Evidence map›Paper›PMID 31784532›Full record

ArticleNature communications2019

Genomic and immune profiling of pre-invasive lung adenocarcinoma.

Haiquan Chen, Jian Carrot-Zhang, Yue Zhao, Haichuan Hu, Samuel S Freeman, Su Yu, Gavin Ha, Alison M Taylor, Ashton C Berger, Lindsay Westlake and 30 more

Abstract read
In one paragraph

Article in Nature communications, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 157 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
157citing 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.

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

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

  1. Recent advances in diagnostic and therapeutic approaches for pulmonary enteric adenocarcinoma.Clinical & translational oncology : official publication of the Federation of Spanish Oncology Societies and of the National Cancer Institute of Mexico · 2026
    Pooled it
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  20. Interferon Epsilon Loss Is Elusive 9p21 Link to Immune-Cold Tumors, Resistant to Immune Checkpoint Therapy, and Endogenous CXCL9/10 Induction.Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer · 2025
    Review

97 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

40 authors.

Haiquan ChenDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China. hqchen1@yahoo.com.
Jian Carrot-ZhangDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA. zhangj@broadinstitute.org.ORCID http://orcid.org/0000-0002-0103-9965
Yue ZhaoDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Haichuan HuDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Samuel S FreemanDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.
Su YuDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Gavin HaComputational Biology Program, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.ORCID http://orcid.org/0000-0001-7578-7272
Alison M TaylorDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.
Ashton C BergerBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Lindsay WestlakeBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Yuanting ZhengState Key Laboratory of Genetic Engineering, School of Life Sciences, Fudan University, Shanghai, China.
Jiyang ZhangState Key Laboratory of Genetic Engineering, School of Life Sciences, Fudan University, Shanghai, China.
Aruna RamachandranDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.
Qiang ZhengDepartment of Oncology, Shanghai Medical College, Fudan University, Shanghai, China.
Yunjian PanDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Difan ZhengDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Shanbo ZhengDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Chao ChengDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Muyu KuangDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Xiaoyan ZhouDepartment of Oncology, Shanghai Medical College, Fudan University, Shanghai, China.
Yang ZhangDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Hang LiDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Ting YeDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Yuan MaDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Zhendong GaoDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Xiaoting TaoDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Han HanDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Jun ShangState Key Laboratory of Genetic Engineering, School of Life Sciences, Fudan University, Shanghai, China.ORCID http://orcid.org/0000-0002-5767-1492
Ying YuState Key Laboratory of Genetic Engineering, School of Life Sciences, Fudan University, Shanghai, China.
Ding BaoState Key Laboratory of Genetic Engineering, School of Life Sciences, Fudan University, Shanghai, China.
Yechao HuangState Key Laboratory of Genetic Engineering, School of Life Sciences, Fudan University, Shanghai, China.
Xiangnan LiState Key Laboratory of Genetic Engineering, School of Life Sciences, Fudan University, Shanghai, China.
Yawei ZhangDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Jiaqing XiangDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Yihua SunDepartment of Thoracic Surgery, Fudan University Shanghai Cancer Center, Shanghai, China.
Yuan LiDepartment of Oncology, Shanghai Medical College, Fudan University, Shanghai, China.
Andrew D CherniackDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA.ORCID http://orcid.org/0000-0003-0470-0111
Joshua D CampbellDivision of Computational Biomedicine, Department of Medicine, Boston University, Boston, MA, USA.
Leming ShiState Key Laboratory of Genetic Engineering, School of Life Sciences, Fudan University, Shanghai, China.
Matthew MeyersonDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA. matthew_meyerson@dfci.harvard.edu.ORCID http://orcid.org/0000-0002-9133-8108

Funding

Training Program in Bioinformatics and Integrative GenomicsT32HG002295 · NHGRI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI Peter J Park · 2001 to 2026
$15.8M
The Lung PCA: A Multi-Dimensional Atlas of Pulmonary PremalignancyU2CCA233238 · NCI · BOSTON UNIVERSITY MEDICAL CAMPUS · PI SPIRA, AVRUM E · 2018 to 2021
$7.0M
NCI NIH HHS U2C CA233238NHGRI NIH HHS T32 HG002295
6 · The paper itself

Abstract

Adenocarcinoma in situ and minimally invasive adenocarcinoma are the pre-invasive forms of lung adenocarcinoma. The genomic and immune profiles of these lesions are poorly understood. Here we report exome and transcriptome sequencing of 98 lung adenocarcinoma precursor lesions and 99 invasive adenocarcinomas. We have identified EGFR, RBM10, BRAF, ERBB2, TP53, KRAS, MAP2K1 and MET as significantly mutated genes in the pre/minimally invasive group. Classes of genome alterations that increase in frequency during the progression to malignancy are revealed. These include mutations in TP53, arm-level copy number alterations, and HLA loss of heterozygosity. Immune infiltration is correlated with copy number alterations of chromosome arm 6p, suggesting a link between arm-level events and the tumor immune environment.

Indexed as

Adenocarcinoma in SituAdenocarcinoma of LungAdultAgedAged, 80 and overDNA Copy Number VariationsErb-b2 Receptor Tyrosine KinasesErbB ReceptorsExome SequencingFemaleGene Expression ProfilingHLA AntigensHumansLoss of HeterozygosityLung NeoplasmsMaleBRAF protein, humanEGFR protein, humanERBB2 protein, humanErb-b2 Receptor Tyrosine KinasesErbB ReceptorsHLA AntigensKRAS protein, humanMAP2K1 protein, humanMAP Kinase Kinase 1MET protein, humanProto-Oncogene Proteins B-rafProto-Oncogene Proteins c-metProto-Oncogene Proteins p21(ras)RBM10 protein, humanReceptors, Antigen, B-CellReceptors, Antigen, T-CellRNA-Binding ProteinsTP53 protein, humanTumor Suppressor Protein p53

Identifiers

PMID31784532
PMCPMC6884501

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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.