bluuebunny/crossref_metadata_2025 huggingface dataset:
Key Resources Tables from A CRISPR/Cas9-Engineered ARID1A-Deficient Human Gastric Cancer Organoid Model Reveals Essential and Nonessential Modes of Oncogenic Transformation
Authors: Lo Yuan-Hung , Kolahi Kevin S. , Du Yuhong , Chang Chiung-Ying , Krokhotin Andrey , Nair Ajay , Sobba Walter D. , Karlsson Kasper , Jones Sunny J. , Longacre Teri A. , Mah Amanda T. , Tercan Bahar , Sockell Alexandra , Xu Hang , Seoane Jose A. , Chen Jin , Shmulevich Ilya , Weissman Jonathan S. , Curtis Christina , Califano Andrea , Fu Haian , Crabtree Gerald R. , Kuo Calvin J.
Published: April 2023

Key Resources Tables
Supp Table 1 from Tumor Microenvironment–Derived R-spondins Enhance Antitumor Immunity to Suppress Tumor Growth and Sensitize for Immune Checkpoint Blockade Therapy
Authors: Tang Yuting , Xu Qian , Hu Liang , Yan Xiaomei , Feng Xiaomin , Yokota Asumi , Wang Weinan , Zhan Di , Krishnamurthy Durga , Ochayon David E. , Wen Lijun , Huo Li , Zeng Huimin , Luo Yingwan , Huang L. Frank , Wunderlich Mark , Zhang Jiwang , Vivier Eric , Zhou Jianfeng , Waggoner Stephen N. , Huang Gang
Published: April 2023

TCGA abbreviation and Wnt signaling components
Supplementary Figure from INK4 Tumor Suppressor Proteins Mediate Resistance to CDK4/6 Kinase Inhibitors
Authors: Li Qing , Jiang Baishan , Guo Jiaye , Shao Hong , Del Priore Isabella S. , Chang Qing , Kudo Rei , Li Zhiqiang , Razavi Pedram , Liu Bo , Boghossian Andrew S. , Rees Matthew G. , Ronan Melissa M. , Roth Jennifer A. , Donovan Katherine A. , Palafox Marta , Reis-Filho Jorge S. , de Stanchina Elisa , Fischer Eric S. , Rosen Neal , Serra Violeta , Koff Andrew , Chodera John D. , Gray Nathanael S. , Chandarlapaty Sarat
Published: April 2023

Supplementary Figure from INK4 Tumor Suppressor Proteins Mediate Resistance to CDK4/6 Kinase Inhibitors
Supplementary Table from AKT Degradation Selectively Inhibits the Growth of PI3K/PTEN Pathway–Mutant Cancers with Wild-Type KRAS and BRAF by Destabilizing Aurora Kinase B
Authors: Xu Jia , Yu Xufen , Martin Tiphaine C. , Bansal Ankita , Cheung Kakit , Lubin Abigail , Stratikopoulos Elias , Cahuzac Kaitlyn M. , Wang Li , Xie Ling , Zhou Royce , Shen Yudao , Wu Xuewei , Yao Shen , Qiao Ruifang , Poulikakos Poulikos I. , Chen Xian , Liu Jing , Jin Jian , Parsons Ramon
Published: April 2023

Supplementary Table from AKT Degradation Selectively Inhibits the Growth of PI3K/PTEN Pathway–Mutant Cancers with Wild-Type KRAS and BRAF by Destabilizing Aurora Kinase B
Supplementary Figure from AKT Degradation Selectively Inhibits the Growth of PI3K/PTEN Pathway–Mutant Cancers with Wild-Type KRAS and BRAF by Destabilizing Aurora Kinase B
Authors: Xu Jia , Yu Xufen , Martin Tiphaine C. , Bansal Ankita , Cheung Kakit , Lubin Abigail , Stratikopoulos Elias , Cahuzac Kaitlyn M. , Wang Li , Xie Ling , Zhou Royce , Shen Yudao , Wu Xuewei , Yao Shen , Qiao Ruifang , Poulikakos Poulikos I. , Chen Xian , Liu Jing , Jin Jian , Parsons Ramon
Published: April 2023

Supplementary Figure from AKT Degradation Selectively Inhibits the Growth of PI3K/PTEN Pathway–Mutant Cancers with Wild-Type KRAS and BRAF by Destabilizing Aurora Kinase B
Supplementary Data from AKT Degradation Selectively Inhibits the Growth of PI3K/PTEN Pathway–Mutant Cancers with Wild-Type KRAS and BRAF by Destabilizing Aurora Kinase B
Authors: Xu Jia , Yu Xufen , Martin Tiphaine C. , Bansal Ankita , Cheung Kakit , Lubin Abigail , Stratikopoulos Elias , Cahuzac Kaitlyn M. , Wang Li , Xie Ling , Zhou Royce , Shen Yudao , Wu Xuewei , Yao Shen , Qiao Ruifang , Poulikakos Poulikos I. , Chen Xian , Liu Jing , Jin Jian , Parsons Ramon
Published: April 2023

