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Proteogenomic Characterization Reveals Therapeutic Vulnerabilities in Lung Adenocarcinoma
Open accessAbstract
To explore the biology of lung adenocarcinoma (LUAD) and identify new therapeutic opportunities, we performed comprehensive proteogenomic characterization of 110 tumors and 101 matched normal adjacent tissues (NATs) incorporating genomics, epigenomics, deep-scale proteomics, phosphoproteomics, and acetylproteomics. Multi-omics clustering revealed four subgroups defined by key driver mutations, country, and gender. Proteomic and phosphoproteomic data illuminated biology downstream of copy number aberrations, somatic mutations, and fusions and identified therapeutic vulnerabilities associated with driver events involving KRAS, EGFR, and ALK. Immune subtyping revealed a complex landscape, reinforced the association of STK11 with immune-cold behavior, and underscored a potential immunosuppressive role of neutrophil degranulation. Smoking-associated LUADs showed correlation with other environmental exposure signatures and a field effect in NATs. Matched NATs allowed identification of differentially expressed proteins with potential diagnostic and therapeutic utility. This proteogenomics dataset represents a unique public resource for researchers and clinicians seeking to better understand and treat lung adenocarcinomas.
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“Collectively, CPTAC and ICPC collaborators have comprehensively characterized 13 cancer types at the proteogenomics level, with all datasets publicly accessible109–117.”
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Cites
Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
Benjamini, Y., & Hochberg, Y. (1995) · Journal of the Royal Statistical Society Series B: Statistical Methodology · doi:10.1111/j.2517-6161.1995.tb02031.x · Cited by 109,482
Bray, F., Ferlay, J., Soerjomataram, I., Siegel, R. L., Torre, L. A., & Jemal, A. (2018) · CA: A Cancer Journal for Clinicians · doi:10.3322/caac.21492 · Cited by 84,109
Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S., et al. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0506580102 · Cited by 53,625
Self-citationlimma powers differential expression analyses for RNA-sequencing and microarray studies
Ritchie, M. E., Phipson, B., Wu, D., Hu, Y., Law, C. W., Shi, W., & Smyth, G. K. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv007 · Cited by 40,458
Self-citationKEGG: Kyoto Encyclopedia of Genes and Genomes
Kanehisa, M. (2000) · Nucleic Acids Research · doi:10.1093/nar/28.1.27 · Cited by 37,077
KEGG: Kyoto Encyclopedia of Genes and Genomes
Ogata, H., Goto, S., Sato, K., Fujibuchi, W., Bono, H., & Kanehisa, M. (1999) · Nucleic Acids Research · doi:10.1093/nar/27.1.29 · Cited by 31,232
Siegel, R. L., Miller, K. D., & Jemal, A. (2019) · CA: A Cancer Journal for Clinicians · doi:10.3322/caac.21551 · Cited by 20,160
GSVA: gene set variation analysis for microarray and RNA-Seq data
Hänzelmann, S., Castelo, R., & Guinney, J. (2013) · BMC Bioinformatics · doi:10.1186/1471-2105-14-7 · Cited by 15,440
The Molecular Signatures Database Hallmark Gene Set Collection
Liberzon, A., Birger, C., Thorvaldsdóttir, H., Ghandi, M., Mesirov, J. P., & Tamayo, P. (2015) · Cell Systems · doi:10.1016/j.cels.2015.12.004 · Cited by 13,807
Self-citationFactoMineR : An R Package for Multivariate Analysis
Lê, S., Josse, J., & Husson, F. (2008) · Journal of Statistical Software · doi:10.18637/jss.v025.i01 · Cited by 12,422
Cited by
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Items 301–400 of 846
Systematic identification of ALK substrates by integrated phosphoproteome and interactome analysis
