Evidence map›Paper›PMID 36384096›Full record

ArticleCell reports. Medicine2022

Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways.

Anthony R Soltis, Nicholas W Bateman, Jianfang Liu, Trinh Nguyen, Teri J Franks, Xijun Zhang, Clifton L Dalgard, Coralie Viollet, Stella Somiari, Chunhua Yan and 14 more

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell reports. Medicine, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 56 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
56citing papers in PubMed, 1 pooled it
10.6field-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

56 citing papers in PubMed, 1 synthesis or guideline pooled it, 74 citations in OpenAlex.

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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

24 authors at 8 institutions in 1 country.

Anthony R SoltisThe American Genome Center, Collaborative Health Initiative Research Program, Department of Anatomy, Physiology and Genetics, Uniformed Services University of the Health Sciences, Bethesda, MD 20814, USA; Henry M. Jackson Foundation for Military Medicine, Bethesda, MD 20817, USA.
Nicholas W BatemanHenry M. Jackson Foundation for Military Medicine, Bethesda, MD 20817, USA; Women's Health Integrated Research Center, Inova Women's Service Line, Inova Fairfax Medical Campus, Falls Church, VA 22042, USA; Gynecologic Cancer Center of Excellence, Murtha Cancer Center Research Program, Uniformed Services University of the Health Sciences, Bethesda, MD 20814, USA.
Jianfang LiuChan Soon-Shiong Institute of Molecular Medicine at Windber, Windber, PA 15963, USA.
Trinh NguyenCenter for Biomedical Informatics and Information Technology, National Cancer Institute, Rockville, MD 20850, USA.
Teri J FranksPulmonary and Mediastinal Pathology, Department of Defense, Joint Pathology Center, Silver Spring, MD 20910, USA.
Xijun ZhangThe American Genome Center, Collaborative Health Initiative Research Program, Department of Anatomy, Physiology and Genetics, Uniformed Services University of the Health Sciences, Bethesda, MD 20814, USA; Henry M. Jackson Foundation for Military Medicine, Bethesda, MD 20817, USA.
Clifton L DalgardThe American Genome Center, Collaborative Health Initiative Research Program, Department of Anatomy, Physiology and Genetics, Uniformed Services University of the Health Sciences, Bethesda, MD 20814, USA.
Coralie ViolletThe American Genome Center, Collaborative Health Initiative Research Program, Department of Anatomy, Physiology and Genetics, Uniformed Services University of the Health Sciences, Bethesda, MD 20814, USA; Henry M. Jackson Foundation for Military Medicine, Bethesda, MD 20817, USA.
Stella SomiariChan Soon-Shiong Institute of Molecular Medicine at Windber, Windber, PA 15963, USA.
Chunhua YanCenter for Biomedical Informatics and Information Technology, National Cancer Institute, Rockville, MD 20850, USA.
Karen ZemanDepartment of Medicine, Walter Reed National Military Medical Center, Bethesda, MD 20814, USA; John P. Murtha Cancer Center Research Program, Uniformed Services University, Bethesda, MD 20814, USA.
William J SkinnerDepartment of Medicine, Walter Reed National Military Medical Center, Bethesda, MD 20814, USA; John P. Murtha Cancer Center Research Program, Uniformed Services University, Bethesda, MD 20814, USA.
Jerry S H LeeHenry M. Jackson Foundation for Military Medicine, Bethesda, MD 20817, USA; John P. Murtha Cancer Center Research Program, Uniformed Services University, Bethesda, MD 20814, USA; Lawrence J. Ellison Institute for Transformative Medicine, Los Angeles, CA 90064, USA; Departments of Medicine, Chemical Engineering and Material Sciences, University of Southern California, Los Angeles, CA 90007, USA.
Harvey B PollardThe American Genome Center, Collaborative Health Initiative Research Program, Department of Anatomy, Physiology and Genetics, Uniformed Services University of the Health Sciences, Bethesda, MD 20814, USA.
Clesson TurnerJohn P. Murtha Cancer Center Research Program, Uniformed Services University, Bethesda, MD 20814, USA.
Emanuel F PetricoinCenter for Applied Proteomics and Molecular Medicine, George Mason University, Manassas, VA 20110, USA.
Daoud MeerzamanCenter for Biomedical Informatics and Information Technology, National Cancer Institute, Rockville, MD 20850, USA.
Thomas P ConradsWomen's Health Integrated Research Center, Inova Women's Service Line, Inova Fairfax Medical Campus, Falls Church, VA 22042, USA; Gynecologic Cancer Center of Excellence, Murtha Cancer Center Research Program, Uniformed Services University of the Health Sciences, Bethesda, MD 20814, USA.
Hai HuChan Soon-Shiong Institute of Molecular Medicine at Windber, Windber, PA 15963, USA; John P. Murtha Cancer Center Research Program, Uniformed Services University, Bethesda, MD 20814, USA.
APOLLO Research Network
Craig D ShriverJohn P. Murtha Cancer Center Research Program, Uniformed Services University, Bethesda, MD 20814, USA. Electronic address: craig.shriver@usuhs.edu.
Christopher A MoskalukDepartment of Pathology, University of Virginia, Charlottesville, VA 22908, USA. Electronic address: cam5p@virginia.edu.
Robert F BrowningDepartment of Medicine, Walter Reed National Military Medical Center, Bethesda, MD 20814, USA; John P. Murtha Cancer Center Research Program, Uniformed Services University, Bethesda, MD 20814, USA. Electronic address: robert.f.browning2.civ@health.mil.
Matthew D WilkersonThe American Genome Center, Collaborative Health Initiative Research Program, Department of Anatomy, Physiology and Genetics, Uniformed Services University of the Health Sciences, Bethesda, MD 20814, USA. Electronic address: matthew.wilkerson@usuhs.edu.
Uniformed Services University of the Health Sciences · USHenry M. Jackson Foundation · USNational Cancer Institute · USWindber Research Institute · USInova Health System · USGeorge Mason University · USUniversity of Southern California · USUniversity of Virginia · US

Funding

Women's Oncology Program - WONP30CA044579 · NCI · UNIVERSITY OF VIRGINIA CHARLOTTESVILLE · PI Jay William FOX · 1987 to 2026
$72.1M
6 · The paper itself

Abstract

We present a deep proteogenomic profiling study of 87 lung adenocarcinoma (LUAD) tumors from the United States, integrating whole-genome sequencing, transcriptome sequencing, proteomics and phosphoproteomics by mass spectrometry, and reverse-phase protein arrays. We identify three subtypes from somatic genome signature analysis, including a transition-high subtype enriched with never smokers, a transversion-high subtype enriched with current smokers, and a structurally altered subtype enriched with former smokers, TP53 alterations, and genome-wide structural alterations. We show that within-tumor correlations of RNA and protein expression associate with tumor purity and immune cell profiles. We detect and independently validate expression signatures of RNA and protein that predict patient survival. Additionally, among co-measured genes, we found that protein expression is more often associated with patient survival than RNA. Finally, integrative analysis characterizes three expression subtypes with divergent mutations, proteomic regulatory networks, and therapeutic vulnerabilities. This proteogenomic characterization provides a foundation for molecularly informed medicine in LUAD.

Indexed as

Adenocarcinoma of LungLung NeoplasmsProteogenomicsHumansProteomicsRNARNAcancerimmunelung adenocarcinomaproteogenomicsproteomicssubtypesurvivalTP53transcriptomicswhole genome

Identifiers

PMID36384096
PMCPMC9729884
OpenAlexW4309331207

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.