Supplementary Data from AKT Degradation Selectively Inhibits the Growth of PI3K/PTEN Pathway–Mutant Cancers with Wild-Type KRAS and BRAF by Destabilizing Aurora Kinase B
Supplementary Figures S1-S10 from Comprehensive Genomic and Transcriptomic Analysis for Guiding Therapeutic Decisions in Patients with Rare Cancers
Authors: Horak Peter , Heining Christoph , Kreutzfeldt Simon , Hutter Barbara , Mock Andreas , Hüllein Jennifer , Fröhlich Martina , Uhrig Sebastian , Jahn Arne , Rump Andreas , Gieldon Laura , Möhrmann Lino , Hanf Dorothea , Teleanu Veronica , Heilig Christoph E. , Lipka Daniel B. , Allgäuer Michael , Ruhnke Leo , Laßmann Andreas , Endris Volker , Neumann Olaf , Penzel Roland , Beck Katja , Richter Daniela , Winter Ulrike , Wolf Stephan , Pfütze Katrin , Geörg Christina , Meißburger Bettina , Buchhalter Ivo , Augustin Marinela , Aulitzky Walter E. , Hohenberger Peter , Kroiss Matthias , Schirmacher Peter , Schlenk Richard F. , Keilholz Ulrich , Klauschen Frederick , Folprecht Gunnar , Bauer Sebastian , Siveke Jens Thomas , Brandts Christian H. , Kindler Thomas , Boerries Melanie , Illert Anna L. , von Bubnoff Nikolas , Jost Philipp J. , Spiekermann Karsten , Bitzer Michael , Schulze-Osthoff Klaus , von Kalle Christof , Klink Barbara , Brors Benedikt , Stenzinger Albrecht , Schröck Evelin , Hübschmann Daniel , Weichert Wilko , Glimm Hanno , Fröhling Stefan
Published: April 2023

This file contains supplementary figures S1-S10.
Table S7 from Combined Inhibition of SHP2 and CXCR1/2 Promotes Antitumor T-cell Response in NSCLC
Authors: Tang Kwan Ho , Li Shuai , Khodadadi-Jamayran Alireza , Jen Jayu , Han Han , Guidry Kayla , Chen Ting , Hao Yuan , Fedele Carmine , Zebala John A. , Maeda Dean Y. , Christensen James G. , Olson Peter , Athanas Argus , Loomis Cynthia A. , Tsirigos Aristotelis , Wong Kwok-Kin , Neel Benjamin G.
Published: April 2023

Table S7
Table S2 from Combined Inhibition of SHP2 and CXCR1/2 Promotes Antitumor T-cell Response in NSCLC
Authors: Tang Kwan Ho , Li Shuai , Khodadadi-Jamayran Alireza , Jen Jayu , Han Han , Guidry Kayla , Chen Ting , Hao Yuan , Fedele Carmine , Zebala John A. , Maeda Dean Y. , Christensen James G. , Olson Peter , Athanas Argus , Loomis Cynthia A. , Tsirigos Aristotelis , Wong Kwok-Kin , Neel Benjamin G.
Published: April 2023

Table S2
Table S1_3to6 from Combined Inhibition of SHP2 and CXCR1/2 Promotes Antitumor T-cell Response in NSCLC
Authors: Tang Kwan Ho , Li Shuai , Khodadadi-Jamayran Alireza , Jen Jayu , Han Han , Guidry Kayla , Chen Ting , Hao Yuan , Fedele Carmine , Zebala John A. , Maeda Dean Y. , Christensen James G. , Olson Peter , Athanas Argus , Loomis Cynthia A. , Tsirigos Aristotelis , Wong Kwok-Kin , Neel Benjamin G.
Published: April 2023

Table S1, S3, S4, S5, S6
Supplementary Figure S3 from Genomes for Kids: The Scope of Pathogenic Mutations in Pediatric Cancer Revealed by Comprehensive DNA and RNA Sequencing
Authors: Newman Scott , Nakitandwe Joy , Kesserwan Chimene A. , Azzato Elizabeth M. , Wheeler David A. , Rusch Michael , Shurtleff Sheila , Hedges Dale J. , Hamilton Kayla V. , Foy Scott G. , Edmonson Michael N. , Thrasher Andrew , Bahrami Armita , Orr Brent A. , Klco Jeffery M. , Gu Jiali , Harrison Lynn W. , Wang Lu , Clay Michael R. , Ouma Annastasia , Silkov Antonina , Liu Yanling , Zhang Zhaojie , Liu Yu , Brady Samuel W. , Zhou Xin , Chang Ti-Cheng , Pande Manjusha , Davis Eric , Becksfort Jared , Patel Aman , Wilkinson Mark R. , Rahbarinia Delaram , Kubal Manish , Maciaszek Jamie L. , Pastor Victor , Knight Jay , Gout Alexander M. , Wang Jian , Gu Zhaohui , Mullighan Charles G. , McGee Rose B. , Quinn Emily A. , Nuccio Regina , Mostafavi Roya , Gerhardt Elsie L. , Taylor Leslie M. , Valdez Jessica M. , Hines-Dowell Stacy J. , Pappo Alberto S. , Robinson Giles , Johnson Liza-Marie , Pui Ching-Hon , Ellison David W. , Downing James R. , Zhang Jinghui , Nichols Kim E.
Published: April 2023