Adachi, J., Kakudo, A., Takada, Y., Isoyama, J., Ikemoto, N., Abe, Y., Narumi, R., Muraoka, S., Gunji, D., Hara, Y., et al. (2022) · Life Science Alliance · doi:10.26508/lsa.202101202 · Cited by 12
Variant biomarker discovery using mass spectrometry-based proteogenomics
Reilly, L., Seddighi, S., Singleton, A., Cookson, M., Ward, M. E., & Qi, Y. A. (2023) · Frontiers in Aging · doi:10.3389/fragi.2023.1191993 · Cited by 13
A multiomic investigation of lung adenocarcinoma molecular subtypes
Liang, K., Luo, Y., Wang, M., Chiou, S., Chen, Y., & Hsu, H. (2023) · Journal of the Chinese Medical Association · doi:10.1097/jcma.0000000000001029 · Cited by 12
Suaiti, L., Sullivan, T. B., Rieger-Christ, K. M., Servais, E. L., Suzuki, K., & Burks, E. J. (2023) · Clinical Lung Cancer · doi:10.1016/j.cllc.2022.12.006 · Cited by 11
Self-citationNeutrophils in non-small cell lung cancer and immunotherapy with PD-1/PD-L1 inhibitors
Hu, S., Yan, C., Tian, Y., & Sun, W. (2025) · Journal of Translational Medicine · doi:10.1186/s12967-025-07084-z · Cited by 11
Zhang, H., Nabel, C. S., Li, D., O’Connor, R. Í., Crosby, C. R., Chang, S. M., Yuan, H., Stanley, R., Sahu, S., Levin, D. S., et al. (2023) · Journal of Thoracic Oncology · doi:10.1016/j.jtho.2023.03.014 · Cited by 11
Self-citationProteomic characteristics of lung adenocarcinoma tumors that are small but highly invasive
Qiu, Z., Yang, X., Xia, J., Zhang, C., Tang, W., Chu, X., Fu, R., Yang, X., Zhang, X., Wu, Y.-L. L. C., et al. (2023) · Medicine Advances · doi:10.1002/med4.38 · Cited by 11
Self-citationKinase activities in pancreatic ductal adenocarcinoma with prognostic and therapeutic avenues
Vallés‐Martí, A., Haas, R. R. D. G., Henneman, A. A., Piersma, S. R., Pham, T. V., Knol, J. C., Verheij, J., Dijk, F., Halfwerk, H., Giovannetti, E., et al. (2024) · Molecular Oncology · doi:10.1002/1878-0261.13625 · Cited by 11
Tanaka, A., Ogawa, M., Zhou, Y., Otani, Y., Hendrickson, R. C., Miele, M. M., Li, Z., Klimstra, D. S., Wang, J. Y., & Roehrl, M. H. A. (2024) · iScience · doi:10.1016/j.isci.2024.110544 · Cited by 14
Self-citationMultiomics in cancer biomarker discovery and cancer subtyping
Choi, S., & An, J. (2024) · Advances in clinical chemistry · doi:10.1016/bs.acc.2024.10.004 · Cited by 12
Su, H., Chen, L., Wu, J., Cheng, Z., Li, J., Ren, Y., Xu, J., Dang, Y., Zheng, M., Cao, Y., et al. (2025) · Nature Communications · doi:10.1038/s41467-025-57364-x · Cited by 11
Self-citationYuan, D.-D., Wei, Z., Wang, Y., Cheng, F., Zeng, Y.-J., Yang, L., Zhang, S., Li, J.-B., & Tang, R. (2021) · Frontiers in Oncology · doi:10.3389/fonc.2021.734873 · Cited by 7
Self-citationDrug Repurposing by Tumor Tissue Editing
Lüke, F., Harrer, D. C., Pantziarka, P., Pukrop, T., Ghibelli, L., Gerner, C., Reichle, A., & Heudobler, D. (2022) · Frontiers in Oncology · doi:10.3389/fonc.2022.900985 · Cited by 11
Pten and p53 Loss in the Mouse Lung Causes Adenocarcinoma and Sarcomatoid Carcinoma
Lázaro, S., Lorz, C., Enguita, A. B., Seller‐Corona, I., Paramio, J. M., & Santos, M. (2022) · Cancers · doi:10.3390/cancers14153671 · Cited by 12
Cancer Serum Atlas-Supported Precise Pan-Targeted Proteomics Enable Multicancer Detection
Hu, A., Zhang, L., Wang, Z., Yuan, C., Lin, L., Zhang, J., Gao, X., Chen, X., Guo, W., Yang, P., et al. (2022) · Analytical Chemistry · doi:10.1021/acs.analchem.2c03299 · Cited by 11
Self-citationBai, M., Wu, L., Zhao, M., Jin, P., Liu, J., Wang, W., Gao, X., Wang, Y., Chong, W., Yu, J., et al. (2023) · Clinical and Translational Medicine · doi:10.1002/ctm2.1431 · Cited by 11
Self-citationAdvances in the application of proteomics in lung cancer
