Evidence map›Paper›PMID 27372738›Full record

ArticleCell2016

Integrated Proteogenomic Characterization of Human High-Grade Serous Ovarian Cancer.

Hui Zhang, Tao Liu, Zhen Zhang, Samuel H Payne, Bai Zhang, Jason E McDermott, Jian-Ying Zhou, Vladislav A Petyuk, Li Chen, Debjit Ray and 38 more

Erratum issuedOpen access · bronzeAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell, 2016. 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 669 papers.

0numbers the graph read from it
0cells of the map it votes in
669citing papers in PubMed
76.2field-weighted citation impact, top 1% 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

669 citing papers in PubMed, 1,090 citations in OpenAlex.

  1. Article
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  4. Review
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  6. Article
  7. Comprehensive Proteomic Profiling ofCurrent issues in molecular biology · 2026
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  14. Transcriptomics and metabolomics reveal the protective effect of β-hydroxybutyrate on sepsis associated encephalopathy.Inflammation research : official journal of the European Histamine Research Society ... [et al.] · 2026
    Article
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609 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

48 authors at 10 institutions in 2 countries.

Hui ZhangDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Tao LiuBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Zhen ZhangDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Samuel H PayneBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Bai ZhangDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Jason E McDermottBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Jian-Ying ZhouDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Vladislav A PetyukBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Li ChenDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Debjit RayBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Shisheng SunDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Feng YangBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Lijun ChenDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Jing WangDepartment of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN 37203, USA.
Punit ShahDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Seong Won ChaDepartment of Electrical and Computer Engineering, University of California, San Diego, La Jolla, CA 92093, USA.
Paul AiyetanDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Sunghee WooDepartment of Electrical and Computer Engineering, University of California, San Diego, La Jolla, CA 92093, USA.
Yuan TianDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Marina A GritsenkoBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Therese R ClaussBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Caitlin ChoiDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Matthew E MonroeBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Stefani ThomasDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Song NieBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Chaochao WuBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Ronald J MooreBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Kun-Hsing YuBiomedical Informatics Training Program, Stanford University School of Medicine, Stanford, CA 94305, USA; Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
David L TabbDepartment of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN 37203, USA.
David FenyöCenter for Health Informatics and Bioinformatics and Department of Biochemistry and Molecular Pharmacology, New York University School of Medicine, New York, NY 10016, USA.
Vineet BafnaDepartment of Computer Science and Engineering, University of California, San Diego, La Jolla, CA 92093, USA.
Yue WangBradley Department of Electrical and Computer Engineering, Virginia Polytechnic Institute and State University, Arlington, VA 22203, USA.
Henry RodriguezOffice of Cancer Clinical Proteomics Research, National Cancer Institute, Bethesda, MD 20892, USA.
Emily S BojaOffice of Cancer Clinical Proteomics Research, National Cancer Institute, Bethesda, MD 20892, USA.
Tara HiltkeOffice of Cancer Clinical Proteomics Research, National Cancer Institute, Bethesda, MD 20892, USA.
Robert C RiversOffice of Cancer Clinical Proteomics Research, National Cancer Institute, Bethesda, MD 20892, USA.
Lori SokollDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Heng ZhuDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Ie-Ming ShihDepartment of Gynecology and Obstetrics, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Leslie CopeDepartment of Oncology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA.
Akhilesh PandeyMcKusick-Nathans Institute of Genetic Medicine, Johns Hopkins Medical Institutions, Baltimore, MD 21287, USA.
Bing ZhangDepartment of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN 37203, USA.
Michael P SnyderDepartment of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
Douglas A LevineDepartment of Gynecologic Oncology, Laura and Isaac Perlmutter Cancer Centre, NYU Langone Medical Center, New York, NY 10016, USA.
Richard D SmithBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA.
Daniel W ChanDepartment of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD 21231, USA. Electronic address: dchan@jhmi.edu.
Karin D RodlandBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99352, USA. Electronic address: karin.rodland@pnnl.gov.
CPTAC Investigators
Johns Hopkins University · USCancer Institute (WIA) · INPacific Northwest National Laboratory · USNational Cancer Institute · USVanderbilt University · USStanford University · USNew York University · USUniversity of California, San Diego · USVirginia Tech · USNYU Langone Health · US