Supplementary Figure S3
Supplementary Figure S1 from Genomes for Kids: The Scope of Pathogenic Mutations in Pediatric Cancer Revealed by Comprehensive DNA and RNA Sequencing
Authors: Newman Scott , Nakitandwe Joy , Kesserwan Chimene A. , Azzato Elizabeth M. , Wheeler David A. , Rusch Michael , Shurtleff Sheila , Hedges Dale J. , Hamilton Kayla V. , Foy Scott G. , Edmonson Michael N. , Thrasher Andrew , Bahrami Armita , Orr Brent A. , Klco Jeffery M. , Gu Jiali , Harrison Lynn W. , Wang Lu , Clay Michael R. , Ouma Annastasia , Silkov Antonina , Liu Yanling , Zhang Zhaojie , Liu Yu , Brady Samuel W. , Zhou Xin , Chang Ti-Cheng , Pande Manjusha , Davis Eric , Becksfort Jared , Patel Aman , Wilkinson Mark R. , Rahbarinia Delaram , Kubal Manish , Maciaszek Jamie L. , Pastor Victor , Knight Jay , Gout Alexander M. , Wang Jian , Gu Zhaohui , Mullighan Charles G. , McGee Rose B. , Quinn Emily A. , Nuccio Regina , Mostafavi Roya , Gerhardt Elsie L. , Taylor Leslie M. , Valdez Jessica M. , Hines-Dowell Stacy J. , Pappo Alberto S. , Robinson Giles , Johnson Liza-Marie , Pui Ching-Hon , Ellison David W. , Downing James R. , Zhang Jinghui , Nichols Kim E.
Published: April 2023

Supplementary Figure S1
Table S6 from Chemotherapy Induces Senescence-Like Resilient Cells Capable of Initiating AML Recurrence
Authors: Duy Cihangir , Li Meng , Teater Matt , Meydan Cem , Garrett-Bakelman Francine E. , Lee Tak C. , Chin Christopher R. , Durmaz Ceyda , Kawabata Kimihito C. , Dhimolea Eugen , Mitsiades Constantine S. , Doehner Hartmut , D'Andrea Richard J. , Becker Michael W. , Paietta Elisabeth M. , Mason Christopher E. , Carroll Martin , Melnick Ari M.
Published: April 2023

Network analysis
Table S5 from Chemotherapy Induces Senescence-Like Resilient Cells Capable of Initiating AML Recurrence
Authors: Duy Cihangir , Li Meng , Teater Matt , Meydan Cem , Garrett-Bakelman Francine E. , Lee Tak C. , Chin Christopher R. , Durmaz Ceyda , Kawabata Kimihito C. , Dhimolea Eugen , Mitsiades Constantine S. , Doehner Hartmut , D'Andrea Richard J. , Becker Michael W. , Paietta Elisabeth M. , Mason Christopher E. , Carroll Martin , Melnick Ari M.
Published: April 2023

CISG log2 diff.reg. vs mean control
Table S4 from Chemotherapy Induces Senescence-Like Resilient Cells Capable of Initiating AML Recurrence
Authors: Duy Cihangir , Li Meng , Teater Matt , Meydan Cem , Garrett-Bakelman Francine E. , Lee Tak C. , Chin Christopher R. , Durmaz Ceyda , Kawabata Kimihito C. , Dhimolea Eugen , Mitsiades Constantine S. , Doehner Hartmut , D'Andrea Richard J. , Becker Michael W. , Paietta Elisabeth M. , Mason Christopher E. , Carroll Martin , Melnick Ari M.
Published: April 2023

Top10 DEGs in scRNA-seq clusters
Table S3 from Chemotherapy Induces Senescence-Like Resilient Cells Capable of Initiating AML Recurrence
Authors: Duy Cihangir , Li Meng , Teater Matt , Meydan Cem , Garrett-Bakelman Francine E. , Lee Tak C. , Chin Christopher R. , Durmaz Ceyda , Kawabata Kimihito C. , Dhimolea Eugen , Mitsiades Constantine S. , Doehner Hartmut , D'Andrea Richard J. , Becker Michael W. , Paietta Elisabeth M. , Mason Christopher E. , Carroll Martin , Melnick Ari M.
Published: April 2023

scRNA-seq DEGs of sorted AraC-induced senescence-like cells vs untreated control cells
Supplementary Table S7 from Gut Microbiome Directs Hepatocytes to Recruit MDSCs and Promote Cholangiocarcinoma
Authors: Zhang Qianfei , Ma Chi , Duan Yi , Heinrich Bernd , Rosato Umberto , Diggs Laurence P. , Ma Lichun , Roy Soumen , Fu Qiong , Brown Zachary J. , Wabitsch Simon , Thovarai Vishal , Fu Jianyang , Feng Dechun , Ruf Benjamin , Cui Linda L. , Subramanyam Varun , Frank Karen M. , Wang Sophie , Kleiner David E. , Ritz Thomas , Rupp Christian , Gao Bin , Longerich Thomas , Kroemer Alexander , Wang Xin Wei , Ruchirawat Mathuros , Korangy Firouzeh , Schnabl Bernd , Trinchieri Giorgio , Greten Tim F.
Published: April 2023

Control and cirrhosis patients
Supplementary Table S5 from Gut Microbiome Directs Hepatocytes to Recruit MDSCs and Promote Cholangiocarcinoma
Authors: Zhang Qianfei , Ma Chi , Duan Yi , Heinrich Bernd , Rosato Umberto , Diggs Laurence P. , Ma Lichun , Roy Soumen , Fu Qiong , Brown Zachary J. , Wabitsch Simon , Thovarai Vishal , Fu Jianyang , Feng Dechun , Ruf Benjamin , Cui Linda L. , Subramanyam Varun , Frank Karen M. , Wang Sophie , Kleiner David E. , Ritz Thomas , Rupp Christian , Gao Bin , Longerich Thomas , Kroemer Alexander , Wang Xin Wei , Ruchirawat Mathuros , Korangy Firouzeh , Schnabl Bernd , Trinchieri Giorgio , Greten Tim F.
Published: April 2023

