REViGO pipeline

REViGO specifications

Information


Unique identifier OMICS_02283
Name REViGO
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for REViGO

REViGO IN pipelines

 (31)
2018
PMCID: 5797081
PMID: 29396481
DOI: 10.1038/s41598-018-20457-3

[…] mf), the semantic similarity of the top 50 go terms was computed, after filtering for p-value < 0.01 and a number of associated genes >1 and <50 was identified and visualised with the revigo webtool (http://revigo.irb.hr/)77. the go term number and ranking score were used as the input., intersections between sets of clusters were computed with the “intersectbed” tool […]

2018
PMCID: 5797081
PMID: 29396481
DOI: 10.1038/s41598-018-20457-3

[…] similarity of the top 50 go terms was computed, after filtering for p-value < 0.01 and a number of associated genes >1 and <50 was identified and visualised with the revigo webtool (http://revigo.irb.hr/)77. the go term number and ranking score were used as the input., intersections between sets of clusters were computed with the “intersectbed” tool from the bedtools suite69. in order […]

2018
PMCID: 5801803
PMID: 29409495
DOI: 10.1186/s13045-018-0560-1

[…] [31] (gsea) was employed to demonstrate the association between our genes of interest and defined gene sets. the gene annotation network analysis was performed using the gather [32], bingo [33], and revigo [34] software., this study was approved by the institutional review board of peking university people’s hospital. blood samples were collected from donors with written informed consent. npg […]

2018
PMCID: 5807917
PMID: 29467738
DOI: 10.3389/fmicb.2018.00124

[…] distribution using the r package topgo. the fdr of each go term was also calculated and listed in the supplementary table s1. go terms with enrichment analysis p-value ≤ 0.05 were taken as input for revigo., the metatranscriptome samples (in vivo samples) have been described previously (deng et al., 2017). they were derived from 14 individuals, four of which had been diagnosed with chronic […]

2018
PMCID: 5814942
PMID: 29390087
DOI: 10.1093/gbe/evy024

[…] with the ontologizer (bauer et al. 2008) using the biological process subontology. enriched go terms are specified (supplementary tables s1 and s2, supplementary material online) and depicted by revigo (fig. 4; supek et al. 2011). the most significantly up-regulated go term in infected paramecia (fig. 4a) is lipid oxidation (including cellular lipid metabolism, cellular lipid catabolism, […]

REViGO institution(s)
Division of Electronics, Rudjer Boskovic Institute, Zagreb, Croatia

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