Evidence map›Paper›PMID 25362482›Full record

ArticleNature genetics2014

Trans-ancestry mutational landscape of hepatocellular carcinoma genomes.

Yasushi Totoki, Kenji Tatsuno, Kyle R Covington, Hiroki Ueda, Chad J Creighton, Mamoru Kato, Shingo Tsuji, Lawrence A Donehower, Betty L Slagle, Hiromi Nakamura and 38 more

Registry-linked trialAbstract read
PubMed Publisher
In one paragraph

Article in Nature genetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. It is linked to trial NCT04445532 (Acquisition of Blood and Tumor Tissue Samples From Patients With Hepatobiliary Tumors), which is not on this map. Cited by 462 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
462citing papers in PubMed, 2 pooled it
–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.

NCT04445532 unknown statusnot on this mapstarted 2020, after this paper: background citation

Acquisition of Blood and Tumor Tissue Samples From Patients With Hepatobiliary Tumors

TypeobservationalSponsorPeking Union Medical College HospitalRan2020 to 2025Enrolled450ConditionsHepatocellular Carcinoma, Cholangiocarcinoma, Gallbladder Cancer, Biliary Tract CancerArmsGene expression analysis, Genomic analysis, Protein expression analysis, Proteomic profiling, Polymerase chain reaction
3 · Its place in the literature

Who cites it

462 citing papers in PubMed, 2 syntheses or guidelines pooled it.

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

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

48 authors.

Yasushi TotokiDivision of Cancer Genomics, National Cancer Center Research Institute, Tokyo, Japan.
Kenji TatsunoGenome Science Division, Research Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan.
Kyle R CovingtonHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Hiroki UedaGenome Science Division, Research Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan.
Chad J Creighton1] Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA. [2] Department of Medicine, Baylor College of Medicine, Houston, Texas, USA.
Mamoru KatoDivision of Cancer Genomics, National Cancer Center Research Institute, Tokyo, Japan.
Shingo TsujiGenome Science Division, Research Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan.
Lawrence A DonehowerDepartment of Molecular Virology and Microbiology, Baylor College of Medicine, Houston, Texas, USA.
Betty L SlagleDepartment of Molecular Virology and Microbiology, Baylor College of Medicine, Houston, Texas, USA.
Hiromi NakamuraDivision of Cancer Genomics, National Cancer Center Research Institute, Tokyo, Japan.
Shogo YamamotoGenome Science Division, Research Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan.
Eve ShinbrotHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Natsuko HamaDivision of Cancer Genomics, National Cancer Center Research Institute, Tokyo, Japan.
Megan LehmkuhlHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Fumie HosodaDivision of Cancer Genomics, National Cancer Center Research Institute, Tokyo, Japan.
Yasuhito AraiDivision of Cancer Genomics, National Cancer Center Research Institute, Tokyo, Japan.
Kim WalkerHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Mahmoud DahdouliHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Kengo GotohGenome Science Division, Research Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan.
Genta NagaeGenome Science Division, Research Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan.
Marie-Claude GingrasHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.ORCID 0000000325706360
Donna M MuznyHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Hidenori OjimaDivision of Molecular Pathology, National Cancer Center Research Institute, Tokyo, Japan.
Kazuaki ShimadaHepatobiliary and Pancreatic Surgery Division, National Cancer Center Hospital, Tokyo, Japan.
Yutaka MidorikawaDepartment of Digestive Surgery, Nihon University School of Medicine, Tokyo, Japan.
John A GossDepartment of Surgery, Baylor College of Medicine, Houston, Texas, USA.
Ronald CottonDepartment of Surgery, Baylor College of Medicine, Houston, Texas, USA.
Akimasa Hayashi1] Genome Science Division, Research Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan. [2] Department of Pathology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Junji ShibaharaDepartment of Pathology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Shumpei IshikawaDepartment of Pathology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Jacfranz GuiteauDepartment of Surgery, Baylor College of Medicine, Houston, Texas, USA.
Mariko TanakaDepartment of Pathology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Tomoko UrushidateDivision of Cancer Genomics, National Cancer Center Research Institute, Tokyo, Japan.
Shoko OhashiDivision of Cancer Genomics, National Cancer Center Research Institute, Tokyo, Japan.
Naoko OkadaDivision of Cancer Genomics, National Cancer Center Research Institute, Tokyo, Japan.
Harsha DoddapaneniHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Min WangHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Yiming ZhuHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Huyen DinhHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Takuji OkusakaHepatobiliary and Pancreatic Oncology Division, National Cancer Center Hospital, Tokyo, Japan.
Norihiro KokudoHepato-Biliary-Pancreatic Surgery Division, Department of Surgery, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Tomoo KosugeHepatobiliary and Pancreatic Surgery Division, National Cancer Center Hospital, Tokyo, Japan.
Tadatoshi TakayamaDepartment of Digestive Surgery, Nihon University School of Medicine, Tokyo, Japan.
Masashi FukayamaDepartment of Pathology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan.
Richard A GibbsHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
David A WheelerHuman Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA.
Hiroyuki AburataniGenome Science Division, Research Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan.
Tatsuhiro Shibata1] Division of Cancer Genomics, National Cancer Center Research Institute, Tokyo, Japan. [2] Laboratory of Molecular Medicine, Human Genome Center, Institute of Medical Science, The University of Tokyo, Tokyo, Japan.

Funding

The Human Genome Sequencing CenterU54HG003273 · NHGRI · BAYLOR COLLEGE OF MEDICINE · PI GIBBS, RICHARD A · 2004 to 2015
$341.3M
Tumor BiologyP30CA125123 · NCI · BAYLOR COLLEGE OF MEDICINE · PI DAVID R ROWLEY · 2007 to 2026
$73.9M
Virology CoreP30AI036211 · NIAID · BAYLOR COLLEGE OF MEDICINE · PI BUTEL, JANET S · 1994 to 2015
$21.7M
NCI NIH HHS HHSN261201000053CNCI NIH HHS P30 CA125123NHGRI NIH HHS 5U54HG003273NHGRI NIH HHS U54 HG003273NIAID NIH HHS P30 AI036211
6 · The paper itself

Abstract

Diverse epidemiological factors are associated with hepatocellular carcinoma (HCC) prevalence in different populations. However, the global landscape of the genetic changes in HCC genomes underpinning different epidemiological and ancestral backgrounds still remains uncharted. Here a collection of data from 503 liver cancer genomes from different populations uncovered 30 candidate driver genes and 11 core pathway modules. Furthermore, a collaboration of two large-scale cancer genome projects comparatively analyzed the trans-ancestry substitution signatures in 608 liver cancer cases and identified unique mutational signatures that predominantly contribute to Asian cases. This work elucidates previously unexplored ancestry-associated mutational processes in HCC development. A combination of hotspot TERT promoter mutation, TERT focal amplification and viral genome integration occurs in more than 68% of cases, implicating TERT as a central and ancestry-independent node of hepatocarcinogenesis. Newly identified alterations in genes encoding metabolic enzymes, chromatin remodelers and a high proportion of mTOR pathway activations offer potential therapeutic and diagnostic opportunities.

Indexed as

Genome, HumanMutationAlgorithmsAsian PeopleCarcinoma, HepatocellularCpG IslandsDNA Mutational AnalysisExomeGene Expression Regulation, NeoplasticGenome, ViralHepacivirusHepatitis B virusHumansJapanLiver NeoplasmsModels, StatisticalMTOR protein, humanTelomeraseTERT protein, humanTOR Serine-Threonine Kinases

Identifiers

PMID25362482

What OpenQuestion holds

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Registered trials

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.