Bai, L., Zhang, Z., Xiang, Z., Cai, Y., Zhang, X., & Wu, J. (2022) · Frontiers in Oncology · doi:10.3389/fonc.2022.993781 · Cited by 11
Self-citationAbelin, J. G., Bergstrom, E. J., Taylor, H. B., Rivera, K. D., Klaeger, S., Xu, C., White, C. J., Olive, M. E., Maynard, M., Kane, M. H., et al. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.06.22.449417 · Cited by 9
Self-citationA pre-trained large generative model for translating single-cell transcriptome to proteomePreprint
Liu, L., Li, W., Wong, K., Yang, F., & Yao, J. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.07.04.547619 · Cited by 11
Song, D., Zhang, J., Zhou, J., Yuan, X., Tang, L., Sun, K., Shi, Q., Sun, H., & Zhao, W. (2025) · Current Proteomics · doi:10.1016/j.curpro.2025.100060 · Cited by 12
Self-citationDu, J., Shao, J., Li, S., Zhu, T., Song, H., Lei, C., Zhang, M., & Cen, Y. (2023) · Scientific Reports · doi:10.1038/s41598-023-45645-8 · Cited by 12
Pan-cancer classification of multi-omics data based on machine learning models
Cava, C., Sabetian, S., Salvatore, C., & Castiglioni, I. (2024) · Network Modeling Analysis in Health Informatics and Bioinformatics · doi:10.1007/s13721-024-00441-w · Cited by 13
A “One-Step” Strategy for the Global Characterization of Core-Fucosylated Glycoproteome
Wang, Y., Yuan, R., Liang, B., Zhang, J., Qin, W., Chen, H., Tian, Y., Wen, L., & Zhou, H. (2024) · JACS Au · doi:10.1021/jacsau.4c00214 · Cited by 10
Self-citationRu, M., He, J., Bai, Y., Zhang, K., Shi, Q., Gao, F., Wang, Y., Li, B., & Shen, L. (2024) · Biomolecules · doi:10.3390/biom14060682 · Cited by 10
Mutation impact on mRNA versus protein expression across human cancers
Liu, Y., Elmas, A., & Huang, K. (2024) · GigaScience · doi:10.1093/gigascience/giae113 · Cited by 13
Mass Spectrometry‐Based Proteomics for Next‐Generation Precision Oncology
Lin, K., Muneer, G., Huang, P., Chen, C., & Chen, Y. (2025) · Mass Spectrometry Reviews · doi:10.1002/mas.21932 · Cited by 11
He, S., Hu, X. L., Zhu, J., Wang, W., Ma, C., Ran, P., Chen, O., Chen, F., Qing, H., Ma, J., et al. (2025) · Nature Communications · doi:10.1038/s41467-025-60184-8 · Cited by 10
Self-citationJiang, W., Wen, B., Li, K., Zeng, W., Leprevost, F. D. V., Moon, J., Petyuk, V., Edwards, N. J., Liu, T., Nesvizhskii, A. I., et al. (2021) · Molecular & Cellular Proteomics · doi:10.1016/j.mcpro.2021.100171 · Cited by 10
Self-citationOSppc: A web server for online survival analysis using proteome of pan-cancers
Zhang, L., Wang, Q., Han, Y., Huang, Y., Chen, T., & Guo, X. (2022) · Journal of Proteomics · doi:10.1016/j.jprot.2022.104810 · Cited by 10
A zinc finger protein gene signature enables bladder cancer treatment stratification
Zhang, J., Zhang, C., Cao, P., Zheng, X., Yu, B., Cao, H., Gao, Z., Zhang, F., Wu, J., Cao, H., et al. (2021) · Aging · doi:10.18632/aging.202984 · Cited by 10
State-of-the-Art Molecular Oncology of Lung Cancer in Taiwan
Luo, Y., Liang, K., Huang, H.-C., Shen, C., Chiang, C., Wang, M., Chiou, S., & Chen, Y. (2022) · International Journal of Molecular Sciences · doi:10.3390/ijms23137037 · Cited by 10
Morel, M., & Long, W. (2023) · Molecular Oncology · doi:10.1002/1878-0261.13554 · Cited by 9
Lv, L., Ren, S., Jiang, H., Yan, R., Chen, W., Yan, R., Dong, J., Shao, L., & Yu, Y. (2024) · mSphere · doi:10.1128/msphere.00672-23 · Cited by 10
Bateman, N. W., Abulez, T. S., Soltis, A. R., McPherson, A., Choi, S., Garsed, D. W., Pandey, A., Tian, C., Hood, B. L., Conrads, K. A., et al. (2024) · npj Precision Oncology · doi:10.1038/s41698-024-00519-8 · Cited by 13
Self-citationLiu, J., Chang, X., Qian, L., Chen, S., Xue, Z., Wu, J., Luo, D., Huang, B., Fan, J., Guo, T., et al. (2024) · Molecular & Cellular Proteomics · doi:10.1016/j.mcpro.2024.100766 · Cited by 9