PSC patients information
Supplementary Table S4 from Gut Microbiome Directs Hepatocytes to Recruit MDSCs and Promote Cholangiocarcinoma
Authors: Zhang Qianfei , Ma Chi , Duan Yi , Heinrich Bernd , Rosato Umberto , Diggs Laurence P. , Ma Lichun , Roy Soumen , Fu Qiong , Brown Zachary J. , Wabitsch Simon , Thovarai Vishal , Fu Jianyang , Feng Dechun , Ruf Benjamin , Cui Linda L. , Subramanyam Varun , Frank Karen M. , Wang Sophie , Kleiner David E. , Ritz Thomas , Rupp Christian , Gao Bin , Longerich Thomas , Kroemer Alexander , Wang Xin Wei , Ruchirawat Mathuros , Korangy Firouzeh , Schnabl Bernd , Trinchieri Giorgio , Greten Tim F.
Published: April 2023

Predicted risk group (BRBarray)_LMedits
Supplementary Table S3 from Gut Microbiome Directs Hepatocytes to Recruit MDSCs and Promote Cholangiocarcinoma
Authors: Zhang Qianfei , Ma Chi , Duan Yi , Heinrich Bernd , Rosato Umberto , Diggs Laurence P. , Ma Lichun , Roy Soumen , Fu Qiong , Brown Zachary J. , Wabitsch Simon , Thovarai Vishal , Fu Jianyang , Feng Dechun , Ruf Benjamin , Cui Linda L. , Subramanyam Varun , Frank Karen M. , Wang Sophie , Kleiner David E. , Ritz Thomas , Rupp Christian , Gao Bin , Longerich Thomas , Kroemer Alexander , Wang Xin Wei , Ruchirawat Mathuros , Korangy Firouzeh , Schnabl Bernd , Trinchieri Giorgio , Greten Tim F.
Published: April 2023

TLR4 signature genes
Supplementary Table S2 from Gut Microbiome Directs Hepatocytes to Recruit MDSCs and Promote Cholangiocarcinoma
Authors: Zhang Qianfei , Ma Chi , Duan Yi , Heinrich Bernd , Rosato Umberto , Diggs Laurence P. , Ma Lichun , Roy Soumen , Fu Qiong , Brown Zachary J. , Wabitsch Simon , Thovarai Vishal , Fu Jianyang , Feng Dechun , Ruf Benjamin , Cui Linda L. , Subramanyam Varun , Frank Karen M. , Wang Sophie , Kleiner David E. , Ritz Thomas , Rupp Christian , Gao Bin , Longerich Thomas , Kroemer Alexander , Wang Xin Wei , Ruchirawat Mathuros , Korangy Firouzeh , Schnabl Bernd , Trinchieri Giorgio , Greten Tim F.
Published: April 2023

Key Resources Table
Table S1 from MET Amplification Attenuates Lung Tumor Response to Immunotherapy by Inhibiting STING
Authors: Zhang Yong , Yang Qifan , Zeng Xiangyu , Wang Manxiang , Dong Shuang , Yang Bin , Tu Xinyi , Wei Ting , Xie Wenzhuan , Zhang Chao , Guo Qiang , Kloeber Jake A. , Cao Yueyu , Guo Guijie , Zhou Qin , Zhao Fei , Huang Jinzhou , Liu Li , Zhang Kai , Wang Mingwei , Yin Ping , Luo Kuntian , Deng Min , Kim Wootae , Hou Jing , Shi Yu , Zhu Qian , Chen Lifeng , Hu Sheng , Yue Junqiu , Pi Guoliang , Lou Zhenkun
Published: April 2023

Baseline characteristics of patients
Supplementary Methods from MET Amplification Attenuates Lung Tumor Response to Immunotherapy by Inhibiting STING
Authors: Zhang Yong , Yang Qifan , Zeng Xiangyu , Wang Manxiang , Dong Shuang , Yang Bin , Tu Xinyi , Wei Ting , Xie Wenzhuan , Zhang Chao , Guo Qiang , Kloeber Jake A. , Cao Yueyu , Guo Guijie , Zhou Qin , Zhao Fei , Huang Jinzhou , Liu Li , Zhang Kai , Wang Mingwei , Yin Ping , Luo Kuntian , Deng Min , Kim Wootae , Hou Jing , Shi Yu , Zhu Qian , Chen Lifeng , Hu Sheng , Yue Junqiu , Pi Guoliang , Lou Zhenkun
Published: April 2023

Supplementary Methods
Supplemental Table 1 Legend from PTHrP Drives Pancreatic Cancer Growth and Metastasis and Reveals a New Therapeutic Vulnerability
Authors: Pitarresi Jason R. , Norgard Robert J. , Chiarella Anna M. , Suzuki Kensuke , Bakir Basil , Sahu Varun , Li Jinyang , Zhao Jun , Marchand Benoît , Wengyn Maximilian D. , Hsieh Antony , Kim Il-Kyu , Zhang Amy , Sellin Karine , Lee Vivian , Takano Shigetsugu , Miyahara Yoji , Ohtsuka Masayuki , Maitra Anirban , Notta Faiyaz , Kremer Richard , Stanger Ben Z. , Rustgi Anil K.
Published: April 2023

