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Journal Articles

Multi-omics Analysis Reveals Immune Features Associated with Immunotherapy Benefit in Patients with Squamous Cell Lung Cancer from Phase III Lung-MAP S1400I Trial

Edwin Roger Parra, Jiexin Zhang, Dzifa Yawa Duose, Edgar Gonzalez-Kozlova, Mary W. Redman, Hong Chen, Ganiraju C. Manyam, Gayatri Kumar, Jianhua Zhang, Xingzhi Song, Rossana Lazcano, Mario L. Marques-Piubelli, Caddie Laberiano-Fernandez, Frank Rojas, Baili Zhang, Len Taing, Aashna Jhaveri, Jacob Geisberg, Jennifer Altreuter, Franziska Michor, James Provencher, Joyce Yu, Ethan Cerami, Radim Moravec, Kasthuri Kannan, Rajyalakshmi Luthra, Gheath Alatrash, Hsin-Hui Huang, Hui Xie, Manishkumar Patel, Kai Nie, Jocelyn Harris, Kimberly Argueta, James Lindsay, Roshni Biswas, Stephen Van Nostrand, Seunghee Kim-Schulze, Jhanelle E. Gray, Roy S. Herbst, Ignacio I. Wistuba, Scott Gettinger, Karen Kelly, Lyudmila Bazhenova, Sacha Gnjatic, J. Jack Lee, Jianjun Zhang, Cara Haymaker
Journal: Clinical Cancer Research
Clin Cancer Res (2024) 30 (8): 1655–1668.
https://doi.org/10.1158/1078-0432.CCR-23-0251
Published: 15 April 2024
View article titled, Multi-omics Analysis Reveals Immune Features Associated with Immunotherapy Benefit in Patients with Squamous Cell Lung Cancer from Phase III Lung-MAP S1400I Trial
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Includes: Supplementary data
Journal Articles

ATM Mutations Associate with Distinct Co-Mutational Patterns and Therapeutic Vulnerabilities in NSCLC

Natalie I. Vokes, Ana Galan Cobo, Margarita Fernandez-Chas, David Molkentine, Santiago Treviño, III, Vitaly Druker, Yu Qian, Sonia Patel, Stephanie Schmidt, Lingzhi Hong, Jeff Lewis, Waree Rinsurongkawong, Vadeerat Rinsurongkawong, J. Jack Lee, Marcelo V. Negrao, Don L. Gibbons, Ara Vaporciyan, Xiuning Le, Jia Wu, Jianjun Zhang, Una Rigney, Sonia Iyer, Emma Dean, John V. Heymach
Journal: Clinical Cancer Research
Clin Cancer Res (2023) 29 (23): 4958–4972.
https://doi.org/10.1158/1078-0432.CCR-23-1122
Published: 01 December 2023
View article titled, <em>ATM</em> Mutations Associate with Distinct Co-Mutational Patterns and Therapeutic Vulnerabilities in NSCLC
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Includes: Supplementary data
Journal Articles

Clinical and Molecular Features of Long-term Response to Immune Checkpoint Inhibitors in Patients with Advanced Non–Small Cell Lung Cancer

Rohit Thummalapalli, Biagio Ricciuti, Chaitanya Bandlamudi, Daniel Muldoon, Hira Rizvi, Arielle Elkrief, Jia Luo, Joao V. Alessi, Federica Pecci, Giuseppe Lamberti, Alessandro Di Federico, Lingzhi Hong, Jianjun Zhang, John V. Heymach, Don L. Gibbons, Andrew J. Plodkowski, Vignesh Ravichandran, Mark T.A. Donoghue, Chad Vanderbilt, Marc Ladanyi, Charles M. Rudin, Mark G. Kris, Gregory J. Riely, Jamie E. Chaft, Matthew D. Hellmann, Natalie I. Vokes, Mark M. Awad, Adam J. Schoenfeld
Journal: Clinical Cancer Research
Clin Cancer Res (2023) 29 (21): 4408–4418.
https://doi.org/10.1158/1078-0432.CCR-23-1207
Published: 01 November 2023
View article titled, Clinical and Molecular Features of Long-term Response to Immune Checkpoint Inhibitors in Patients with Advanced Non–Small Cell Lung Cancer
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Includes: Supplementary data
Journal Articles