Liu, Z., Lu, Q., Zhang, Z., Feng, Q., & Wang, X. (2024) · Respiratory Research · doi:10.1186/s12931-024-02870-7 · Cited by 10
Self-citationCole-Skinner, B., André, N. M., Blankenheim, Z., Root, K. M., Jafri, K., & Simmons, G. E., Jr. (2024) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2024.1348707 · Cited by 9
PhosCancer: A comprehensive database for investigating protein phosphorylation in human cancer
Dong, Q., Shen, D., Ye, J., Chen, J., & Li, J. (2024) · iScience · doi:10.1016/j.isci.2024.111060 · Cited by 9
Neoadjuvant immunotherapy for non-small cell lung cancer: Opportunities and challenges
Hu, J., Zhang, J., Wan, S., & Zhang, P. (2024) · Chinese Medical Journal - Pulmonary and Critical Care Medicine · doi:10.1016/j.pccm.2024.11.003 · Cited by 9
Wang, P., Zhang, S., Chen, X., Yang, X.-D., Huang, S., Yin, H., Duan, H.-Y., Zhou, F., Yu, J., Zhong, B., et al. (2025) · Protein & Cell · doi:10.1093/procel/pwaf101 · Cited by 9
Self-citationIntegrated and Comprehensive Diagnostics: An Emerging Paradigm in Precision Oncology
Das, K., Samol, J., Khan, I. S., Ho, B. C. S., & Chuah, K. L. (2026) · Cancers · doi:10.3390/cancers18020327 · Cited by 9
Proteogenomics in Cancer: Then and Now
Wang, X., Xu, Y., & Lau, A. T. Y. (2023) · Journal of Proteome Research · doi:10.1021/acs.jproteome.3c00196 · Cited by 10
Zhang, Q., Chen, X., Hu, Y., Zhou, T., Du, M., Xu, R., Chen, Y., Tang, P., Chen, Z., & Li, J. (2023) · International Journal of Molecular Sciences · doi:10.3390/ijms241914663 · Cited by 9
Self-citationLi, Z., Yin, Z., Luan, Z., Zhang, C., Wang, Y., Zhang, K., Chen, F., Yang, Z., & Tian, Y. (2023) · Frontiers in Immunology · doi:10.3389/fimmu.2023.1273422 · Cited by 9
Chang, E., & An, J. (2024) · BMB Reports · doi:10.5483/bmbrep.2023-0244 · Cited by 8
Sun, J., Wu, Y. P., Zeng, Q., Lu, L., Zeng, T., Harlina, P. W., Liu, W., Du, J., Pi, J., & Yang, F. (2024) · LWT · doi:10.1016/j.lwt.2024.116237 · Cited by 9
Self-citationProteomics‐based interrogation of the kinome and its implications for precision oncology
Sian, T. C. C. L. K., Chüeh, A. C., & Daly, R. J. (2021) · PROTEOMICS · doi:10.1002/pmic.202000161 · Cited by 10
Hirano, H., Abe, Y., Nojima, Y., Aoki, M., Shoji, H., Isoyama, J., Honda, K., Boku, N., Mizuguchi, K., Tomonaga, T., et al. (2022) · Scientific Reports · doi:10.1038/s41598-022-08430-7 · Cited by 9
Balbisi, M., Sugár, S., Schlosser, G., Szeitz, B., Fillinger, J., Moldvay, J., Drahos, L., Szász, A. M., Tóth, G., & Turiák, L. (2023) · Scientific Reports · doi:10.1038/s41598-023-33435-1 · Cited by 9
Zhou, A., Zhang, D., Kang, X., & Brooks, J. D. (2023) · Cancer Medicine · doi:10.1002/cam4.6330 · Cited by 9
Production of Ethanol from Hardwood
Mitchell, J. (2006) · DigitalCommons (California Polytechnic State University) · Cited by 9
Molecular characteristics of lung adenocarcinoma with respect to patient age at diagnosis
Staaf, J., Aine, M., Nacer, D. F., Planck, M., & Arbajian, E. (2023) · International Journal of Cancer · doi:10.1002/ijc.34523 · Cited by 9
Histone variant H2AZ1 drives lung cancer progression through the RELA-HIF1A-EGFR signaling pathway
Zhao, H., Wu, X., Wang, Y., Li, X., Du, Y., Zhou, Z., Li, Y., Liu, Y., Zeng, X., & Chen, G. (2024) · Cell Communication and Signaling · doi:10.1186/s12964-024-01823-3 · Cited by 8
Self-citationXu, Y., Liu, X., Guan, J., Chen, J., & Xu, X. (2024) · Molecules · doi:10.3390/molecules29215191 · Cited by 8
Zhang, X., Zhang, Z., Liu, Y., Zhao, S.-L., Zhao, X., Zhang, L., Gu, C., & Zhao, Y. (2025) · Scientific Reports · doi:10.1038/s41598-025-85532-y · Cited by 8
