GO::TermFinder statistics

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Citations per year

Number of citations per year for the bioinformatics software tool GO::TermFinder
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Tool usage distribution map

This map represents all the scientific publications referring to GO::TermFinder per scientific context
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Protocols

GO::TermFinder specifications

Information


Unique identifier OMICS_10339
Name GO::TermFinder
Alternative names GO-Term Finder, GO-TermFinder
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data A list of genes, one per line or a file containing lists of gene
Operating system Unix/Linux
Programming languages Perl
Computer skills Advanced
Version 0.86
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Gavin Sherlock

Information


Unique identifier OMICS_10339
Name GO::TermFinder
Alternative names GO-Term Finder, GO-TermFinder
Interface Web user interface
Restrictions to use None
Input data A list of genes, one per line or a file containing lists of gene
Programming languages Perl
Computer skills Basic
Version 0.86
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Gavin Sherlock

Publication for GO::TermFinder

GO::TermFinder citations

 (144)
call_split

Gene duplicates cause hybrid lethality between sympatric species of Mimulus

2018
PLoS Genet
PMCID: 5896889
PMID: 29649209
DOI: 10.1371/journal.pgen.1007130
call_split See protocol

[…] ichment analyses were carried out for particular subsets of data that exhibited patterns of differential expression between white and green seedlings. To perform these analyses, we used GOstat [] and GO::TermFinder [] implemented in the Phytomine user interface (https://phytozome.jgi.doe.gov). For GO term analyses, we used all annotated genes in the v2.0 IM62 M. guttatus reference assembly to serv […]

library_books

Redox Regulation, Rather than Stress Induced Phosphorylation, of a Hog1 Mitogen Activated Protein Kinase Modulates Its Nitrosative Stress Specific Outputs

2018
MBio
PMCID: 5874921
PMID: 29588408
DOI: 10.1128/mBio.02229-17

[…] ne expression analysis was performed using Partek Genomics Suite software, v. 6.6, using a log2 data transformation. Gene ontology (GO) term analysis was performed through the Candida Genome Database GO Term Finder and the Cytoscape v. 3 Clue GO plug-in (). Network construction was performed with cytoscape v.3 freeware (). A statistical comparison among GO term enrichment percentages was performed […]

library_books

Updated regulation curation model at the Saccharomyces Genome Database

2018
PMCID: 5829562
PMID: 29688362
DOI: 10.1093/database/bay007

[…] through the ‘Download (.txt)’ buttons beneath each data table. The gene lists in each table can also be easily ported to other analysis tools within SGD via the ‘Analyze’ button. These tools include GO Term Finder (), SPELL () and YeastMine ().Regulation pages also include a visualization of regulatory relationships in order to reflect the complexity of local regulatory networks. These displays d […]

library_books

Introns provide a platform for intergenic regulatory feedback of RPL22 paralogs in yeast

2018
PLoS One
PMCID: 5755908
PMID: 29304067
DOI: 10.1371/journal.pone.0190685

[…] erage was determined using bedtools 2.25.0 []. Splicing efficiency was then calculated as the ratio of transreads (mRNA) to intron-end reads (pre-mRNA). Enriched GO categories were searched for using GO Term Finder 0.83 (http://www.yeastgenome.org/cgi-bin/GO/goTermFinder.pl). […]

library_books

Competitive endogenous RNA networks: integrated analysis of non coding RNA and mRNA expression profiles in infantile hemangioma

2018
Oncotarget
PMCID: 5844720
PMID: 29552284
DOI: 10.18632/oncotarget.23946

[…] GO enrichment analysis of differentially expressed genes or target genes of differentially expressed lncRNAs was implemented using a perl module (GO::TermFinder) []. GO terms with corrected p values less than 0.05 were considered to be significantly enriched among the differentially expressed genes or the target genes of differentially expresse […]

library_books

Update on the proteomics of male infertility: A systematic review

2017
PMCID: 5922221
PMID: 29713541
DOI: 10.1016/j.aju.2017.11.016

[…] re used to identify the proteins unavailable in the database based on their functional group . The next step is gene ontology (GO) analysis for the identified list of proteins using databases such as GO Term Finder and GO Term Mapper, which provide information for the proteins based on their function, localisation, structure, and biological function in cellular pathways. The genes/proteins are bas […]


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GO::TermFinder institution(s)
Department of Genetics, Stanford University School of Medicine, Stanford, CA, USA

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