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Protocols

GeneVenn specifications

Information


Unique identifier OMICS_05568
Name GeneVenn
Interface Web user interface
Restrictions to use None
Input data Some gene lists.
Output data Venn diagrams.
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Youping Deng

Publication for GeneVenn

GeneVenn citations

 (36)
call_split

Transcriptome reprogramming of resistant and susceptible peach genotypes during Xanthomonas arboricola pv. pruni early leaf infection

2018
PLoS One
PMCID: 5919700
PMID: 29698473
DOI: 10.1371/journal.pone.0196590
call_split See protocol

[…] defined as those with both padj < 0.05 and log2 fold change (fc) > 2 (up-regulated) or < -2 (down-regulated). venn diagrams were plotted from the deg lists generated using deseq using the genevenn webtool (genevenn.sourceforge.net)., the singular enrichment analysis (sea) algorithm was used via the agrigo web tool [] to analyse gene ontology (go) term enrichment of significantly […]

library_books

Retrospective screening of microarray data to identify candidate IFN inducible genes in a HTLV 1 transformed model

2018
PMCID: 5876501
PMID: 29616088
DOI: 10.3892/ol.2018.8014

[…] equal to or more than 1.50 are considered upregulated. the number of genes remaining after this step was 9,302, 1,343, and 1,447 genes for tak1, irf3, and irf4 arrays, respectively. next, we used genevenn (genevenn.sourceforge.net) to generate a venn chart demonstrating the set of common genes between the different sets of arrays. the venn chart indicated a list of 706 common genes […]

library_books

Metagenomics Biomarkers Selected for Prediction of Three Different Diseases in Chinese Population

2018
Biomed Res Int
PMCID: 5820663
PMID: 29568746
DOI: 10.1155/2018/2936257

[…] as phylum, genus, kegg, and eggnog., to address the problem whether these biomarkers are specifically associated with a particular phenotype, venn diagram was plotted with the online program (http://genevenn.sourceforge.net/)., in this study, 806 samples with different phenotypes were analyzed. those samples were from three large available metagenome-wide association studies at present, […]

library_books

Biomarkers for tissue engineering of the tendon bone interface

2018
PLoS One
PMCID: 5751986
PMID: 29298298
DOI: 10.1371/journal.pone.0189668

[…] to identify all candidates with existing gene annotation and fpkm > 0. the identified lists of genes with gene annotation and fpkm > 0 of enthesis, tendon and cartilage were compared using genevenn[]. the venn diagram shows the number of tissue specific genes as well as the number of genes that overlapped between two of the tissues or all tissues (). 13798 genes were expressed […]

library_books

Bioinformatical analysis of gene expression signatures of different glioma subtypes

2017
PMCID: 5778919
PMID: 29435008
DOI: 10.3892/ol.2017.7660

[…] to non-tumor tissue, were calculated by the t-test method with a linear regression model. kyoto encyclopedia of genes and genomes (kegg) pathway enrichment analysis of the degs was performed. genevenn online analysis software was used for the comparison of the degs between subtypes. a total of 795 degs, including 619 up and 176 downregulated degs were screened from the astrocytoma […]

library_books

The Production of Curli Amyloid Fibers Is Deeply Integrated into the Biology of Escherichia coli

2017
Biomolecules
PMCID: 5745457
PMID: 29088115
DOI: 10.3390/biom7040075

[…] keio collection. inoue et al. [] screened the keio collection for defects in swarming motility using eiken agar and subsequently checked the swarming mutants for reduced swimming motility [,]. using genevenn [], motility genes identified by inoue et al. were compared to the genes identified in our screen (see ). very few genes were found to overlap, especially between swimming motility and curli […]


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GeneVenn institution(s)
Department of Biological Sciences, University of Southern Mississippi, Hattiesburg, MS, USA
GeneVenn funding source(s)
Supported by Dean’s Research Initiative award of the University of Southern Mississippi and the Mississippi Functional Genomics Network (DHHS/NIH/NCRR Grant# 2P20RR016476-04).

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