Supplemental Table 1 Legend
Supplemental Figure 8 from PTHrP Drives Pancreatic Cancer Growth and Metastasis and Reveals a New Therapeutic Vulnerability
Authors: Pitarresi Jason R. , Norgard Robert J. , Chiarella Anna M. , Suzuki Kensuke , Bakir Basil , Sahu Varun , Li Jinyang , Zhao Jun , Marchand Benoît , Wengyn Maximilian D. , Hsieh Antony , Kim Il-Kyu , Zhang Amy , Sellin Karine , Lee Vivian , Takano Shigetsugu , Miyahara Yoji , Ohtsuka Masayuki , Maitra Anirban , Notta Faiyaz , Kremer Richard , Stanger Ben Z. , Rustgi Anil K.
Published: April 2023

Supplemental Figure 8
Supplementary Figure S6 from MET Amplification Attenuates Lung Tumor Response to Immunotherapy by Inhibiting STING
Authors: Zhang Yong , Yang Qifan , Zeng Xiangyu , Wang Manxiang , Dong Shuang , Yang Bin , Tu Xinyi , Wei Ting , Xie Wenzhuan , Zhang Chao , Guo Qiang , Kloeber Jake A. , Cao Yueyu , Guo Guijie , Zhou Qin , Zhao Fei , Huang Jinzhou , Liu Li , Zhang Kai , Wang Mingwei , Yin Ping , Luo Kuntian , Deng Min , Kim Wootae , Hou Jing , Shi Yu , Zhu Qian , Chen Lifeng , Hu Sheng , Yue Junqiu , Pi Guoliang , Lou Zhenkun
Published: April 2023

Effects of MET and STING signals on MET OE tumor after the intervention of MET inhibitor in vivo
Supplementary Figure S4 from MET Amplification Attenuates Lung Tumor Response to Immunotherapy by Inhibiting STING
Authors: Zhang Yong , Yang Qifan , Zeng Xiangyu , Wang Manxiang , Dong Shuang , Yang Bin , Tu Xinyi , Wei Ting , Xie Wenzhuan , Zhang Chao , Guo Qiang , Kloeber Jake A. , Cao Yueyu , Guo Guijie , Zhou Qin , Zhao Fei , Huang Jinzhou , Liu Li , Zhang Kai , Wang Mingwei , Yin Ping , Luo Kuntian , Deng Min , Kim Wootae , Hou Jing , Shi Yu , Zhu Qian , Chen Lifeng , Hu Sheng , Yue Junqiu , Pi Guoliang , Lou Zhenkun
Published: April 2023

MET inhibitor improved the efficacy of immunotherapy in tumor with MET amplification/overexpression in vitro
Supplementary Figure S3 from MET Amplification Attenuates Lung Tumor Response to Immunotherapy by Inhibiting STING
Authors: Zhang Yong , Yang Qifan , Zeng Xiangyu , Wang Manxiang , Dong Shuang , Yang Bin , Tu Xinyi , Wei Ting , Xie Wenzhuan , Zhang Chao , Guo Qiang , Kloeber Jake A. , Cao Yueyu , Guo Guijie , Zhou Qin , Zhao Fei , Huang Jinzhou , Liu Li , Zhang Kai , Wang Mingwei , Yin Ping , Luo Kuntian , Deng Min , Kim Wootae , Hou Jing , Shi Yu , Zhu Qian , Chen Lifeng , Hu Sheng , Yue Junqiu , Pi Guoliang , Lou Zhenkun
Published: April 2023

Single-cell RNA-seq reveals the distinctive functional composition of immune cells in MET amplification patients
Supplemental Figure 5 from PTHrP Drives Pancreatic Cancer Growth and Metastasis and Reveals a New Therapeutic Vulnerability
Authors: Pitarresi Jason R. , Norgard Robert J. , Chiarella Anna M. , Suzuki Kensuke , Bakir Basil , Sahu Varun , Li Jinyang , Zhao Jun , Marchand Benoît , Wengyn Maximilian D. , Hsieh Antony , Kim Il-Kyu , Zhang Amy , Sellin Karine , Lee Vivian , Takano Shigetsugu , Miyahara Yoji , Ohtsuka Masayuki , Maitra Anirban , Notta Faiyaz , Kremer Richard , Stanger Ben Z. , Rustgi Anil K.
Published: April 2023

Supplemental Figure 5
Supplemental Figure 3 from PTHrP Drives Pancreatic Cancer Growth and Metastasis and Reveals a New Therapeutic Vulnerability
Authors: Pitarresi Jason R. , Norgard Robert J. , Chiarella Anna M. , Suzuki Kensuke , Bakir Basil , Sahu Varun , Li Jinyang , Zhao Jun , Marchand Benoît , Wengyn Maximilian D. , Hsieh Antony , Kim Il-Kyu , Zhang Amy , Sellin Karine , Lee Vivian , Takano Shigetsugu , Miyahara Yoji , Ohtsuka Masayuki , Maitra Anirban , Notta Faiyaz , Kremer Richard , Stanger Ben Z. , Rustgi Anil K.
Published: April 2023

Supplemental Figure 3
Supplementary Table from Proteomic Screens for Suppressors of Anoikis Identify IL1RAP as a Promising Surface Target in Ewing Sarcoma
Authors: Zhang Hai-Feng , Hughes Christopher S. , Li Wei , He Jian-Zhong , Surdez Didier , El-Naggar Amal M. , Cheng Hongwei , Prudova Anna , Delaidelli Alberto , Negri Gian Luca , Li Xiaojun , Ørum-Madsen Maj Sofie , Lizardo Michael M. , Oo Htoo Zarni , Colborne Shane , Shyp Taras , Scopim-Ribeiro Renata , Hammond Colin A. , Dhez Anne-Chloe , Langman Sofya , Lim Jonathan K.M. , Kung Sonia H.Y. , Li Amy , Steino Anne , Daugaard Mads , Parker Seth J. , Geltink Ramon I. Klein , Orentas Rimas J. , Xu Li-Yan , Morin Gregg B. , Delattre Olivier , Dimitrov Dimiter S. , Sorensen Poul H.
Published: April 2023

