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EnrichNet specifications

Information


Unique identifier OMICS_05581
Name EnrichNet
Interface Web user interface
Restrictions to use None
Input data A list of gene-, protein- or microarray-probe-identifiers.
Programming languages Python, R
License Apache License version 2.0
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Publication for EnrichNet

EnrichNet citations

 (9)
library_books

FunGeneNet: a web tool to estimate enrichment of functional interactions in experimental gene sets

2018
BMC Genomics
PMCID: 5836822
PMID: 29504895
DOI: 10.1186/s12864-018-4474-7

[…] f the networks, which describe interactions between genes. Due to this, for the last ten years, several methods allowing to perform an analysis of gene networks were developed [–]. One such method is EnrichNet [], which uses a random walk procedure for the estimation of the distance between experimentally obtained and predefined functional gene sets inside a network. Comparison of gene networks wi […]

call_split

Establishment of a Strong Link Between Smoking and Cancer Pathogenesis through DNA Methylation Analysis

2017
Sci Rep
PMCID: 5431893
PMID: 28500316
DOI: 10.1038/s41598-017-01856-4
call_split See protocol

[…] ence of smoking on cancer from an epigenetic perspective, we conducted stepwise pathway-based analyses for the two types of samples using the bioinformatics tools of Ingenuity Pathway Analysis (IPA), EnrichNet, and Genetrail.For IPA, the core part is the Ingenuity Pathways Knowledge Base (IPKB), which is a well-organized proprietary database consisting of extensive information on the functions or […]

call_split

Wnt/Tcf1 pathway restricts embryonic stem cell cycle through activation of the Ink4/Arf locus

2017
PLoS Genet
PMCID: 5386305
PMID: 28346462
DOI: 10.1371/journal.pgen.1006682
call_split See protocol

[…] romoter proximal (±2kb of the transcription start site, TSS) were considered as target. ChIP-seq signal track were visualized by IGV (The Integrative Genomics Viewer).Gene ontology was analysed using Enrichnet. […]

library_books

Identification of Interactions in the NMD Complex Using Proximity Dependent Biotinylation (BioID)

2016
PLoS One
PMCID: 4774922
PMID: 26934103
DOI: 10.1371/journal.pone.0150239

[…] Atlas repository (accession number http://www.peptideatlas.org/PASS/PASS00768). Gene ontology (GO) analyses were performed with the list of identified proteins using the online implementation of the EnrichNet tools []. The enrichment of GO biological processes and the enrichment of InterPro annotations was calculated in Figs , , respectively. The analysis of the protein-protein interaction (PPI) […]

call_split

Environmental Correlation Analysis for Genes Associated with Protection against Malaria

2016
Mol Biol Evol
PMCID: 4839215
PMID: 26744416
DOI: 10.1093/molbev/msw004
call_split See protocol

[…] ed in specific molecular pathways, the genes represented among the top 10% of SNPs by ECA were subjected to overrepresentation tests using PANTHER (), and network-based pathway enrichment tests using EnrichNet (). Reference sets used for comparison were all characterized and annotated genes among the 9,756 random SNPs (i.e., noncoding RNA genes were excluded) and which were found in the respective […]

library_books

Peripheral Blood Mononuclear Cell Proteome Changes in Patients with Myelodysplastic Syndrome

2015
Biomed Res Int
PMCID: 4415457
PMID: 25969835
DOI: 10.1155/2015/872983

[…] dditional unique peptides identified by error tolerant search.To analyze the functional associations between identified proteins and cellular pathways, the protein list was processed with the on-line EnrichNet application [] using KEGG [, ] and Reactome [, ] databases. The significance of overlap between protein sets was evaluated using a combination of one-side Fisher's exact test (q < 0.05) and […]

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EnrichNet institution(s)
Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg, Esch-sur-Alzette, Luxembourg; Luminy Institute of Mathematics (IML), Université d’Aix-Marseille, Marseille, France; Interdisciplinary Computing and Complex Systems (ICOS) Research Group, University of Nottingham, Nottingham, UK; Structural Biology and Biocomputing Program, Spanish National Cancer Research Centre (CNIO), Madrid, Spain
EnrichNet funding source(s)
This work was supported by the Biotechnology and Biological Sciences Research Council (BB/F01855X/1), and the EU FP7 project Microme (grant number 222886) the Spanish Ministry for Education and Science (BIO2007-66855), an Engineering and Physical Sciences Research Council Leadership Fellowship (EP/J004111/1) and a Morris Belkin visiting professorship at the Weizmann Institute of Science.

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