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Popular tool citations

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Associated diseases

Associated diseases

WhichGenes specifications


Unique identifier OMICS_11227
Name WhichGenes
Interface Web user interface, Application programming interface
Restrictions to use None
Computer skills Basic
Version 1.5
Stability Stable
Maintained Yes


  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus



  • person_outline Florentino Fdez-Riverola <>

Publication for WhichGenes

WhichGenes in publications

PMCID: 3581547
PMID: 23451085
DOI: 10.1371/journal.pone.0056781

[…] these tfs were retrieved from mirwalk using the same procedure and criteria described earlier., we gratefully acknowledge autism database (autdb) for the vast and accessible information, www.whichgenes.org for the ‘create a custom gene set’ option that greatly helped us in all comparative analyses, and the infrastructural facilities provided by university grants commission, a statutory […]

PMCID: 3448498
PMID: 23012496
DOI: 10.4137/BBI.S9954

[…] use gene sets downloadable from the molecular signatures (msigdb) database (http://www.broadinstitute.org/gsea/msigdb/index.jsp), but personalized gene sets can also be created through tools such as whichgenes., various mice types support n. caninum infection. these include the balb/c and qs that have been described previously., the balb/c mouse is susceptible to infection by n. caninum, whereas […]

PMCID: 3029380
PMID: 21304595
DOI: 10.1371/journal.pone.0016493

[…] index, which may be a direct consequence of including less general gabaergic markers., we obtained a list of immediate early genes (iegs) from , the apoptosis gene set was constructed using the whichgenes gene set building tool (http://www.whichgenes.org/), and stress genes were selected on the basis of gene ontology (go) annotation ()., a non-glial comparison group was constructed […]

PMCID: 2959047
PMID: 20920318
DOI: 10.1186/1755-8794-3-44

[…] expressed genes associated to resistant phenotype after 17aag treatment. in our data analysis we have included the biocarta http://www.biocarta.com as a source of pathway annotation, and whichgenes web-based tool for building 249 gene sets with application in gene set enrichment analysis []. the ranking of genes was performed with t test, with an absolute mode for gene list sorting. […]

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WhichGenes institution(s)
Higher Technical School of Computer Engineering, University of Vigo, Ourense, Spain; Bioinformatics Unit (UBio), Structural Biology and Biocomputing Programme, Spanish National Cancer Research Centre (CNIO), Madrid, Spain; Informatics Department, University of Vigo, Vigo, Pontevedra, Spain
WhichGenes funding source(s)
Supported in part by the project Research on Translational Bioinformatics (08VIB6) from University of Vigo. Maria Barbeito contract from Xunta de Galicia; Spanish National Institute for Bioinformatics, a platform of Genoma Espana.

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