T-Cell Receptor Repertoire Sequencing in the Era of Cancer Immunotherapy

Meredith L. Frank, Kaylene Lu, Can Erdogan, Yi Han, Jian Hu, Tao Wang, John V. Heymach, Jianjun Zhang, Alexandre Reuben
Journal: Clinical Cancer Research
Clin Cancer Res (2023) 29 (6): 994–1008.
https://doi.org/10.1158/1078-0432.CCR-22-2469
Published: 14 March 2023
View article titled, T-Cell Receptor Repertoire Sequencing in the Era of Cancer Immunotherapy
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Journal Articles

First-in-Maintenance Therapy for Localized High-Grade Osteosarcoma: An Open-Label Phase I/II Trial of the Anti–PD-L1 Antibody ZKAB001

Yan Zhou, Qingcheng Yang, Yang Dong, Tong Ji, Bing Zhang, Cheng Yang, Shuier Zheng, Lina Tang, Chenliang Zhou, Guowei Qian, Yujing Huang, Wenxi Yu, Hongtao Li, Yonggang Wang, Aina He, Zan Shen, Qiyuan Bao, Yingqi Hua, Hongyu Bai, Jiayi Zhao, Xiaoyi Li, Xiangrong Dai, Jianjun Zhang, Haiyan Hu, Yang Yao
Journal: Clinical Cancer Research
Clin Cancer Res (2023) 29 (4): 764–774.
https://doi.org/10.1158/1078-0432.CCR-22-2470
Published: 16 February 2023
View article titled, First-in-Maintenance Therapy for Localized High-Grade Osteosarcoma: An Open-Label Phase I/II Trial of the Anti–PD-L1 Antibody ZKAB001
Open the PDF for First-in-Maintenance Therapy for Localized High-Grade Osteosarcoma: An Open-Label Phase I/II Trial of the Anti–PD-L1 Antibody ZKAB001 in another window
Includes: Supplementary data
Journal Articles

Activation of PI3K/AKT Pathway Is a Potential Mechanism of Treatment Resistance in Small Cell Lung Cancer

Ying Jin, Yamei Chen, Huarong Tang, Xiao Hu, Shawna M. Hubert, Qian Li, Dan Su, Haimiao Xu, Yun Fan, Xinmin Yu, Qixun Chen, Jinshi Liu, Wei Hong, Yujin Xu, Huan Deng, Dapeng Zhu, Pansong Li, Yuhua Gong, Xuefeng Xia, Carl M. Gay, Jianjun Zhang, Ming Chen
Journal: Clinical Cancer Research
Clin Cancer Res (2022) 28 (3): 526–539.
https://doi.org/10.1158/1078-0432.CCR-21-1943
Published: 01 February 2022
View article titled, Activation of PI3K/AKT Pathway Is a Potential Mechanism of Treatment Resistance in Small Cell Lung Cancer
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Includes: Supplementary data
Journal Articles

Cross-Site Concordance Evaluation of Tumor DNA and RNA Sequencing Platforms for the CIMAC-CIDC Network

Zexian Zeng, Jingxin Fu, Carrie Cibulskis, Aashna Jhaveri, Curtis Gumbs, Biswajit Das, Beatriz Sanchez-Espiridion, Sylvie Janssens, Len Taing, Jin Wang, James Lindsay, Tomas Vilimas, Jianhua Zhang, Collin Tokheim, Avinash Sahu, Peng Jiang, Chunhua Yan, Dzifa Yawa Duose, Ethan Cerami, Li Chen, David Cohen, Qingrong Chen, Rebecca Enos, Xin Huang, Jack J. Lee, Yang Liu, Donna S. Neuberg, Cu Nguyen, Candace Patterson, Sharmistha Sarkar, Sachet Shukla, Ming Tang, Junko Tsuji, Mohamed Uduman, Xiaoman Wang, Jason L. Weirather, Jijun Yu, Joyce Yu, Jianjun Zhang, Jiexin Zhang, Daoud Meerzaman, Magdalena Thurin, Andrew Futreal, Chris Karlovich, Stacey B. Gabriel, Ignacio Ivan Wistuba, X. Shirley Liu, Catherine J. Wu
Journal: Clinical Cancer Research
Series: Author Choice
Clin Cancer Res (2021) 27 (18): 5049–5061.
https://doi.org/10.1158/1078-0432.CCR-20-3251
Published: 15 September 2021
View article titled, Cross-Site Concordance Evaluation of Tumor DNA and RNA Sequencing Platforms for the CIMAC-CIDC Network
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Includes: Supplementary data
Journal Articles

STK11/LKB1 Mutations in NSCLC Are Associated with KEAP1/NRF2-Dependent Radiotherapy Resistance Targetable by Glutaminase Inhibition