Supplementary Table from Proteomic Screens for Suppressors of Anoikis Identify IL1RAP as a Promising Surface Target in Ewing Sarcoma
Supplementary Data from Proteomic Screens for Suppressors of Anoikis Identify IL1RAP as a Promising Surface Target in Ewing Sarcoma
Authors: Zhang Hai-Feng , Hughes Christopher S. , Li Wei , He Jian-Zhong , Surdez Didier , El-Naggar Amal M. , Cheng Hongwei , Prudova Anna , Delaidelli Alberto , Negri Gian Luca , Li Xiaojun , Ørum-Madsen Maj Sofie , Lizardo Michael M. , Oo Htoo Zarni , Colborne Shane , Shyp Taras , Scopim-Ribeiro Renata , Hammond Colin A. , Dhez Anne-Chloe , Langman Sofya , Lim Jonathan K.M. , Kung Sonia H.Y. , Li Amy , Steino Anne , Daugaard Mads , Parker Seth J. , Geltink Ramon I. Klein , Orentas Rimas J. , Xu Li-Yan , Morin Gregg B. , Delattre Olivier , Dimitrov Dimiter S. , Sorensen Poul H.
Published: April 2023

Supplementary Data from Proteomic Screens for Suppressors of Anoikis Identify IL1RAP as a Promising Surface Target in Ewing Sarcoma
Supplementary Data from PTP1B Is an Intracellular Checkpoint that Limits T-cell and CAR T-cell Antitumor Immunity
Authors: Wiede Florian , Lu Kun-Hui , Du Xin , Zeissig Mara N. , Xu Rachel , Goh Pei Kee , Xirouchaki Chrysovalantou E. , Hogarth Samuel J. , Greatorex Spencer , Sek Kevin , Daly Roger J. , Beavis Paul A. , Darcy Phillip K. , Tonks Nicholas K. , Tiganis Tony
Published: April 2023

Supplementary Data from PTP1B Is an Intracellular Checkpoint that Limits T-cell and CAR T-cell Antitumor Immunity
Supplementary Figure from Atezolizumab Treatment of Tumors with High Tumor Mutational Burden from MyPathway, a Multicenter, Open-Label, Phase IIa Multiple Basket Study
Authors: Friedman Claire F. , Hainsworth John D. , Kurzrock Razelle , Spigel David R. , Burris Howard A. , Sweeney Christopher J. , Meric-Bernstam Funda , Wang Yong , Levy Jonathan , Grindheim Jessica , Shames David S. , Schulze Katja , Patel Arisha , Swanton Charles
Published: April 2023

Supplementary Figure from Atezolizumab Treatment of Tumors with High Tumor Mutational Burden from MyPathway, a Multicenter, Open-Label, Phase IIa Multiple Basket Study
Supplementary Data from Longitudinal Undetectable Molecular Residual Disease Defines Potentially Cured Population in Localized Non–Small Cell Lung Cancer
Authors: Zhang Jia-Tao , Liu Si-Yang , Gao Wei , Liu Si-Yang Maggie , Yan Hong-Hong , Ji Liyan , Chen Yu , Gong Yuhua , Lu Hong-Lian , Lin Jun-Tao , Yin Kai , Jiang Ben-Yuan , Nie Qiang , Liao Ri-Qiang , Dong Song , Guan Yanfang , Dai Pingping , Zhang Xu-Chao , Yang Jin-Ji , Tu Hai-Yan , Xia Xuefeng , Yi Xin , Zhou Qing , Zhong Wen-Zhao , Yang Xue-Ning , Wu Yi-Long
Published: April 2023

Supplementary Data from Longitudinal Undetectable Molecular Residual Disease Defines Potentially Cured Population in Localized Non–Small Cell Lung Cancer
Supplementary Table from Characterization of INCB086550: A Potent and Novel Small-Molecule PD-L1 Inhibitor
Authors: Koblish Holly K. , Wu Liangxing , Wang Liang-Chuan S. , Liu Phillip C.C. , Wynn Richard , Rios-Doria Jonathan , Spitz Susan , Liu Hao , Volgina Alla , Zolotarjova Nina , Kapilashrami Kanishk , Behshad Elham , Covington Maryanne , Yang Yan-ou , Li Jingwei , Diamond Sharon , Soloviev Maxim , O'Hayer Kevin , Rubin Stephen , Kanellopoulou Chrysi , Yang Gengjie , Rupar Mark , DiMatteo Darlise , Lin Luping , Stevens Christina , Zhang Yue , Thekkat Pramod , Geschwindt Ryan , Marando Cindy , Yeleswaram Swamy , Jackson Jeff , Scherle Peggy , Huber Reid , Yao Wenqing , Hollis Gregory
Published: April 2023