Self-citationLi, Z., Lin, X., Yang, Y., Tian, M. L., Zhang, L., Huang, F., Xiao, W., Wei, Z., & Tian, Y. (2025) · Scientific Reports · doi:10.1038/s41598-025-88126-w · Cited by 8
Chang, H.-Y., Deng, Y., Li, R., Avtonomov, D. M., Wen, B., Haynes, S., Leprevost, F. D. V., Zhang, B., Yu, F., & Nesvizhskii, A. I. (2026) · Nature Communications · doi:10.1038/s41467-026-70118-7 · Cited by 11
Self-citationJiang, S., Shi, J., Li, Y., Zhang, Z., Chang, L., Wang, G., Wu, W., Yu, L., Dai, E., Zhang, L., et al. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2022.1015140 · Cited by 7
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Feng, S., Calinawan, A. P., Pugliese, P., Wang, P., Ceccarelli, M., Petralia, F., & Gosline, S. J. C. (2024) · Cell Reports Methods · doi:10.1016/j.crmeth.2024.100708 · Cited by 7
Self-citationKim, H., Lee, W., Kim, Y.-W., Lee, S.-J., Choi, W., Lee, G. K., Park, S.-J., Ju, S., Kim, S., Lee, C., et al. (2024) · Experimental & Molecular Medicine · doi:10.1038/s12276-024-01320-0 · Cited by 8
Liu, C., Zheng, S., Wang, S., Wang, X., Feng, X., Sun, N., & He, J. (2021) · Therapeutic Advances in Medical Oncology · doi:10.1177/17588359211006949 · Cited by 7
Schmitt, M., Sinnberg, T. W., Bratl, K., Zittlau, K. I., Garbe, C., Maček, B., & Nalpas, N. (2021) · Molecular & Cellular Proteomics · doi:10.1016/j.mcpro.2021.100163 · Cited by 9
Application of individualized differential expression analysis in human cancer proteome
Liu, Y., Lin, Y., Yang, W., Lin, Y., Wu, Y., Zhang, Z., Lin, N., Wang, X., Tong, M., & Yu, R. (2022) · Briefings in Bioinformatics · doi:10.1093/bib/bbac096 · Cited by 8
Self-citationUSO1 expression is dysregulated in non-small cell lung cancer
Keogh, A., Ryan, L., Nur, M. M., Baird, A., Nicholson, S. A., Cuffe, S. D., Fitzmaurice, G. J., Ryan, R. J., Young, V., Finn, S. P., et al. (2022) · Translational Lung Cancer Research · doi:10.21037/tlcr-22-230 · Cited by 8
Du, Z., Sun, J., Zhang, Y., Hesilaiti, N., Xia, Q., Cui, H., Fan, N., & Xu, X. (2023) · Biomolecules · doi:10.3390/biom13020210 · Cited by 9
Dai, T., Adachi, J., Dai, Y., Nakano, N., Yamato, M., Kikuchi, S., Usui∥, S., Minami, Y., Tomonaga, T., Noguchi, M., et al. (2023) · Cancer Medicine · doi:10.1002/cam4.5766 · Cited by 7
Bosso, G., Cipressa, F., Tullo, L., & Cenci, G. (2023) · Cell Death Discovery · doi:10.1038/s41420-023-01598-5 · Cited by 10
Sun, X., Wang, R., Tan, M., Tian, X., & Meng, J. (2021) · Experimental Cell Research · doi:10.1016/j.yexcr.2021.112653 · Cited by 8
Hong, R., Liu, W., & Fenyö, D. (2021) · BioMedInformatics · doi:10.3390/biomedinformatics2010006 · Cited by 7
Self-citationThe proteasome regulator PSME4 drives immune evasion and abrogates anti-tumor immunity in NSCLCPreprint
Javitt, A., Shmueli, M. D., Kramer, M. P., Kolodziejczyk, A. A., Cohen, I., Kamer, I., Litchfield, K., Bab-Dinitz, E., Zadok, O., Neiens, V., et al. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.10.24.464690 · Cited by 8
Lung Cancer Computational Biology and ResourcesPreprint
Cai, L., Xiao, G., Gerber, D. E., Minna, J. D., & Xie, Y. (2021) · Cold Spring Harbor Perspectives in Medicine · doi:10.1101/cshperspect.a038273 · Cited by 9
Hijazo‐Pechero, S., Alay, A., Cordero, D., Marín, R., Vilariño, N., Palmero, R., Brenes, J., Montalbán-Casafont, A., Nadal, E., & Solé, X. (2023) · Molecular Oncology · doi:10.1002/1878-0261.13550 · Cited by 7
The landscape of actionable genomic alterations in lung adenocarcinomas in India
Sharma, R., Kamireddy, A. P., Hussaini, S. M., Chatterjee, S., Hasan, Q. A., & Jain, J. (2023) · Frontiers in Genetics · doi:10.3389/fgene.2023.1256756 · Cited by 7
