FunNet pipeline

FunNet specifications

Information


Unique identifier OMICS_18786
Name FunNet
Interface Web user interface
Restrictions to use None
Input data One set of transcriptional profiles, or the simultaneous analysis of two sets of gene expression profiles.
Programming languages PHP
Computer skills Basic
Stability Stable
Source code URL http://www2.uaem.mx/r-mirror/src/contrib/FunNet_1.00-12.tar.gz
Maintained Yes

Maintainer


  • person_outline Edi Prifti <>

Additional information


http://www2.uaem.mx/r-mirror/web/packages/FunNet/index.html https://github.com/cran/FunNet Tuto: http://funnet.integromics.fr/index.php?menu=2

Information


Unique identifier OMICS_18786
Name FunNet
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data One set of transcriptional profiles, or the simultaneous analysis of two sets of gene expression profiles.
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.00-12
Stability Stable
Source code URL http://www2.uaem.mx/r-mirror/src/contrib/FunNet_1.00-12.tar.gz
Maintained Yes

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Maintainer


  • person_outline Edi Prifti <>

Additional information


http://www2.uaem.mx/r-mirror/web/packages/FunNet/index.html https://github.com/cran/FunNet Tuto: http://funnet.integromics.fr/index.php?menu=2

Publication for FunNet

FunNet IN pipelines

 (3)
2014
PMCID: 4240170
PMID: 25484892
DOI: 10.3389/fgene.2014.00411

[…] were set as cutoff values for significance., online software and databases were used for the functional classification of differentially expressed genes or differentially methylated cpg sites: funnet transcriptional networks analysis (www.funnet.info), david bioninformatics resources 6.7 (huang da et al., 2009b,a), and the genecards database (http://www.genecards.org) (safran et al., […]

2014
PMCID: 4240170
PMID: 25484892
DOI: 10.3389/fgene.2014.00411

[…] online software and databases were used for the functional classification of differentially expressed genes or differentially methylated cpg sites: funnet transcriptional networks analysis (www.funnet.info), david bioninformatics resources 6.7 (huang da et al., 2009b,a), and the genecards database (http://www.genecards.org) (safran et al., 2010)., transcription levels of the selected genes […]

2013
PMCID: 3781334
PMID: 24069029
DOI: 10.3389/fgene.2013.00188

[…] and ppia) rather than only one. primer sequences can be found in (rutkowski et al., 2006, 2008; wu et al., 2007; tyra et al., 2012) and table s2., pathway enrichment analysis was performed using funnet software (prifti et al., 2008). data represent go biological process annotations with a decorrelated enrichment computation and a 5% false discovery rate correction. transcription factor […]

FunNet institution(s)
INSERM, UMR-S 872, Les Cordeliers, Eq. 7 Nutriomique, Paris, France; Pierre et Marie Curie-Paris 6 University, Cordeliers Research Center, UMR-S 872, Paris, France; IRD, UR Géodes, Centre IRD de l’Ile de France, Bondy, France; Assistance Publique-Hôpitaux de Paris, Pitié Salpêtrière Hospital, Nutrition and Endocrinology department, Paris, France
FunNet funding source(s)
Supported by European Community 6th framework HEPADIP project; the ‘Association de Langue Française pour l’Etude du Diabète et des Maladies Métaboliques’ (ALFEDIAM).

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