Evidence map›Paper›PMID 32649875›Full record

ArticleCell2020

Proteogenomics of Non-smoking Lung Cancer in East Asia Delineates Molecular Signatures of Pathogenesis and Progression.

Yi-Ju Chen, Theodoros I Roumeliotis, Ya-Hsuan Chang, Ching-Tai Chen, Chia-Li Han, Miao-Hsia Lin, Huei-Wen Chen, Gee-Chen Chang, Yih-Leong Chang, Chen-Tu Wu and 37 more

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Article in Cell, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. It is linked to trial NCT05557474 (Development and Clinical Validation of Early-stage Lung Cancer Prognostic Kit and Immunotherapy Companion Diagnostic Laboratory Developed Tests), which is not on this map. Cited by 216 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
216citing papers in PubMed, 1 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.

NCT05557474 recruitingnot on this mapstarted 2021, after this paper: background citation

Development and Clinical Validation of Early-stage Lung Cancer Prognostic Kit and Immunotherapy Companion Diagnostic Laboratory Developed Tests

Typeobservational_patient_registrySponsorChung Shan Medical UniversityRan2021 to 2028Enrolled236ConditionsLung Cancer, Surgery, RecurrenceArmsEarly-stage lung cancer prognostic kit -- ELISA, Early-stage lung cancer prognostic kit -- IHC
3 · Its place in the literature

Who cites it

216 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Trial
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156 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

47 authors.

Yi-Ju ChenInstitute of Chemistry, Academia Sinica, Taipei, Taiwan.
Theodoros I RoumeliotisFunctional Proteomics Group, Chester Beatty Laboratories, The Institute of Cancer Research, London SW3 6JB, UK.
Ya-Hsuan ChangInstitute of Statistical Science, Academia Sinica, Taipei, Taiwan.
Ching-Tai ChenInstitute of Information Science, Academia Sinica, Taipei, Taiwan.
Chia-Li HanMaster Program in Clinical Pharmacogenomics and Pharmacoproteomics, College of Pharmacy, Taipei Medical University, Taipei, Taiwan. Electronic address: was@tmu.edu.tw.
Miao-Hsia LinInstitute of Chemistry, Academia Sinica, Taipei, Taiwan.
Huei-Wen ChenGraduate Institute of Toxicology, College of Medicine, National Taiwan University, Taipei, Taiwan.
Gee-Chen ChangDivision of Chest Medicine, Department of Internal Medicine, Taichung Veterans General Hospital, Taichung, Taiwan; Faculty of Medicine, School of Medicine, National Yang-Ming University, Taipei, Taiwan.
Yih-Leong ChangDepartment of Pathology, National Taiwan University Hospital and National Taiwan University College of Medicine, Taipei, Taiwan.
Chen-Tu WuDepartment of Pathology, National Taiwan University Hospital and National Taiwan University College of Medicine, Taipei, Taiwan.
Mong-Wei LinDivision of Thoracic Surgery, Department of Surgery, National Taiwan University Hospital, Taipei, Taiwan.
Min-Shu HsiehDepartment of Pathology, National Taiwan University Hospital and National Taiwan University College of Medicine, Taipei, Taiwan.
Yu-Tai WangNational Applied Research Laboratories, National Center for High-performance Computing, Hsinchu, Taiwan.
Yet-Ran ChenAgricultural Biotechnology Research Center, Academia Sinica, Taipei, Taiwan.
Inge JonassenComputational Biology Unit (CBU), Informatics Department, University of Bergen, Bergen, Norway.
Fatemeh Zamanzad GhavidelComputational Biology Unit (CBU), Informatics Department, University of Bergen, Bergen, Norway.
Ze-Shiang LinDepartment of Clinical Laboratory Sciences and Medical Biotechnology, College of Medicine, National Taiwan University, Taipei, Taiwan.
Kuen-Tyng LinInstitute of Chemistry, Academia Sinica, Taipei, Taiwan.
Ching-Wen ChenDepartment of Clinical Laboratory Sciences and Medical Biotechnology, College of Medicine, National Taiwan University, Taipei, Taiwan.
Pei-Yuan SheuDepartment of Clinical Laboratory Sciences and Medical Biotechnology, College of Medicine, National Taiwan University, Taipei, Taiwan.
Chen-Ting HungDepartment of Clinical Laboratory Sciences and Medical Biotechnology, College of Medicine, National Taiwan University, Taipei, Taiwan.
Ke-Chieh HuangInstitute of Chemistry, Academia Sinica, Taipei, Taiwan.
Hao-Chin YangInstitute of Chemistry, Academia Sinica, Taipei, Taiwan.
Pei-Yi LinInstitute of Chemistry, Academia Sinica, Taipei, Taiwan.
Ta-Chi YenInstitute of Chemistry, Academia Sinica, Taipei, Taiwan.
Yi-Wei LinDivision of Thoracic Surgery, Department of Surgery, National Taiwan University Hospital, Taipei, Taiwan.
Jen-Hung WangInstitute of Information Science, Academia Sinica, Taipei, Taiwan.
Lovely RaghavInstitute of Statistical Science, Academia Sinica, Taipei, Taiwan; Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Bioinformatics Program, Taiwan International Graduate Program, Hsinchu, Taiwan.
Chien-Yu LinInstitute of Statistical Science, Academia Sinica, Taipei, Taiwan.
Yan-Si ChenInstitute of Statistical Science, Academia Sinica, Taipei, Taiwan.
Pei-Shan WuInstitute of Chemistry, Academia Sinica, Taipei, Taiwan.
Chi-Ting LaiInstitute of Chemistry, Academia Sinica, Taipei, Taiwan.
Shao-Hsing WengInstitute of Chemistry, Academia Sinica, Taipei, Taiwan.
Kang-Yi SuDepartment of Clinical Laboratory Sciences and Medical Biotechnology, College of Medicine, National Taiwan University, Taipei, Taiwan; Department of Laboratory Medicine, National Taiwan University Hospital, Taipei, Taiwan.
Wei-Hung ChangAgricultural Biotechnology Research Center, Academia Sinica, Taipei, Taiwan.
Pang-Yan TsaiAgricultural Biotechnology Research Center, Academia Sinica, Taipei, Taiwan.
Ana I RoblesOffice of Cancer Clinical Proteomics Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA.
Henry RodriguezOffice of Cancer Clinical Proteomics Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA.
Yi-Jing HsiaoDepartment of Clinical Laboratory Sciences and Medical Biotechnology, College of Medicine, National Taiwan University, Taipei, Taiwan.
Wen-Hsin ChangInstitute of Molecular Medicine, National Taiwan University College of Medicine, Taipei, Taiwan.
Ting-Yi SungInstitute of Information Science, Academia Sinica, Taipei, Taiwan. Electronic address: tsung@iis.sinica.edu.tw.
Jin-Shing ChenDepartment of Surgery, National Taiwan University Hospital, Taipei, Taiwan. Electronic address: chenjs@ntu.edu.tw.
Sung-Liang YuDepartment of Clinical Laboratory Sciences and Medical Biotechnology, College of Medicine, National Taiwan University, Taipei, Taiwan; Department of Laboratory Medicine, National Taiwan University Hospital, Taipei, Taiwan. Electronic address: slyu@ntu.edu.tw.
Jyoti S ChoudharyFunctional Proteomics Group, Chester Beatty Laboratories, The Institute of Cancer Research, London SW3 6JB, UK. Electronic address: jyoti.choudhary@icr.ac.uk.
Hsuan-Yu ChenInstitute of Statistical Science, Academia Sinica, Taipei, Taiwan; Ph.D. Program in Microbial Genomics, National Chung Hsing University, Taichung, Taiwan. Electronic address: hychen@stat.sinica.edu.tw.
Pan-Chyr YangDepartment of Internal Medicine, National Taiwan University, Taipei, Taiwan; Institute of Biomedical Sciences, Academia Sinica, Taipei, Taiwan. Electronic address: pcyang@ntu.edu.tw.
Yu-Ju ChenInstitute of Chemistry, Academia Sinica, Taipei, Taiwan; Department of Chemistry, National Taiwan University, Taipei, Taiwan. Electronic address: yujuchen@gate.sinica.edu.tw.

