Evidence map›Paper›PMID 24713438›Full record

ArticleBioinformatics (Oxford, England)2014

MetDisease--connecting metabolites to diseases via literature.

William Duren, Terry Weymouth, Tim Hull, Gilbert S Omenn, Brian Athey, Charles Burant, Alla Karnovsky

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Bioinformatics (Oxford, England), 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

13 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Bioinformatics for Renal and Urinary Proteomics: Call for Aggrandization.International journal of molecular sciences · 2020
    Review
  6. Review
  7. Article
  8. Article
  9. Article
  10. Article
  11. Systems Medicine as an Emerging Tool for Cardiovascular Genetics.Frontiers in cardiovascular medicine · 2016
    Review
  12. Review
  13. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors.

William DurenDepartment of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA Departments of Medicine and Bioengineering, University of California, San Diego, La Jolla, CA 92093, USA and Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA.
Terry WeymouthDepartment of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA Departments of Medicine and Bioengineering, University of California, San Diego, La Jolla, CA 92093, USA and Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA.
Tim HullDepartment of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA Departments of Medicine and Bioengineering, University of California, San Diego, La Jolla, CA 92093, USA and Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA.
Gilbert S OmennDepartment of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA Departments of Medicine and Bioengineering, University of California, San Diego, La Jolla, CA 92093, USA and Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA.
Brian AtheyDepartment of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA Departments of Medicine and Bioengineering, University of California, San Diego, La Jolla, CA 92093, USA and Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA.
Charles BurantDepartment of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA Departments of Medicine and Bioengineering, University of California, San Diego, La Jolla, CA 92093, USA and Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA.
Alla KarnovskyDepartment of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA Departments of Medicine and Bioengineering, University of California, San Diego, La Jolla, CA 92093, USA and Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA.

Funding

Regional Pilot And Feasibility Study Grants ProgramP30DK020572 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Mehboob A Hussain · 2013 to 2026
$24.3M
Strategic Vision & Impact on Environmental HealthP30ES017885 · NIEHS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Dana Dolinoy · 2011 to 2026
$21.3M
Pilot and Feasibility (P and F) ProgramP30DK089503 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Joyce Lee · 2010 to 2026
$20.3M
Statistics and Bioinformatics Core - WangU24DK097153 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI BURANT, CHARLES F · 2012 to 2017
$10.1M
NIDA NIH HHS U54 DA02151901A1NIDDK NIH HHS DK097153
6 · The paper itself

Abstract

motivationIn recent years, metabolomics has emerged as an approach to perform large-scale characterization of small molecules in biological systems. Metabolomics posed a number of bioinformatics challenges associated in data analysis and interpretation. Genome-based metabolic reconstructions have established a powerful framework for connecting metabolites to genes through metabolic reactions and enzymes that catalyze them. Pathway databases and bioinformatics tools that use this framework have proven to be useful for annotating experimental metabolomics data. This framework can be used to infer connections between metabolites and diseases through annotated disease genes. However, only about half of experimentally detected metabolites can be mapped to canonical metabolic pathways. We present a new Cytoscape 3 plug-in, MetDisease, which uses an alternative approach to link metabolites to disease information. MetDisease uses Medical Subject Headings (MeSH) disease terms mapped to PubChem compounds through literature to annotate compound networks. AVAILABILITY AND IMPLEMENTATION: MetDisease can be downloaded from http://apps.cytoscape.org/apps/metdisease or installed via the Cytoscape app manager. Further information about MetDisease can be found at http://metdisease.ncibi.org CONTACT: akarnovs@med.umich.edu SUPPLEMENTARY INFORMATION: Supplementary Data are available at Bioinformatics online.

Indexed as

Databases, ChemicalDiseaseGenome, HumanHumansMedical Subject HeadingsMetabolic Networks and PathwaysMetabolomicsSoftware

Identifiers

PMID24713438
PMCPMC4103594

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.