Phosphoprotein dynamics of interacting T cells and tumor cells by HySic
Ibáñez‐Molero, S., Pruijs, J. T. M., Atmopawiro, A., Wang, F., Terry, A. M., Altelaar, M. A. F., Peeper, D. S., & Stecker, K. E. (2023) · Cell Reports · doi:10.1016/j.celrep.2023.113598 · Cited by 7
Lu, Y.-F., Chang, Y.-H., Chen, Y., Hsieh, M., Lin, M., Hsu, H., Han, C., Chen, Y., Yu, S., Chen, J., et al. (2024) · Lung Cancer · doi:10.1016/j.lungcan.2024.107791 · Cited by 7
Self-citationSun, L., Wang, J., Yu, H., Zhu, X., Zhang, J., Hu, J., Yan, Y., Zhang, X., Zhu, Y., Jiang, G., et al. (2025) · Communications Biology · doi:10.1038/s42003-025-07595-x · Cited by 7
Li, Q. K., Lih, T. M., Clark, D. J., Chen, L., Schnaubelt, M., & Zhang, H. (2025) · Nature Protocols · doi:10.1038/s41596-024-01113-9 · Cited by 9
Self-citationWang, Y., Woo, J. J., Sun, Z., Assis, D. M., Kirsch, Z. J., Willetts, M., Albano, M., Liu, H., Pienta, K. J., Amend, S. R., et al. (2025) · Analytical Chemistry · doi:10.1021/acs.analchem.5c02808 · Cited by 9
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Liu, L., Li, W., Wang, F., Li, Y., Huang, L.-K., Wong, K., Yang, F., & Yao, J. (2025) · Nature Biomedical Engineering · doi:10.1038/s41551-025-01528-z · Cited by 26
Self-citationKoh, Y. W., Park, B., Jung, S. H., Han, J., Haam, S., & Lee, H. W. (2023) · Frontiers in Immunology · doi:10.3389/fimmu.2023.1137880 · Cited by 7
Ma, P., Miao, X., Li, M., Kong, X., Jiang, Y., Wang, P., Zhang, P., Shang, P., Chen, Y., Zhou, X., et al. (2023) · Environmental Toxicology · doi:10.1002/tox.23926 · Cited by 7
Self-citationGuan, S., Chen, X., Wei, Y., Wang, F., Xie, W., Chen, Y., Liang, H., Zhu, X., Yang, Y., Fang, W., et al. (2024) · Clinical Cancer Research · doi:10.1158/1078-0432.ccr-23-2357 · Cited by 7
Self-citationZheng, J.-M., Lou, C.-X., Huang, Y., Song, W., Luo, Y., Mo, G.-Y., Tan, L.-Y., Chen, S., & Li, B. (2024) · BMC Pulmonary Medicine · doi:10.1186/s12890-024-03059-w · Cited by 7
Automated Immunoprecipitation Workflow for Comprehensive Acetylome Analysis
Gritsenko, M. A., Tsai, C., Kim, H., & Liu, T. (2024) · Methods in molecular biology · doi:10.1007/978-1-0716-3922-1_12 · Cited by 7
Self-citationWang, J., Zhou, W., Xu, Y., Duan, J., Zhou, Q., Wang, G., Li, L., Xu, C., Wang, W., Cai, S., et al. (2024) · Science China Life Sciences · doi:10.1007/s11427-023-2554-y · Cited by 7
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Self-citationXing, X., Yang, F., Li, H., Zhang, J., Zhao, Y., Huang, J., Meng, M. Q. ‐., & Yao, J. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.12.03.409755 · Cited by 7
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Zheng, Y., Pizurica, M., Carrillo‐Pérez, F., Noor, H., Yao, W., Wohlfart, C., Kathleen Marchal, D., Vladimirova, A., & Gevaert, O. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.09.28.560068 · Cited by 7
Tanaka, A., Ogawa, M., Zhou, Y., Hendrickson, R. C., Miele, M. M., Li, Z., Klimstra, D. S., Wang, J. Y., & Roehrl, M. H. A. (2024) · npj Precision Oncology · doi:10.1038/s41698-024-00708-5 · Cited by 7
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Shang, J., He, J., Zhao, Y., Yang, J., Lin, Y., Zhang, N., Ren, L., Chen, Q., Yu, Y., Shi, L. M., et al. (2025) · Journal of Translational Medicine · doi:10.1186/s12967-025-06316-6 · Cited by 6
Self-citationQin, Z., Li, Y., Shao, X., Li, K., Bai, Y., Wang, B., Ma, F., Shi, W., Song, L., Zhuang, A., et al. (2025) · Cancer Letters · doi:10.1016/j.canlet.2025.217732 · Cited by 7
Self-citationSong, Z., Wang, Q., Xiong, H., Xiao, J., Zhou, Z., Li, T., Sun, Q., Qiu, L., Tan, Y., Liu, X., et al. (2025) · Journal of Nanobiotechnology · doi:10.1186/s12951-025-03404-z · Cited by 9
