Evidence map›Paper›PMID 27566653›Full record

ArticleCancer genomics & proteomics

Phospho-Network Analysis Identifies and Quantifies Hepatitis C Virus (HCV)-induced Hepatocellular Carcinoma (HCC) Proteins Regulating Viral-mediated Tumor Growth.

Nu T Lu, Natalie M Liu, James Q Vu, Darshil Patel, Whitaker Cohn, Joe Capri, Mary Ziegler, Nikita Patel, Angela Tramontano, Roger Williams and 2 more

Abstract read
PubMed Full text at PMC
In one paragraph

Article in Cancer genomics & proteomics. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
1.0field-weighted citation impact, top 29% 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

3 citing papers in PubMed, 7 citations in OpenAlex.

  1. Review
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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

12 authors at 1 institution in 1 country.

Nu T LuDepartment of Pathology and Laboratory Medicine, University of California Los Angeles, Los Angeles, CA, U.S.A Department of Hematology and Oncology, University of California Los Angeles, Los Angeles, CA, U.S.A.
Natalie M LiuDepartment of Pathology and Laboratory Medicine, University of California Los Angeles, Los Angeles, CA, U.S.A.
James Q VuDepartment of Pathology and Laboratory Medicine, University of California Los Angeles, Los Angeles, CA, U.S.A.
Darshil PatelDepartment of Pathology and Laboratory Medicine, University of California Los Angeles, Los Angeles, CA, U.S.A.
Whitaker CohnDepartment of Psychiatry and Biobehavioral Sciences, University of California Los Angeles, Los Angeles, CA, U.S.A.
Joe CapriDepartment of Psychiatry and Biobehavioral Sciences, University of California Los Angeles, Los Angeles, CA, U.S.A Department of Molecular and Medical Pharmacology, University of California Los Angeles, Los Angeles CA, U.S.A.
Mary ZieglerDepartment of Pathology and Laboratory Medicine, University of California Los Angeles, Los Angeles, CA, U.S.A.
Nikita PatelDepartment of Pathology and Laboratory Medicine, University of California Los Angeles, Los Angeles, CA, U.S.A.
Angela TramontanoInstitute for Technology Assessment, Massachusetts General Hospital, Boston, MA, U.S.A.
Roger WilliamsThe Foundation for Liver Research-The Institute for Hepatology, London, U.K.
Julian WhiteleggeDepartment of Psychiatry and Biobehavioral Sciences, University of California Los Angeles, Los Angeles, CA, U.S.A.
Samuel W FrenchDepartment of Pathology and Laboratory Medicine, University of California Los Angeles, Los Angeles, CA, U.S.A sfrench@mednet.ucla.edu.
University of California, Los Angeles · US

Funding

Transgenic & Knock-out MouseP30DK063491 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI PETER J TONTONOZ · 2003 to 2026
$40.4M
Heat Shock Protein Synthesis Inhibitor Treatment of Hepatitis C Viral InfectionR01DK090794 · NIDDK · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI FRENCH, SAMUEL WHEELER · 2011 to 2015
$1.7M
NIDDK NIH HHS P30 DK063491NIDDK NIH HHS R01 DK090794
6 · The paper itself

Abstract

backgroundPatients with chronic hepatitis C virus (HCV) infection are at risk of serious complications of cirrhosis and hepatocellular carcinoma (HCC). Mass spectrometry (MS) is a versatile methodology that produces a global proteomic landscape for analysis of cancer mechanisms. MATERIALS AND

methodsUsing multiplex peptide stable isotopic labeling and immobilized metal affinity chromatography (IMAC), we enriched and quantified the phosphoproteome of HCC, with and without HCV. While raw data identified protein targets based on expression alone, we also used abundance groups for comprehensive functional analysis.

resultsAnalysis of functional differences highlighted deregulated phosphoprotein networks. This uncovered additional candidates that could be directly derived from the MS data. Cellular processes and pathways that may differ with HCV infection include: cytoskeletal dynamics, insulin response, gene expression, and PI3K/AKT oncogenesis.

conclusionThis function-focused workflow provides a simple framework to analyze MS data. Phosphoproteome quantitation with inclusive functional analysis can generate hypotheses for liver cancer research to improve early screening and identification of molecular targets for therapy.

Indexed as

HepacivirusCarcinoma, HepatocellularChromatography, High Pressure LiquidCluster AnalysisHepatitis C, ChronicHumansLiver NeoplasmsPeptidesPhosphoproteinsProtein Interaction MappingProtein Interaction MapsProteomeProteomicsReproducibility of ResultsSignal TransductionTandem Mass SpectrometryPeptidesPhosphoproteinsProteomehepatitis C virusHepatocellular carcinomamass spectrometryphosphoproteomics

Identifiers

PMID27566653
PMCPMC5070624
OpenAlexW2510366739

What OpenQuestion holds

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Registered trials

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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.