Evidence map›Paper›PMID 32855206›Full record

ArticleCancer research2020

Integrated Genomic Characterization of the Human Immunome in Cancer.

Yongsheng Li, Brandon Burgman, Daniel J McGrail, Ming Sun, Dan Qi, Sachet A Shukla, Erxi Wu, Anna Capasso, Shiaw-Yih Lin, Catherine J Wu and 5 more

Open access · bronzeAbstract read
In one paragraph

Article in Cancer research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing papers in PubMed
1.8field-weighted citation impact, top 14% 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

12 citing papers in PubMed, 31 citations in OpenAlex.

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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

15 authors at 6 institutions in 1 country.

Yongsheng LiDepartment of Oncology, The University of Texas at Austin, Dell Medical School, Livestrong Cancer Institutes, Austin, Texas.
Brandon BurgmanDepartment of Oncology, The University of Texas at Austin, Dell Medical School, Livestrong Cancer Institutes, Austin, Texas.
Daniel J McGrailDepartment of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas.
Ming SunDepartment of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas.
Dan QiNeuroscience Institute and Department of Neurosurgery, Baylor Scott & White Health, Temple, Texas.
Sachet A ShuklaMedical Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, Massachusetts.ORCID 0000-0003-2445-3584
Erxi WuDepartment of Oncology, The University of Texas at Austin, Dell Medical School, Livestrong Cancer Institutes, Austin, Texas.ORCID 0000-0002-1680-3639
Anna CapassoDepartment of Oncology, The University of Texas at Austin, Dell Medical School, Livestrong Cancer Institutes, Austin, Texas.
Shiaw-Yih LinDepartment of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas.
Catherine J WuMedical Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, Massachusetts.ORCID 0000-0002-3348-5054
S Gail EckhardtDepartment of Oncology, The University of Texas at Austin, Dell Medical School, Livestrong Cancer Institutes, Austin, Texas.
Gordon B MillsDepartment of Cell, Developmental and Cancer Biology, School of Medicine, Oregon Health & Science University, Portland, Oregon.ORCID 0000-0002-0144-9614
Bo LiLyda Hill Department of Bioinformatics, Department of Immunology, UT Southwestern Medical Center, Dallas, Texas. stephen.yi@austin.utexas.edu nsahni@mdanderson.org bo.li@utsouthwestern.edu.
Nidhi SahniDepartment of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas. stephen.yi@austin.utexas.edu nsahni@mdanderson.org bo.li@utsouthwestern.edu.
S Stephen YiDepartment of Oncology, The University of Texas at Austin, Dell Medical School, Livestrong Cancer Institutes, Austin, Texas. stephen.yi@austin.utexas.edu nsahni@mdanderson.org bo.li@utsouthwestern.edu.ORCID 0000-0003-0047-8103
Livestrong Foundation · USThe University of Texas MD Anderson Cancer Center · USDana-Farber Cancer Institute · USBaylor Scott & White Medical Center - Temple · USOregon Health & Science University · USSouthwestern Medical Center · US

Funding

Integrative bioinformatics and functional characterization of oncogenic driver aberrations in cancerU01CA217842 · NCI · UNIVERSITY OF TX MD ANDERSON CAN CTR · PI DENEEN, BENJAMIN, MILLS, GORDON B. · 2017 to 2021
$3.6M
Immunogenomic analytical approaches for research and clinical applicationsR50CA211482 · NCI · DANA-FARBER CANCER INST · PI SHUKLA, SACHET ASHOK · 2016 to 2020
$1.3M
Noninvasive detection of circulating RNAs for lung cancer early detection and prognosisR33CA191245 · NCI · STATE UNIVERSITY OF NEW YORK AT BUFFALO · PI WU, YUN · 2015 to 2018
$1.3M
Fostering Career Development: Functional Analyses of Molecular Interactome Perturbations by Cancer MutationsK22CA214765 · NCI · UNIVERSITY OF TEXAS AT AUSTIN · PI YI, S. STEPHEN · 2018 to 2019
$368k
Determining the Immunological Consequences of DNA Replication Stress Response Defects in Renal Cells Carcinoma to Improve Immunotherapy OutcomesK99CA240689 · NCI · UNIVERSITY OF TX MD ANDERSON CAN CTR · PI MCGRAIL, DANIEL JAMES · 2019 to 2020
$207k
NCI NIH HHS K22 CA214765NCI NIH HHS K99 CA240689NCI NIH HHS R33 CA191245NCI NIH HHS R50 CA211482NCI NIH HHS U01 CA217842
6 · The paper itself

Abstract

Alterations in immune-related pathways are common hallmarks of cancer. A comprehensive understanding of how cancer mutations rewire immune signaling networks and functional output across cancer types is instrumental to realize the full potential of immunotherapy. Here, we systematically interrogated somatic mutations involved in immune signaling that alter immune responses in patients with cancer. To do so, we developed a Network-based Integrative model to Prioritize Potential immune respondER genes (NIPPER). Identified mutations were enriched in essential protein domains and genes identified by NIPPER were associated with responsiveness to multiple immunotherapy modalities. These genes were used to devise an interactome network propagation framework integrated with drug-associated gene signatures to identify potential immunomodulatory drug candidates. Together, our systems-level analysis results help interpret the heterogeneous immune responses among patients and serve as a resource for future functional studies and targeted therapeutics. SIGNIFICANCE: This study demonstrates that integration of multi-omics data can help identify critical molecular determinants for effective targeted therapeutics.

Indexed as

AlgorithmsTranscriptomeGene Regulatory NetworksGenomicsHumansImmunotherapyMutationNeoplasms

Identifiers

PMID32855206
PMCPMC7642109
OpenAlexW3082464596

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.