Piyada Sitthideatphaiboon, Ana Galan-Cobo, Marcelo V. Negrao, Xiao Qu, Alissa Poteete, Fahao Zhang, Diane D. Liu, Whitney E. Lewis, Haley N. Kemp, Jeff Lewis, Waree Rinsurongkawong, Uma Giri, J. Jack Lee, Jianjun Zhang, Jack A. Roth, Stephen Swisher, John V. Heymach
Journal: Clinical Cancer Research
Clin Cancer Res (2021) 27 (6): 1720–1733.
https://doi.org/10.1158/1078-0432.CCR-20-2859
Published: 15 March 2021
View article titled, <em>STK11</em>/LKB1 Mutations in NSCLC Are Associated with KEAP1/NRF2-Dependent Radiotherapy Resistance Targetable by Glutaminase Inhibition
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Includes: Supplementary data
Journal Articles

Evolution of Genomic and T-cell Repertoire Heterogeneity of Malignant Pleural Mesothelioma Under Dasatinib Treatment

Runzhe Chen, Won-Chul Lee, Junya Fujimoto, Jun Li, Xin Hu, Reza Mehran, David Rice, Stephen G. Swisher, Boris Sepesi, Hai T. Tran, Chi-Wan Chow, Latasha D. Little, Curtis Gumbs, Cara Haymaker, John V. Heymach, Ignacio I. Wistuba, J. Jack Lee, P. Andrew Futreal, Jianhua Zhang, Alexandre Reuben, Anne S. Tsao, Jianjun Zhang
Journal: Clinical Cancer Research
Series: Author Choice
Clin Cancer Res (2020) 26 (20): 5477–5486.
https://doi.org/10.1158/1078-0432.CCR-20-1767
Published: 15 October 2020
View article titled, Evolution of Genomic and T-cell Repertoire Heterogeneity of Malignant Pleural Mesothelioma Under Dasatinib Treatment
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Includes: Supplementary data
Journal Articles

A Phase I/II Study of Neoadjuvant Cisplatin, Docetaxel, and Nintedanib for Resectable Non–Small Cell Lung Cancer

Tina Cascone, Boris Sepesi, Heather Y. Lin, Neda Kalhor, Edwin R. Parra, Mei Jiang, Myrna C.B. Godoy, Jianjun Zhang, Frank V. Fossella, Anne S. Tsao, Vincent K. Lam, Charles Lu, Frank E. Mott, George R. Simon, Mara B. Antonoff, Reza J. Mehran, David C. Rice, Carmen Behrens, Annikka Weissferdt, Cesar Moran, Ara A. Vaporciyan, J. Jack Lee, Stephen G. Swisher, Don L. Gibbons, Ignacio I. Wistuba, William N. William, Jr., John V. Heymach
Journal: Clinical Cancer Research
Series: Author Choice
Clin Cancer Res (2020) 26 (14): 3525–3536.
https://doi.org/10.1158/1078-0432.CCR-19-4180
Published: 15 July 2020
View article titled, A Phase I/II Study of Neoadjuvant Cisplatin, Docetaxel, and Nintedanib for Resectable Non–Small Cell Lung Cancer
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Includes: Supplementary data
Journal Articles

Multifactorial Deep Learning Reveals Pan-Cancer Genomic Tumor Clusters with Distinct Immunogenomic Landscape and Response to Immunotherapy

Feng Xie, Jianjun Zhang, Jiayin Wang, Alexandre Reuben, Wei Xu, Xin Yi, Frederick S. Varn, Yongsheng Ye, Junwen Cheng, Miao Yu, Yue Wang, Yufeng Liu, Mingchao Xie, Peng Du, Ke Ma, Xin Ma, Penghui Zhou, Shengli Yang, Yaobing Chen, Guoping Wang, Xuefeng Xia, Zhongxing Liao, John V. Heymach, Ignacio I. Wistuba, P. Andrew Futreal, Kai Ye, Chao Cheng, Tian Xia
Journal: Clinical Cancer Research
Clin Cancer Res (2020) 26 (12): 2908–2920.
https://doi.org/10.1158/1078-0432.CCR-19-1744
Published: 15 June 2020
View article titled, Multifactorial Deep Learning Reveals Pan-Cancer Genomic Tumor Clusters with Distinct Immunogenomic Landscape and Response to Immunotherapy
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Includes: Supplementary data
Journal Articles

The Prognostic and Therapeutic Role of Genomic Subtyping by Sequencing Tumor or Cell-Free DNA in Pulmonary Large-Cell Neuroendocrine Carcinoma

