification. Selected experiments are then curated for […]


The RNASeq er API—a gateway to systematically updated analysis of public RNA seq data

PMCID: 5870697
PMID: 28369191
DOI: 10.1093/bioinformatics/btx143

[…] ENA () in 264 species with genome references in Ensembl (), Ensembl Genomes () and WormBase Parasite (), depositing the results on the public EMBL-EBI FTP server, and making them discoverable via the RNASeq-er API (Application Programming Interface). Our fully automated analysis pipeline processes new RNA-Seq runs as soon as they become public in ENA and makes the results available via the API sho […]

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RNASeq-er institution(s)
Functional Genomics Group, European Molecular Biology Laboratory, European Bioinformatics Institute, EMBL-EBI, Hinxton, UK
RNASeq-er funding source(s)
Supported by BBSRC and by the European Molecular Biology Laboratory (EMBL) member states.

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