MetMap statistics

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Popular tool citations

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Associated diseases

Associated diseases

MetMap specifications


Unique identifier OMICS_00618
Name MetMap
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability No
Maintained No


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Publication for MetMap

MetMap in publications

PMCID: 4660117
PMID: 26606281
DOI: 10.1186/1472-6947-15-S4-S3

[…] from a local copy of the hpo for each genetic disorder. in order to facilitate further data integration, we mapped all collected clinical features to unified medical language system (umls) via umls metmap api. then for each genetic test, we extracted mentions of the identified clinical features from clinical notes for each patient group by applying an existing nlp tool, medtagger suite. [,], […]

PMCID: 3815060
PMID: 24062529
DOI: 10.1534/g3.113.006601

[…] with our recent work () demonstrating that amino acid biosynthesis is primarily metabolically controlled., met/lip: metabolites/lipids;, p ≤ 0.01, benjamini hochberg p value adjustment; n.metmap.linked, number of genes linked to the specified metabolite in the genome-scale metabolic map; n.pcc.sig, number of genes significantly correlated to the specified metabolite (p ≤ 0.01 […]

PMCID: 3115964
PMID: 21698242
DOI: 10.1371/journal.pone.0021034

[…] studies. since the methyl-seq technology was developed very recently, there have been very few methods developed for statistical quantification for methyl-seq and rrbs data. recently, the metmap program developed by singer et al. infers site-specific methylation probabilities by a statistical graphic model. this program primarily focuses on the setting where paired-end hpaii fragment […]

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MetMap institution(s)
Computer Science Division, University of California at Berkeley, Berkeley, CA, USA; Children’s Hospital Oakland Research Institute, Oakland, CA, USA; Department of Mathematics, University of California at Berkeley, Berkeley, CA, USA; Department of Molecular and Cell Biology, University of California at Berkeley, Berkeley, CA, USA; Illumina, Hayward, CA, USA
MetMap funding source(s)
Supported by the NIH grants HL084474, ES016581 and CA115768.

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