Supplementary Table from Characterization of INCB086550: A Potent and Novel Small-Molecule PD-L1 Inhibitor
Supplementary Figure from Characterization of INCB086550: A Potent and Novel Small-Molecule PD-L1 Inhibitor
Authors: Koblish Holly K. , Wu Liangxing , Wang Liang-Chuan S. , Liu Phillip C.C. , Wynn Richard , Rios-Doria Jonathan , Spitz Susan , Liu Hao , Volgina Alla , Zolotarjova Nina , Kapilashrami Kanishk , Behshad Elham , Covington Maryanne , Yang Yan-ou , Li Jingwei , Diamond Sharon , Soloviev Maxim , O'Hayer Kevin , Rubin Stephen , Kanellopoulou Chrysi , Yang Gengjie , Rupar Mark , DiMatteo Darlise , Lin Luping , Stevens Christina , Zhang Yue , Thekkat Pramod , Geschwindt Ryan , Marando Cindy , Yeleswaram Swamy , Jackson Jeff , Scherle Peggy , Huber Reid , Yao Wenqing , Hollis Gregory
Published: April 2023

Supplementary Figure from Characterization of INCB086550: A Potent and Novel Small-Molecule PD-L1 Inhibitor
Supplementary Figure from Sunvozertinib, a Selective EGFR Inhibitor for Previously Treated Non–Small Cell Lung Cancer with EGFR Exon 20 Insertion Mutations
Authors: Wang Mengzhao , Yang James Chih-Hsin , Mitchell Paul L. , Fang Jian , Camidge D. Ross , Nian Weiqi , Chiu Chao-Hua , Zhou Jianying , Zhao Yanqiu , Su Wu-Chou , Yang Tsung-Ying , Zhu Viola W. , Millward Michael , Fan Yun , Huang Wen-Tsung , Cheng Ying , Jiang Liyan , Brungs Daniel , Bazhenova Lyudmila , Lee Chee Khoon , Gao Bo , Xu Yan , Hsu Wei-Hsun , Zheng Li , Jänne Pasi A.
Published: April 2023

Supplementary Figure from Sunvozertinib, a Selective EGFR Inhibitor for Previously Treated Non–Small Cell Lung Cancer with EGFR Exon 20 Insertion Mutations
Supplementary Methods from Sex-Biased ZRSR2 Mutations in Myeloid Malignancies Impair Plasmacytoid Dendritic Cell Activation and Apoptosis
Authors: Togami Katsuhiro , Chung Sun Sook , Madan Vikas , Booth Christopher A.G. , Kenyon Christopher M. , Cabal-Hierro Lucia , Taylor Justin , Kim Sunhee S. , Griffin Gabriel K. , Ghandi Mahmoud , Li Jia , Li Yvonne Y. , Angelot-Delettre Fanny , Biichle Sabeha , Seiler Michael , Buonamici Silvia , Lovitch Scott B. , Louissaint Abner , Morgan Elizabeth A. , Jardin Fabrice , Piccaluga Pier Paolo , Weinstock David M. , Hammerman Peter S. , Yang Henry , Konopleva Marina , Pemmaraju Naveen , Garnache-Ottou Francine , Abdel-Wahab Omar , Koeffler H. Phillip , Lane Andrew A.
Published: April 2023

DNA sequences
Supplementary Figures S1-S8 from Sex-Biased ZRSR2 Mutations in Myeloid Malignancies Impair Plasmacytoid Dendritic Cell Activation and Apoptosis
Authors: Togami Katsuhiro , Chung Sun Sook , Madan Vikas , Booth Christopher A.G. , Kenyon Christopher M. , Cabal-Hierro Lucia , Taylor Justin , Kim Sunhee S. , Griffin Gabriel K. , Ghandi Mahmoud , Li Jia , Li Yvonne Y. , Angelot-Delettre Fanny , Biichle Sabeha , Seiler Michael , Buonamici Silvia , Lovitch Scott B. , Louissaint Abner , Morgan Elizabeth A. , Jardin Fabrice , Piccaluga Pier Paolo , Weinstock David M. , Hammerman Peter S. , Yang Henry , Konopleva Marina , Pemmaraju Naveen , Garnache-Ottou Francine , Abdel-Wahab Omar , Koeffler H. Phillip , Lane Andrew A.
Published: April 2023

Supplementary Figures S1-S8 with legends.
Supplementary Figure from MYC Levels Regulate Metastatic Heterogeneity in Pancreatic Adenocarcinoma
Authors: Maddipati Ravikanth , Norgard Robert J. , Baslan Timour , Rathi Komal S. , Zhang Amy , Saeid Asal , Higashihara Taku , Wu Feng , Kumar Angad , Annamalai Valli , Bhattacharya Saurav , Raman Pichai , Adkisson Christian A. , Pitarresi Jason R. , Wengyn Maximilian D. , Yamazoe Taiji , Li Jinyang , Balli David , LaRiviere Michael J. , Ngo Tuong-Vi C. , Folkert Ian W. , Millstein Ian D. , Bermeo Jonathan , Carpenter Erica L. , McAuliffe John C. , Oktay Maja H. , Brekken Rolf A. , Lowe Scott W. , Iacobuzio-Donahue Christine A. , Notta Faiyaz , Stanger Ben Z.
Published: April 2023

Supplementary Figure from MYC Levels Regulate Metastatic Heterogeneity in Pancreatic Adenocarcinoma
Supplementary Data from MYC Levels Regulate Metastatic Heterogeneity in Pancreatic Adenocarcinoma
Authors: Maddipati Ravikanth , Norgard Robert J. , Baslan Timour , Rathi Komal S. , Zhang Amy , Saeid Asal , Higashihara Taku , Wu Feng , Kumar Angad , Annamalai Valli , Bhattacharya Saurav , Raman Pichai , Adkisson Christian A. , Pitarresi Jason R. , Wengyn Maximilian D. , Yamazoe Taiji , Li Jinyang , Balli David , LaRiviere Michael J. , Ngo Tuong-Vi C. , Folkert Ian W. , Millstein Ian D. , Bermeo Jonathan , Carpenter Erica L. , McAuliffe John C. , Oktay Maja H. , Brekken Rolf A. , Lowe Scott W. , Iacobuzio-Donahue Christine A. , Notta Faiyaz , Stanger Ben Z.
Published: April 2023