Funding

Equipment Supplement Request for a Research Resource for Ultra-sensitive High Throughput ProteomicsP41GM103493 · NIGMS · BATTELLE PACIFIC NORTHWEST LABORATORIES · PI SMITH, RICHARD D · 2012 to 2022
$22.6M
Proteo-genomic Discovery, Prioritization and Verification of Cancer BiomarkersU24CA160034 · NCI · BROAD INSTITUTE, INC. · PI CARR, STEVEN A, PAULOVICH, AMANDA G · 2011 to 2016
$16.2M
PNNL Clinical Proteome Characterization CenterU24CA160019 · NCI · BATTELLE PACIFIC NORTHWEST LABORATORIES · PI RODLAND, KARIN D, SMITH, RICHARD D · 2011 to 2016
$15.7M
Cancer Proteome Center at Washington Univ, Univ of North Carolina & Boise StateU24CA160035 · NCI · WASHINGTON UNIVERSITY · PI CHEN, XIAN, ELLIS, MATTHEW J · 2011 to 2016
$11.8M
Proteome Characterization Center: A Genoproteomics Pipeline for Cance ResearchU24CA160036 · NCI · JOHNS HOPKINS UNIVERSITY · PI CHAN, DANIEL WANYUI, ZHANG, HUI · 2011 to 2016
$10.7M
TrainingP41GM103484 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BANDEIRA, NUNO · 2012 to 2018
$8.7M
Computational methods for detecting patterns of complex genomic variationR01GM114362 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Vineet Bafna · 2016 to 2026
$3.1M
Robust, Generalizable, and Fair Machine Learning Models for BiomedicineR35GM142879 · NIGMS · HARVARD MEDICAL SCHOOL · PI YU, KUN-HSING · 2021 to 2025
$2.4M
NCI NIH HHS U24 CA160019NCI NIH HHS U24 CA160034NCI NIH HHS U24 CA160035NCI NIH HHS U24 CA160036NIGMS NIH HHS P41 GM103484NIGMS NIH HHS P41 GM103493NIGMS NIH HHS R01 GM114362NIGMS NIH HHS R35 GM142879
6 · The paper itself

Abstract

To provide a detailed analysis of the molecular components and underlying mechanisms associated with ovarian cancer, we performed a comprehensive mass-spectrometry-based proteomic characterization of 174 ovarian tumors previously analyzed by The Cancer Genome Atlas (TCGA), of which 169 were high-grade serous carcinomas (HGSCs). Integrating our proteomic measurements with the genomic data yielded a number of insights into disease, such as how different copy-number alternations influence the proteome, the proteins associated with chromosomal instability, the sets of signaling pathways that diverse genome rearrangements converge on, and the ones most associated with short overall survival. Specific protein acetylations associated with homologous recombination deficiency suggest a potential means for stratifying patients for therapy. In addition to providing a valuable resource, these findings provide a view of how the somatic genome drives the cancer proteome and associations between protein and post-translational modification levels and clinical outcomes in HGSC. VIDEO ABSTRACT.

Indexed as

ProteomeAcetylationChromosomal InstabilityDNA, NeoplasmDNA RepairFemaleGene DosageHumansMass SpectrometryNeoplasm ProteinsNeoplasms, Cystic, Mucinous, and SerousOvarian NeoplasmsPhosphoproteinsProtein Processing, Post-TranslationalSurvival AnalysisDNA, NeoplasmNeoplasm ProteinsPhosphoproteinsProteome

Identifiers

PMID27372738
PMCPMC4967013
OpenAlexW2464880876

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.