MetaMapp protocols

View MetaMapp computational protocol

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MetaMapp specifications


Unique identifier OMICS_03545
Name MetaMapp
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes


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Publication for MetaMapp

MetaMapp in pipeline

PMCID: 3616245
PMID: 23577015
DOI: 10.3389/fpls.2013.00073

[…] please note that several tools and databases presented in this review have multiple functions. furthermore, several web-based applications for metabolomic data are available (table ), such as metamapp (barupal et al., ), metap-server (kastenmuller et al., ), meltdb (neuweger et al., ), and metitree (rojas-cherto et al., ). they cover multiple steps from data pre-processing to biological […]

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MetaMapp in publications

PMCID: 5830882
PMID: 29491435
DOI: 10.1038/s41598-018-21555-y

[…] applied for three weeks and urine samples were collected for metabolic analysis. univariate and multivariate analysis were applied to data matrix processing along with respective pathway analysis by metamapp and cytoscape. the results showed that the combined don and zen administration resulted in lower significant changes, compared to the individual mycotoxin treated groups verified by heatmap. […]

PMCID: 5749025
PMID: 29291722
DOI: 10.1186/s12859-017-2006-0

[…] consensuspathdb, impala [], ingenuity® pathway analysis (ipa®, qiagen, redwood city, ca), kegg [], masstrix [], mbrole [], metaboanalyst, metabox [], metacore™ (thomson reuters inc., carlsbad, ca), metamapp [], metexplore, metscape [], mpea [], paintomics [], papi [], pathvisio [], reactome [], small molecule pathway database (smpdb) [], wikipathways [] and xcms []., the main features […]

PMCID: 5669858
PMID: 29137232
DOI: 10.18632/oncotarget.18434

[…] fingerprints [], were connected at a threshold of tanimoto similarity coefficient ≥ 0.7., the table of metabolites (nodes) and network properties (p-values, direction of change) provided by metamapp were imported into the cytoscape software and networks were generated by the organic layout algorithm in cytoscape. red and blue nodes show the increase and decrease in the amounts […]

PMCID: 5308260
PMID: 28075412
DOI: 10.3390/toxins9010028

[…] analysis and multivariate analysis for selection of metabolites with variable importance for the projection (vip) > 1, t-test p value < 0.05. the metabolic pathway analysis was performed with metamapp and drawn by cytoscape. results show that the combined don and zen treatment has an obvious “antagonistic effect” in serum and liver tissue metabolic profiling of mice. the blood biochemical […]

PMCID: 4770032
PMID: 26973643
DOI: 10.3389/fimmu.2016.00044

[…] mapping. in recent years, several approaches have been described that attempt to overcome this problem and expand the number of metabolites that are included in secondary analysis. for example, metamapp combines the biochemical reactions from kegg with tanimoto chemical and national institute of standards and technology (nist) mass spectral similarity scores to build extended metabolite […]

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MetaMapp institution(s)
UC Davis Genome Center, Metabolomics, Davis, CA, USA

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