Evidence map›Paper›PMID 28188128›Full record

ArticleCancer discovery2017

Interaction Landscape of Inherited Polymorphisms with Somatic Events in Cancer.

Hannah Carter, Rachel Marty, Matan Hofree, Andrew M Gross, James Jensen, Kathleen M Fisch, Xingyu Wu, Christopher DeBoever, Eric L Van Nostrand, Yan Song and 6 more

Open access · greenAbstract read
In one paragraph

Article in Cancer discovery, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 92 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
92citing papers in PubMed, 1 pooled it
6.7field-weighted citation impact, top 2% of its field
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

92 citing papers in PubMed, 1 synthesis or guideline pooled it, 155 citations in OpenAlex.

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32 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

16 authors at 1 institution in 2 countries.

Hannah CarterDepartment of Medicine, Division of Medical Genetics, University of California, San Diego, La Jolla, California. hkcarter@ucsd.edu.
Rachel MartyBioinformatics Program, University of California, San Diego, La Jolla, California.
Matan HofreeDepartment of Computer Science, University of California, San Diego, La Jolla, California.
Andrew M GrossBioinformatics Program, University of California, San Diego, La Jolla, California.
James JensenBioinformatics Program, University of California, San Diego, La Jolla, California.
Kathleen M FischDepartment of Medicine, Division of Medical Genetics, University of California, San Diego, La Jolla, California.
Xingyu WuMoores Cancer Center, University of California, San Diego, La Jolla, California.
Christopher DeBoeverBioinformatics Program, University of California, San Diego, La Jolla, California.
Eric L Van NostrandInstitute for Genomic Medicine, University of California, San Diego, La Jolla, California.
Yan SongInstitute for Genomic Medicine, University of California, San Diego, La Jolla, California.
Emily WheelerInstitute for Genomic Medicine, University of California, San Diego, La Jolla, California.
Jason F KreisbergDepartment of Medicine, Division of Medical Genetics, University of California, San Diego, La Jolla, California.
Scott M LippmanMoores Cancer Center, University of California, San Diego, La Jolla, California.
Gene W YeoInstitute for Genomic Medicine, University of California, San Diego, La Jolla, California.
J Silvio GutkindMoores Cancer Center, University of California, San Diego, La Jolla, California.
Trey IdekerDepartment of Medicine, Division of Medical Genetics, University of California, San Diego, La Jolla, California.
University of California San Diego · US

Funding

UC San Diego Clinical and Translational Research InstituteUL1TR001442 · NCATS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI FIRESTEIN, GARY S, HOGARTH, MICHAEL · 2015 to 2024
$88.3M
SYNTHETIC SYSTEMSP50GM085764 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI WINZELER, ELIZABETH A · 2010 to 2018
$23.3M
TR&D 3 - Network Guided Machine LearningP41GM103504 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BADER, GARY D. · 2012 to 2024
$17.3M
Using Networks to Seed Hierarchical Whole-cell Models of CancerU54CA209891 · NCI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI KROGAN, NEVAN J · 2017 to 2021
$10.9M
Training Program in Basic Clinical GeneticsT32GM008666 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI HAMILTON, BRUCE A · 1998 to 2021
$8.6M
NDEx - the Network Data Exchange A Network Commons for BiologistsU24CA184427 · NCI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI PRATT, DEXTER · 2014 to 2021
$5.7M
Network approaches to identify cancer drivers from high-dimensional tumor dataDP5OD017937 · OD · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI CARTER, HANNAH KATHRYN · 2013 to 2017
$1.9M
NCATS NIH HHS UL1 TR001442NCI NIH HHS U24 CA184427NCI NIH HHS U54 CA209891NIGMS NIH HHS P41 GM103504NIGMS NIH HHS P50 GM085764NIGMS NIH HHS T32 GM008666NIH HHS DP5 OD017937
6 · The paper itself

Abstract

Recent studies have characterized the extensive somatic alterations that arise during cancer. However, the somatic evolution of a tumor may be significantly affected by inherited polymorphisms carried in the germline. Here, we analyze genomic data for 5,954 tumors to reveal and systematically validate 412 genetic interactions between germline polymorphisms and major somatic events, including tumor formation in specific tissues and alteration of specific cancer genes. Among germline-somatic interactions, we found germline variants in

Indexed as

Genome, HumanGenomicsGene Expression Regulation, NeoplasticGerm-Line MutationGTP-Binding Protein alpha SubunitsHumansNeoplasmsPhosphoproteinsPolymorphism, GeneticPTEN PhosphohydrolaseRNA SplicingRNA Splicing FactorsTOR Serine-Threonine KinasesGNA11 protein, humanGTP-Binding Protein alpha SubunitsMTOR protein, humanPhosphoproteinsPTEN PhosphohydrolasePTEN protein, humanRBFOX1 protein, humanRNA Splicing FactorsSF3B1 protein, humanTOR Serine-Threonine Kinases

Identifiers

PMID28188128
PMCPMC5460679
OpenAlexW2586694861

What OpenQuestion 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 OpenQuestion graph.