Tag: Metabolites

MetDisease 1.1.0 – Connecting Metabolites to Diseases via Literature

MetDisease 1.1.0

:: DESCRIPTION

MetDisease is an app for Cytoscape, the bioinformatics network visualization tool. The app is used to annotate a metabolic network with MeSH disease terms, explore related diseases within a network, and link to PubMed references corresponding to any network node and selection of MeSH terms. MeSH terms are controlled vocabulary terms used by the National Library of Medicine to describe the content of the articles indexed in PubMed.

::DEVELOPER

MetDisease team

:: SCREENSHOTS

MetDisease

:: REQUIREMENTS

  • Linux/ Windows/MacOsX
  • Java
  • Cytoscape

:: DOWNLOAD

 MetDisease

:: MORE INFORMATION

Citation

Bioinformatics. 2014 Apr 23. [Epub ahead of print]
MetDisease–connecting metabolites to diseases via literature.
Duren W1, Weymouth T, Hull T, Omenn GS, Athey B, Burant C, Karnovsky A.

PolySearch 2 – Text Mining system for extracting relationships between Human Diseases, Genes, Mutations, Drugs and Metabolites

PolySearch 2

:: DESCRIPTION

PolySearch2 is an online text-mining system for identifying relationships between biomedical entities such as human diseases, genes, SNPs, proteins, drugs, metabolites, toxins, metabolic pathways, organs, tissues, subcellular organelles, positive health effects, negative health effects, drug actions, Gene Ontology terms, MeSH terms, ICD-10 medical codes, biological taxonomies and chemical taxonomies.

::DEVELOPER

the Wishart Research Group, University of Alberta

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

PolySearch2: a significantly improved text-mining system for discovering associations between human diseases, genes, drugs, metabolites, toxins and more.
Liu Y, Liang Y, Wishart D.
Nucleic Acids Res. 2015 Apr 29. pii: gkv383

Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W399-405. doi: 10.1093/nar/gkn296. Epub 2008 May 16.
PolySearch: a web-based text mining system for extracting relationships between human diseases, genes, mutations, drugs and metabolites.
Cheng D, Knox C, Young N, Stothard P, Damaraju S, Wishart DS.

MetProc 1.0 – Separate Metabolites into Likely Measurement Artifacts and True Metabolites

MetProc 1.0

:: DESCRIPTION

The goal of MetProc is to provide a simple and convenient set of metrics to help distinguish true metabolites from likely measurement artifacts by assessing patterns of missing data across an injection order.

::DEVELOPER

Liming Liang

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux /  Windows
  • R

:: DOWNLOAD

MetProc

:: MORE INFORMATION

Citation

Chaffin MD, et al.
MetProc: Separating Measurement Artifacts from True Metabolites in an Untargeted Metabolomics Experiment.
J Proteome Res. 2019 Mar 1;18(3):1446-1450. doi: 10.1021/acs.jproteome.8b00893. Epub 2018 Dec 31. PMID: 30562035.