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Self-citation
Metadata
- Authors
- Gillette, M. A., Satpathy, S., Cao, S., Dhanasekaran, S. M., Vasaikar, S. V., Krug, K., Petralia, F., Li, Y., Liang, W.-W., Reva, B., Krek, A., Ji, J., Song, X., Liu, W., Hong, R., Yao, L., Blumenberg, L., Savage, S. R., Wendl, M. C., Wen, B., Li, K., Tang, L. C., MacMullan, M. A., Avanessian, S. C., Kane, M. H., Newton, C. J., Cornwell, M., Kothadia, R. B., Ma, W., Yoo, S., Mannan, R., Vats, P., Kumar-Sinha, C., Kawaler, E. A., Omelchenko, T., Colaprico, A., Geffen, Y., Maruvka, Y. E., da Veiga Leprevost, F., Wiznerowicz, M., Gümüş, Z. H., Veluswamy, R. R., Hostetter, G., Heiman, D. I., Wyczalkowski, M. A., Hiltke, T., Mesri, M., Kinsinger, C. R., Boja, E. S., Omenn, G. S., Chinnaiyan, A. M., Rodriguez, H., Li, Q. K., Jewell, S. D., Thiagarajan, M., Getz, G., Zhang, B., Fenyö, D., Ruggles, K. V., Cieslik, M. P., Robles, A. I., Clauser, K. R., Govindan, R., Wang, P., Nesvizhskii, A. I., Ding, L., Mani, D. R., Carr, S. A., Webster, A., Francis, A., Charamut, A., Paulovich, A. G., Perou, A. M., Godwin, A. K., Karnuta, A., Marrero-Oliveras, A., Hindenach, B., Pruetz, B., Kubisa, B., Druker, B. J., Birger, C., Jones, C. D., Valley, D. R., Rohrer, D. C., Zhou, D. C., Chan, D. W., Chesla, D., Clark, D. J., Rykunov, D., Tan, D., Ponomareva, E. V., Duffy, E., Burks, E. J., Schadt, E. E., Bergstrom, E. J., Fedorov, E. S., Malc, E., Wilson, G. D., Chen, H.-Q., Krzystek, H. M., Liu, H., Culpepper, H., Sun, H., Zhang, H., Day, J., Suh, J., Whiteaker, J. R., Eschbacher, J., McGee, J., Ketchum, K. A., Rodland, K. D., Robinson, K., Hoadley, K. A., Suzuki, K., Um, K. S., Elburn, K., Wang, L.-B., Chen, L., Hannick, L., Qi, L., Sokoll, L. J., Wojtyś, M., Domagalski, M. J., Gritsenko, M. A., Beasley, M. B., Monroe, M. E., Ellis, M. J., Dyer, M., Burke, M. C., Borucki, M., Sun, M.-H., Roehrl, M. H., Birrer, M. J., Noble, M., Schnaubelt, M., Vernon, M., Chaikin, M., Krotevich, M., Khan, M., Selvan, M. E., Roche, N., Edwards, N. J., Vatanian, N., Potapova, O., Grady, P., McGarvey, P. B., Mieczkowski, P., Hariharan, P., Madan, R., Thangudu, R. R., Smith, R. D., Welsh, R. J., Zelt, R., Mehra, R., Matteotti, R., Mareedu, S., Payne, S. H., Cottingham, S., Markey, S. P., Chugh, S., Smith, S., Tsang, S., Cai, S., Boca, S. M., Carter, S., Gabriel, S., De Young, S., Stein, S. E., Shankar, S., Krubit, T., Liu, T., Skelly, T., Bauer, T., Velvulou, U., Ozbek, U., Petyuk, V. A., Sovenko, V., Bocik, W. E., Maggio, W. W., Chen, X., Shi, Y., Wu, Y., Hu, Y., Liao, Y., Zhang, Z., & Shi, Z.
- Affiliations
- Broad Institute (US)
- Washington University in St. Louis (US)
- University of Michigan (US)
- The University of Texas MD Anderson Cancer Center (US)
- Icahn School of Medicine at Mount Sinai (US)
- Tisch Cancer Institute (US)
- New York University (US)
- Baylor College of Medicine (US)
- Van Andel Institute (US)
- Memorial Sloan Kettering Cancer Center (US)
- University of Miami (US)
- Poznan University of Medical Sciences (PL)
- National Cancer Institute (US)
- Johns Hopkins University (US)
- Frederick National Laboratory for Cancer Research (US)
- Corresponding author
- Gillette, Michael A.
- Satpathy, Shankha
- Carr, Steven A.
- ORCID
- Gillette, Michael A.
- Satpathy, Shankha
- Cao, Song
- Dhanasekaran, Saravana M.
- Vasaikar, Suhas V.
- Krug, Karsten
- Petralia, Francesca
- Li, Yize
- Liang, Wen-Wei
- Reva, Boris
- Krek, Azra
- Ji, Jiayi
- Song, Xiaoyu
- Liu, Wenke
- Hong, Runyu
- Blumenberg, Lili
- Savage, Sara R.
- Wendl, Michael C.
- Wen, Bo
- Li, Kai
- Tang, Lauren C.
- MacMullan, Melanie A.
- Avanessian, Shayan C.
- Kane, M. Harry
- Cornwell, MacIntosh
- Kothadia, Ramani B.
