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GoMapMan specifications


Unique identifier OMICS_02280
Name GoMapMan
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for GoMapMan

GoMapMan in publications

PMCID: 5696772
PMID: 29157202
DOI: 10.1186/s12870-017-1168-2

[…] generated by r v3.3.1 (www.r-project.org)., in modern plant biology, the most widely used ontologies are the gene ontology (go) and gene ontology mapman []., mapman ontology was performed using the gomapman tool [] based on itag release 2.3 (2011-04-26) of the tomato genome sequence (solgenomics.net/organism/solanum_lycopersicum/genome). mapman 3.6.0rc1 software […]

PMCID: 5495832
PMID: 28725231
DOI: 10.3389/fpls.2017.01158

[…] probes corresponding to the same unigene, values were averaged. probe-to-unigene assignments were carried out using the corresponding file (microarray_nta_agilent_4x44k_genes.txt) available at the gomapman website resource (). an empirical bayes method with a moderated t-statistic was employed for the determination of the genes with statistically significant changes, whereas the benjamini […]

PMCID: 5491621
PMID: 28713396
DOI: 10.3389/fpls.2017.01066

[…] and theobroma cacao (from plaza with 44,404 protein sequences) with the blastp function in ncbi (v 2.2.31, ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/latest/). a cacao mapping file from gomapman (“tca_phytozome9.1_transcript_2015-01-09_mapping.xlsx,” http://www.gomapman.org/export/current/mapman) was applied for the functional analysis., the obtained metabolite data were normalized […]

PMCID: 5339719
PMID: 28266527
DOI: 10.1038/srep43364

[…] initiative locus identifier (agi), with 173 monocot-specific sequences (no hits). hence, we restricted our analysis to conserved genes between monocots and eudicots. we utilized the mapman ontology (gomapman) released in the mercator output to calculate the percentage of de sas within each category. putative genes encoding proteins involved in or related to hormone metabolism, stress, rna, […]

PMCID: 5041101
PMID: 27680870
DOI: 10.1038/srep33635

[…] analysis) coupled with available background data of tomato. a freely available program called permutmatrix was used to carry out the clustering analysis., the tomato mapman ontologies (http://www.gomapman.org/export/current/mapman/sly_sl2.40_itag2.3_2015-01-09_mapping.txt.tgz) were retrieved from the gomapman web resource and imported in the mapman tool version 3.6.0. then, the tomato […]

GoMapMan institution(s)
Department of Biotechnology and Systems Biology, National Institute of Biology, Ljubljana, Slovenia; Department of Knowledge Technologies, JoŽef Stefan Institute, Ljubljana, Slovenia; Department of Biology, Institute for Biology I, RWTH Aachen University, D- Aachen, Germany; IBG-2: Plant Sciences, Institute for Bio- and Geosciences, Forschungszentrum Jülich, Jülich, Germany

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