Evidence map›Paper›PMID 31022372›Full record

ArticleCell systems2019

Strategies for Network GWAS Evaluated Using Classroom Crowd Science.

Samson H Fong, Daniel E Carlin, Kivilcim Ozturk, 2018 UCSD Network Biology Class, Trey Ideker

Erratum issuedAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell systems, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Review
  2. Article
  3. NetMix2: A Principled Network Propagation Algorithm for Identifying Altered Subnetworks.Journal of computational biology : a journal of computational molecular cell biology · 2022
    Article
  4. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

5 authors.

Samson H FongDepartment of Medicine, University of California San Diego, La Jolla, CA 92093, USA; Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, USA.
Daniel E CarlinDepartment of Medicine, University of California San Diego, La Jolla, CA 92093, USA.
Kivilcim OzturkDepartment of Medicine, University of California San Diego, La Jolla, CA 92093, USA; Program in Bioinformatics, University of California San Diego, La Jolla, CA 92093, USA.
2018 UCSD Network Biology ClassProgram in Bioinformatics, University of California San Diego, La Jolla, CA 92093, USA.
Trey IdekerDepartment of Medicine, University of California San Diego, La Jolla, CA 92093, USA; Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, USA; Program in Bioinformatics, University of California San Diego, La Jolla, CA 92093, USA. Electronic address: tideker@ucsd.edu.

Funding

TR&D 3 - Network Guided Machine LearningP41GM103504 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI IDEKER, TREY · 2012 to 2024
$17.3M
Predoctoral and Postdoctoral Training in Cancer Cell BiologyT32CA067754 · NCI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI JEAN Y.J. WANG · 1995 to 2026
$6.5M
NDEx - the Network Data Exchange A Network Commons for BiologistsU24CA184427 · NCI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI PRATT, DEXTER · 2014 to 2021
$5.7M
Cytoscape: A Modeling Platform for Biomolecular NetworksR01HG009979 · NHGRI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI IDEKER, TREY · 2017 to 2021
$3.5M
NCI NIH HHS T32 CA067754NCI NIH HHS U24 CA184427NHGRI NIH HHS R01 HG009979NIGMS NIH HHS P41 GM103504
6 · The paper itself

Abstract

Biological networks can substantially boost power to identify disease genes in genome-wide association studies. To explore different network GWAS methods, we challenged students of a UC San Diego graduate level bioinformatics course, Network Biology and Biomedicine, to explore and improve such algorithms during a four-week-long classroom competition. Here, we report the many creative solutions and share our experiences in conducting classroom crowd science as both a research and pedagogical tool.

Indexed as

Computational BiologyCrowdsourcingEducation, GraduateGenome-Wide Association StudyHumans

Identifiers

PMID31022372
PMCPMC6764759

What Socratic holds

Textmetadata
LicenceTDM
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 Socratic graph.