- Ma, Weiping
- Yoo, Seungyeul
- Mannan, Rahul
- Vats, Pankaj
- Kawaler, Emily A.
- Omelchenko, Tatiana
- Colaprico, Antonio
- Geffen, Yifat
- Maruvka, Yosef E.
- Wiznerowicz, Maciej
- Veluswamy, Rajwanth R.
- Hostetter, Galen
- Heiman, David I.
- Wyczalkowski, Matthew A.
- Hiltke, Tara
- Mesri, Mehdi
- Kinsinger, Christopher R.
- Boja, Emily S.
- Omenn, Gilbert S.
- Chinnaiyan, Arul M.
- Rodriguez, Henry
- Li, Qing Kay
- Jewell, Scott D.
- Thiagarajan, Mathangi
- Getz, Gad
- Zhang, Bing
- Fenyö, David
- Ruggles, Kelly V.
- Cieslik, Marcin P.
- Robles, Ana I.
- Clauser, Karl R.
- Govindan, Ramaswamy
- Wang, Pei
- Nesvizhskii, Alexey I.
- Ding, Li
- Mani, D.R.
- Carr, Steven A.
- Francis, Alicia
- Paulovich, Amanda G.
- Godwin, Andrew K.
- Kubisa, Bartosz
- Druker, Brian J.
- Jones, Corbin D.
- Rohrer, Daniel C.
- Zhou, Daniel Cui
- Chan, Daniel W.
- Clark, David J.
- Rykunov, Dmitry
- Duffy, Elizabeth
- Burks, Eric J.
- Schadt, Eric E.
- Bergstrom, Erik J.
- Malc, Ewa
- Wilson, George D.
- Liu, Hongwei
- Sun, Hua
- Zhang, Hui
- Suh, James
- Whiteaker, Jeffrey R.
- Ketchum, Karen A.
- Rodland, Karin D.
- Hoadley, Katherine A.
- Suzuki, Kei
- Wang, Liang-Bo
- Chen, Lijun
- Hannick, Linda
- Sokoll, Lori J.
- Wojtyś, Małgorzata
- Domagalski, Marcin J.
- Beasley, Mary B.
- Monroe, Matthew E.
- Ellis, Matthew J.
- Dyer, Maureen
- Burke, Meghan C.
- Roehrl, Michael H.
- Birrer, Michael J.
- Noble, Michael
- Schnaubelt, Michael
- Selvan, Myvizhi Esai
- Edwards, Nathan J.
- Potapova, Olga
- McGarvey, Peter B.
- Mieczkowski, Piotr
- Madan, Rashna
- Thangudu, Ratna R.
- Smith, Richard D.
- Mehra, Rohit
- Matteotti, Ronald
- Payne, Samuel H.
- Chugh, Seema
- Smith, Shaleigh
- Cai, Shuang
- Boca, Simina M.
- Gabriel, Stacey
- Stein, Stephen E.
- Shankar, Sunita
- Liu, Tao
- Petyuk, Vladislav A.
- Bocik, William E.
- Chen, Xi
- Shi, Yan
- Wu, Yige
- Hu, Yingwei
- Liao, Yuxing
- Zhang, Zhen
- Shi, Zhiao
- Venue
- Cell
- Publisher
- Elsevier BV
- Published
- 2020-07
- Volume
- 182
- Issue
- 1
- Pages
- 200-225.e35
- ISSN
- 0092-8674 (ISSN-L)
- PMC
- PMC7373300
- OpenAlex
- W3041397352
- Cited by
- 820
- References
- 260
- Citations by year
- 2026: 129 · 2025: 148 · 2024: 143 · 2023: 151 · 2022: 119 · 2021: 112 · 2020: 15
- FWCI
- 58.06
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- Cell (publishedVersion, cc-by-nc-nd)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- Digital Commons@Becker (Washington University School of Medicine) (submittedVersion, cc-by-nc-nd)
- Funders
- National Institutes of Health
- National Institute of Environmental Health Sciences
- Topics
- Health Sciences › Medicine › Pulmonary and Respiratory Medicine › Lung Cancer Treatments and Mutations
- Health Sciences › Medicine › Oncology › Lung Cancer Research Studies
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › Cancer Genomics and Diagnostics
- Keywords
- lung adenocarcinoma, proteogenomics, therapeutic vulnerabilities, KRAS, EGFR, anaplastic lymphoma kinase, STK11, neutrophil degranulation, smoking, field effect, copy number alterations, somatic mutations, protein expression signatures, multi-omics clustering
- MeSH terms
- Proteogenomics, Adenocarcinoma of Lung, Adult, Aged, Aged, 80 and over, Female, Humans, Lung Neoplasms, Male, Middle Aged, Mutation, Phenotype, Phosphoproteins, Biomarkers, Tumor, Oncogene Proteins, Fusion, DNA Methylation, Proteome, DNA Copy Number Variations, Carcinogenesis
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