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ArrayExpress specifications


Unique identifier OMICS_01023
Name ArrayExpress
Restrictions to use None
Community driven No
Data access Browse
User data submission Allowed
Maintained Yes



  • person_outline Alvis Brazma
  • person_outline Gabriella Rustici

Additional information

Publications for ArrayExpress

ArrayExpress citations


The Transcriptional Regulator TFB RF1 Activates Transcription of a Putative ABC Transporter in Pyrococcus furiosus

Front Microbiol
PMCID: 5937170
PMID: 29760686
DOI: 10.3389/fmicb.2018.00838

[…] ment scores than the regions corresponding to genes and promoter or terminator regions present as an additional copy on the plasmid pYS5 (Supplementary Table ). ChIP-seq raw data are available in the ArrayExpress database under accession number E-MTAB-6618. […]


RNA sequencing reveals long term effects of silver nanoparticles on human lung cells

Sci Rep
PMCID: 5923294
PMID: 29703973
DOI: 10.1038/s41598-018-25085-5
call_split See protocol

[…] ng in R language version 3.2.0. Only genes with p-values lower than 0.05 after FDR correction for multiple testing were considered differentially expressed genes. The sequencing data are deposited at ArrayExpress (accession number E-MTAB-6321). […]


Novel analysis of the Harderian gland transcriptome response to Newcastle disease virus in two inbred chicken lines

Sci Rep
PMCID: 5920083
PMID: 29700338
DOI: 10.1038/s41598-018-24830-0

[…] ies, Inc., Ankeny, IA) and 100 bp single end reads were sequenced on the HiSeq2500 (Illumina, San Diego, CA) at Iowa State University DNA Facility (Ames, IA). The sequencing data are available in the ArrayExpress database at EMBL-EBI ( under accession number E-MTAB-6038. […]


Histone H4 acetylation regulates behavioral inter individual variability in zebrafish

Genome Biol
PMCID: 5922312
PMID: 29695303
DOI: 10.1186/s13059-018-1428-y

[…] ChIP-seq and RNA-seq data are stored in the ArrayExpress repository (E-MTAB-5993 and E-MTAB-5992, respectively) [, ]. RNA-seq data have also been included as part of the EBI expression atlas ( The video trajectories of […]


Integrated Quantitative Transcriptome Maps of Human Trisomy 21 Tissues and Cells

Front Genet
PMCID: 5928158
PMID: 29740474
DOI: 10.3389/fgene.2018.00125

[…] TRAM software is able to import gene expression data from GEO, ArrayExpress databases or in a custom source in tab-delimited text format whether the data are referred to microarray or RNA-seq platforms, for the creation and analysis of quantitative transcriptome […]


Bioinformatics challenges and perspectives when studying the effect of epigenetic modifications on alternative splicing

PMCID: 5915717
PMID: 29685977
DOI: 10.1098/rstb.2017.0073

[…] on the co-ordination of experiments and outcomes from multiple sources. As a result, databases of experimental data and prior knowledge are required to maximize the data that can be analysed, such as ArrayExpress []. The Expression Atlas provides a map of gene expression over different tissues and cell types based on data in ArrayExpress [,]. Recently, the ISOexpresso database has been released th […]


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ArrayExpress institution(s)
European Molecular Biology Laboratory, European Bioinformatics Institute, EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK; CIBIO/InBIO-Centro de Investigacao em Biodiversidade e Recursos Geneticos, Universidade do Porto, Vairao, Portugal
ArrayExpress funding source(s)
Supported by the European Molecular Biology Laboratory, the Wellcome Trust Biomedical Resources grant Single Cell Gene Expression Atlas [108437/Z/15/Z]; National Science Foundation of USA grant to Gramene database [NSF IOS #1127112].

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