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GOTM specifications

Information


Unique identifier OMICS_18787
Name GOTM
Alternative name GOTree Machine
Interface Web user interface
Restrictions to use None
Programming languages PHP
License GNU General Public License version 3.0
Computer skills Basic
Stability No
Maintained No

Maintainers


This tool is not available anymore.

Publication for GOTree Machine

GOTM in pipeline

2016
PMCID: 5558424
PMID: 28840181
DOI: 10.1016/j.bonr.2016.06.002

[…] of ∼ 26,000 genes. agilent feature extraction and genespring gx v7.3.1 software packages (genus biosystem, inc. northbrook, il) were employed to analyze the data. gene ontology tree machine (gotm) is a web-based platform used for interpreting gene expression profile of microarray data ()., normal bone marrow derived mononuclear cells were transduced with mvnp in the presence and absence […]


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GOTM in publications

 (44)
PMCID: 5672010
PMID: 29164058
DOI: 10.3389/fonc.2017.00258

[…] expression for the selected genes were consistent with the microarray data, verifying that the microarray data were accurate and reliable (figures b,c)., to determine the relevance of the degs, the gotree machine (gotm) was utilized to identify biological processes that were enriched in the set of 3,210 genes (figure a) in the hacat-11e6 and hacat-18e6 cells. degs induced by hpv18e6 can be seen […]

PMCID: 4619386
PMID: 26499117
DOI: 10.1186/s12864-015-1941-2

[…] equal to 1.8 from control in at least one treatment condition were retained for analysis., unsupervised gene ontology (go) enrichment analysis was performed using the web-based tool gotreemachine (gotm; http://bioinfo.vanderbilt.edu/webgestalt/) [] and further validated by ingenuity pathway analysis (ipa, redwood city, ca) and metacore (genego, st. joseph, mi) to identify biological processes […]

PMCID: 4308930
PMID: 25627031
DOI: 10.1186/s40478-014-0179-6

[…] in parallel in humans and rats were then submitted to two bioinformatic resources, as previously described in the literature []. these two resources provide different types of information:gotree machine (gotm) is a web-based platform for interpreting microarray data or other interesting gene sets using gene ontology hierarchies (http://bioinfo.vanderbilt.edu/webgestalt/) []. […]

PMCID: 4367906
PMID: 25540073
DOI: 10.1186/1471-2164-15-1169

[…] the mitotic index (mi) using a fisher´s exact test ( http://babelomics3.bioinfo.cipf.es/) []. di-acyclic graphs for cellular component ontology were generated using the gene ontology tree machine (gotm, http://bioinfo.vanderbilt.edu/webgestalt/) []., the kinase interactome networks were built using phosphopoint, the human interactome and phosphoprotein database ( […]

PMCID: 4302662
PMID: 24961511
DOI: 10.1002/cam4.291

[…] . genes common in different comparisons were identified and represented in a venn diagram using the venny program . functional enrichment of differentially expressed genes was analyzed using the gotree machine (gotm) ., cdna was obtained from 1 μg of each rna using the high-capacity cdna archive kit (applied biosystems, madrid, spain). quantitative pcr analyses was carried out in triplicate […]


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GOTM institution(s)
Graduate School in Genome Science and Technology, University of Tennessee-Oak Ridge National Laboratory, Oak Ridge, TN, USA; Oak Ridge National Laboratory, Oak Ridge, TN, USA
GOTM funding source(s)
Supported by the INIA project (NIH/NIAAA, U01-AA013532), the BISTI project (NIH/ NIDA, P01-DA015027) and the ORNL LDRD project (DOE, AC05- 00OR22725).

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