CompGO protocols

View CompGO computational protocol

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CompGO specifications

Information


Unique identifier OMICS_09877
Name CompGO
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.16.0
Stability Stable
Requirements
RDAVIDWebService
Maintained Yes

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Documentation


Maintainer


  • person_outline Ashley J. Waardenberg <>

Publication for CompGO

CompGO in pipeline

2016
PMCID: 5043580
PMID: 27683156
DOI: 10.1098/rsob.160183

[…] and nkx2-52 []. the peak overlaps between nkx2-51 and nkx2-52 were highly significant (p < 0.001) and comparison of gene ontology (go) terms using a log odds ratio statistic implemented in the compgo r package demonstrated these experiments were identical at a go level []., we sought to determine if nkx2-5 targets could be classified based on the motif grammar embedded within their peaks, […]


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CompGO in publications

 (2)
PMCID: 5701387
PMID: 29169395
DOI: 10.1186/s12918-017-0494-1

[…] strains populating these regions []. functional terms passing both a p-value (p < 0.1) and a z-score (z > 0.5) threshold were defined as differentially enriched (fig. ) (bioconductor package compgo, additional file )., the s high – e high region harbored strains deleted of key bacterial growth functions including cell division and important housekeeping cytosolic cellular processes […]

PMCID: 5043580
PMID: 27683156
DOI: 10.1098/rsob.160183

[…] and nkx2-52 []. the peak overlaps between nkx2-51 and nkx2-52 were highly significant (p < 0.001) and comparison of gene ontology (go) terms using a log odds ratio statistic implemented in the compgo r package demonstrated these experiments were identical at a go level []., we sought to determine if nkx2-5 targets could be classified based on the motif grammar embedded within their peaks, […]


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CompGO institution(s)
Victor Chang Cardiac Research Institute, Darlinghurst, NSW, Australia

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