FIDEA: a server for the functional interpretation of differential expression analysis.

Handle URI:
http://hdl.handle.net/10754/596785
Title:
FIDEA: a server for the functional interpretation of differential expression analysis.
Authors:
D'Andrea, Daniel; Grassi, Luigi; Mazzapioda, Mariagiovanna; Tramontano, Anna
Abstract:
The results of differential expression analyses provide scientists with hundreds to thousands of differentially expressed genes that need to be interpreted in light of the biology of the specific system under study. This requires mapping the genes to functional classifications that can be, for example, the KEGG pathways or InterPro families they belong to, their GO Molecular Function, Biological Process or Cellular Component. A statistically significant overrepresentation of one or more category terms in the set of differentially expressed genes is an essential step for the interpretation of the biological significance of the results. Ideally, the analysis should be performed by scientists who are well acquainted with the biological problem, as they have a wealth of knowledge about the system and can, more easily than a bioinformatician, discover less obvious and, therefore, more interesting relationships. To allow experimentalists to explore their data in an easy and at the same time exhaustive fashion within a single tool and to test their hypothesis quickly and effortlessly, we developed FIDEA. The FIDEA server is located at http://www.biocomputing.it/fidea; it is free and open to all users, and there is no login requirement.
Citation:
D’Andrea D, Grassi L, Mazzapioda M, Tramontano A (2013) FIDEA: a server for the functional interpretation of differential expression analysis. Nucleic Acids Research 41: W84–W88. Available: http://dx.doi.org/10.1093/nar/gkt516.
Publisher:
Oxford University Press (OUP)
Journal:
Nucleic Acids Research
KAUST Grant Number:
KUK-I1-012-43
Issue Date:
10-Jun-2013
DOI:
10.1093/nar/gkt516
PubMed ID:
23754850
PubMed Central ID:
PMC3692084
Type:
Article
ISSN:
0305-1048; 1362-4962
Sponsors:
Epigenomics Flagship Project-EPIGEN; KAUST [KUK-I1-012-43]; PRIN Project [20108XYHJS]. Funding for open access charge: Epigenomics Flagship Project-EPIGEN.
Appears in Collections:
Publications Acknowledging KAUST Support

Full metadata record

DC FieldValue Language
dc.contributor.authorD'Andrea, Danielen
dc.contributor.authorGrassi, Luigien
dc.contributor.authorMazzapioda, Mariagiovannaen
dc.contributor.authorTramontano, Annaen
dc.date.accessioned2016-02-21T08:50:38Zen
dc.date.available2016-02-21T08:50:38Zen
dc.date.issued2013-06-10en
dc.identifier.citationD’Andrea D, Grassi L, Mazzapioda M, Tramontano A (2013) FIDEA: a server for the functional interpretation of differential expression analysis. Nucleic Acids Research 41: W84–W88. Available: http://dx.doi.org/10.1093/nar/gkt516.en
dc.identifier.issn0305-1048en
dc.identifier.issn1362-4962en
dc.identifier.pmid23754850en
dc.identifier.doi10.1093/nar/gkt516en
dc.identifier.urihttp://hdl.handle.net/10754/596785en
dc.description.abstractThe results of differential expression analyses provide scientists with hundreds to thousands of differentially expressed genes that need to be interpreted in light of the biology of the specific system under study. This requires mapping the genes to functional classifications that can be, for example, the KEGG pathways or InterPro families they belong to, their GO Molecular Function, Biological Process or Cellular Component. A statistically significant overrepresentation of one or more category terms in the set of differentially expressed genes is an essential step for the interpretation of the biological significance of the results. Ideally, the analysis should be performed by scientists who are well acquainted with the biological problem, as they have a wealth of knowledge about the system and can, more easily than a bioinformatician, discover less obvious and, therefore, more interesting relationships. To allow experimentalists to explore their data in an easy and at the same time exhaustive fashion within a single tool and to test their hypothesis quickly and effortlessly, we developed FIDEA. The FIDEA server is located at http://www.biocomputing.it/fidea; it is free and open to all users, and there is no login requirement.en
dc.description.sponsorshipEpigenomics Flagship Project-EPIGEN; KAUST [KUK-I1-012-43]; PRIN Project [20108XYHJS]. Funding for open access charge: Epigenomics Flagship Project-EPIGEN.en
dc.publisherOxford University Press (OUP)en
dc.rightsThis is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.comen
dc.rights.urihttp://creativecommons.org/licenses/by-nc/3.0/en
dc.subject.meshGene Expression Profilingen
dc.subject.meshSoftwareen
dc.titleFIDEA: a server for the functional interpretation of differential expression analysis.en
dc.typeArticleen
dc.identifier.journalNucleic Acids Researchen
dc.identifier.pmcidPMC3692084en
dc.contributor.institutionUniversita degli Studi di Roma La Sapienza, Rome, Italyen
kaust.grant.numberKUK-I1-012-43en

Related articles on PubMed

All Items in KAUST are protected by copyright, with all rights reserved, unless otherwise indicated.