Minglei Zhuo, Yanfang Guan, Xue Yang, Lingzhi Hong, Yuqi Wang, Zhongwu Li, Runzhe Chen, Hussein A. Abbas, Lianpeng Chang, Yuhua Gong, Nan Wu, Jia Zhong, Wenting Chen, Hanxiao Chen, Zhi Dong, Xiang Zhu, Jianjie Li, Yuyan Wang, Tongtong An, Meina Wu, Ziping Wang, Jiayin Wang, Emily B. Roarty, Waree Rinsurongkawong, Jeff Lewis, Jack A. Roth, Stephen G. Swisher, J. Jack Lee, John V. Heymach, Ignacio I. Wistuba, Neda Kalhor, Ling Yang, Xin Yi, P. Andrew Futreal, Bonnie S. Glisson, Xuefeng Xia, Jianjun Zhang, Jun Zhao
Journal: Clinical Cancer Research
Clin Cancer Res (2020) 26 (4): 892–901.
https://doi.org/10.1158/1078-0432.CCR-19-0556
Published: 14 February 2020
View article titled, The Prognostic and Therapeutic Role of Genomic Subtyping by Sequencing Tumor or Cell-Free DNA in Pulmonary Large-Cell Neuroendocrine Carcinoma
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Includes: Supplementary data
Journal Articles

Landscape of EGFR-Dependent and -Independent Resistance Mechanisms to Osimertinib and Continuation Therapy Beyond Progression in EGFR-Mutant NSCLC

Xiuning Le, Sonam Puri, Marcelo V. Negrao, Monique B. Nilsson, Jacqulyne Robichaux, Theresa Boyle, J. Kevin Hicks, Katherine L. Lovinger, Emily Roarty, Waree Rinsurongkawong, Ming Tang, Huiying Sun, Yasir Elamin, Lara C. Lacerda, Jeff Lewis, Jack A. Roth, Stephen G. Swisher, J. Jack Lee, William N. William, Jr, Bonnie S. Glisson, Jianjun Zhang, Vassiliki A. Papadimitrakopoulou, Jhanelle E. Gray, John V. Heymach
Journal: Clinical Cancer Research
Clin Cancer Res (2018) 24 (24): 6195–6203.
https://doi.org/10.1158/1078-0432.CCR-18-1542
Published: 13 December 2018
View article titled, Landscape of EGFR-Dependent and -Independent Resistance Mechanisms to Osimertinib and Continuation Therapy Beyond Progression in <em>EGFR</em>-Mutant NSCLC
Open the PDF for Landscape of EGFR-Dependent and -Independent Resistance Mechanisms to Osimertinib and Continuation Therapy Beyond Progression in <em>EGFR</em>-Mutant NSCLC in another window
Includes: Supplementary data
Journal Articles

Abstract IA35: Immune contexture evolution during lung cancer carcinogenesis and its potential clinical implications

Jianjun Zhang
Journal: Clinical Cancer Research
Clin Cancer Res (2018) 24 (17_Supplement): IA35.
https://doi.org/10.1158/1557-3265.AACRIASLC18-IA35
Published: 01 September 2018
View article titled, Abstract IA35: Immune contexture evolution during lung cancer carcinogenesis and its potential clinical implications
Journal Articles

Image Analysis–based Assessment of PD-L1 and Tumor-Associated Immune Cells Density Supports Distinct Intratumoral Microenvironment Groups in Non–small Cell Lung Carcinoma Patients

Edwin R. Parra, Carmen Behrens, Jaime Rodriguez-Canales, Heather Lin, Barbara Mino, Jorge Blando, Jianjun Zhang, Don L. Gibbons, John V. Heymach, Boris Sepesi, Stephen G. Swisher, Annikka Weissferdt, Neda Kalhor, Julie Izzo, Humam Kadara, Cesar Moran, Jack J. Lee, Ignacio I. Wistuba
Journal: Clinical Cancer Research
Clin Cancer Res (2016) 22 (24): 6278–6289.
https://doi.org/10.1158/1078-0432.CCR-15-2443
Published: 15 December 2016
View article titled, Image Analysis–based Assessment of PD-L1 and Tumor-Associated Immune Cells Density Supports Distinct Intratumoral Microenvironment Groups in Non–small Cell Lung Carcinoma Patients
Open the PDF for Image Analysis–based Assessment of PD-L1 and Tumor-Associated Immune Cells Density Supports Distinct Intratumoral Microenvironment Groups in Non–small Cell Lung Carcinoma Patients in another window
Includes: Supplementary data