Funding

Cancer Research UK C309/A25144
6 · The paper itself

Abstract

Lung cancer in East Asia is characterized by a high percentage of never-smokers, early onset and predominant EGFR mutations. To illuminate the molecular phenotype of this demographically distinct disease, we performed a deep comprehensive proteogenomic study on a prospectively collected cohort in Taiwan, representing early stage, predominantly female, non-smoking lung adenocarcinoma. Integrated genomic, proteomic, and phosphoproteomic analysis delineated the demographically distinct molecular attributes and hallmarks of tumor progression. Mutational signature analysis revealed age- and gender-related mutagenesis mechanisms, characterized by high prevalence of APOBEC mutational signature in younger females and over-representation of environmental carcinogen-like mutational signatures in older females. A proteomics-informed classification distinguished the clinical characteristics of early stage patients with EGFR mutations. Furthermore, integrated protein network analysis revealed the cellular remodeling underpinning clinical trajectories and nominated candidate biomarkers for patient stratification and therapeutic intervention. This multi-omic molecular architecture may help develop strategies for management of early stage never-smoker lung adenocarcinoma.

Indexed as

Disease ProgressionProteogenomicsAdenocarcinoma of LungAsia, EasternBiomarkers, TumorCarcinogensCohort StudiesCytosine DeaminaseGene Expression Regulation, NeoplasticGene Regulatory NetworksGenome, HumanHumansLung NeoplasmsMatrix MetalloproteinasesMutationPrincipal Component AnalysisBiomarkers, TumorCarcinogensCytosine DeaminaseMatrix MetalloproteinasesAPOBEC signaturecarcinogen signaturegenomicslung cancerMMPnon-smokerphosphoproteomicsproteogenomicsproteomicssubtyping

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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.