Supplementary Data from MYC Levels Regulate Metastatic Heterogeneity in Pancreatic Adenocarcinoma
Table S1 from Transcription Elongation Machinery Is a Druggable Dependency and Potentiates Immunotherapy in Glioblastoma Stem Cells
Authors: Qiu Zhixin , Zhao Linjie , Shen Jia Z. , Liang Zhengyu , Wu Qiulian , Yang Kailin , Min Lihua , Gimple Ryan C. , Yang Qiyuan , Bhargava Shruti , Jin Chunyu , Kim Cheryl , Hinz Denise , Dixit Deobrat , Bernatchez Jean A. , Prager Briana C. , Zhang Guoxin , Dong Zhen , Lv Deguan , Wang Xujun , Kim Leo J.Y. , Zhu Zhe , Jones Katherine A. , Zheng Ye , Wang Xiuxing , Siqueira-Neto Jair L. , Chavez Lukas , Fu Xiang-Dong , Spruck Charles , Rich Jeremy N.
Published: April 2023

Table S1. Chromatin regulator analysis in glioblastoma stem cells.
Supplementary Figures and Legends from Transcription Elongation Machinery Is a Druggable Dependency and Potentiates Immunotherapy in Glioblastoma Stem Cells
Authors: Qiu Zhixin , Zhao Linjie , Shen Jia Z. , Liang Zhengyu , Wu Qiulian , Yang Kailin , Min Lihua , Gimple Ryan C. , Yang Qiyuan , Bhargava Shruti , Jin Chunyu , Kim Cheryl , Hinz Denise , Dixit Deobrat , Bernatchez Jean A. , Prager Briana C. , Zhang Guoxin , Dong Zhen , Lv Deguan , Wang Xujun , Kim Leo J.Y. , Zhu Zhe , Jones Katherine A. , Zheng Ye , Wang Xiuxing , Siqueira-Neto Jair L. , Chavez Lukas , Fu Xiang-Dong , Spruck Charles , Rich Jeremy N.
Published: April 2023

Supplementary Figures 1-7 and the figure legends
Supplementary Table from Plasticity of Extrachromosomal and Intrachromosomal BRAF Amplifications in Overcoming Targeted Therapy Dosage Challenges
Authors: Song Kai , Minami Jenna K. , Huang Arthur , Dehkordi Siavash R. , Lomeli Shirley H. , Luebeck Jens , Goodman Mark H. , Moriceau Gatien , Krijgsman Oscar , Dharanipragada Prashanthi , Ridgley Trevor , Crosson William P. , Salazar Jesus , Pazol Eli , Karin Gabriel , Jayaraman Rachana , Balanis Nikolas G. , Alhani Salwan , Sheu Kyle , ten Hoeve Johanna , Palermo Amelia , Motika Stephen E. , Senaratne T. Niroshi , Paraiso Kim H. , Hergenrother Paul J. , Rao P. Nagesh , Multani Asha S. , Peeper Daniel S. , Bafna Vineet , Lo Roger S. , Graeber Thomas G.
Published: April 2023

Supplementary Table from Plasticity of Extrachromosomal and Intrachromosomal BRAF Amplifications in Overcoming Targeted Therapy Dosage Challenges
Supplementary Figure from Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer
Authors: Rajurkar Mihir , Parikh Aparna R. , Solovyov Alexander , You Eunae , Kulkarni Anupriya S. , Chu Chong , Xu Katherine H. , Jaicks Christopher , Taylor Martin S. , Wu Connie , Alexander Katherine A. , Good Charly R. , Szabolcs Annamaria , Gerstberger Stefanie , Tran Antuan V. , Xu Nova , Ebright Richard Y. , Van Seventer Emily E. , Vo Kevin D. , Tai Eric C. , Lu Chenyue , Joseph-Chazan Jasmin , Raabe Michael J. , Nieman Linda T. , Desai Niyati , Arora Kshitij S. , Ligorio Matteo , Thapar Vishal , Cohen Limor , Garden Padric M. , Senussi Yasmeen , Zheng Hui , Allen Jill N. , Blaszkowsky Lawrence S. , Clark Jeffrey W. , Goyal Lipika , Wo Jennifer Y. , Ryan David P. , Corcoran Ryan B. , Deshpande Vikram , Rivera Miguel N. , Aryee Martin J. , Hong Theodore S. , Berger Shelley L. , Walt David R. , Burns Kathleen H. , Park Peter J. , Greenbaum Benjamin D. , Ting David T.
Published: April 2023

Supplementary Figure from Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer
Supplementary Data from Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer
Authors: Rajurkar Mihir , Parikh Aparna R. , Solovyov Alexander , You Eunae , Kulkarni Anupriya S. , Chu Chong , Xu Katherine H. , Jaicks Christopher , Taylor Martin S. , Wu Connie , Alexander Katherine A. , Good Charly R. , Szabolcs Annamaria , Gerstberger Stefanie , Tran Antuan V. , Xu Nova , Ebright Richard Y. , Van Seventer Emily E. , Vo Kevin D. , Tai Eric C. , Lu Chenyue , Joseph-Chazan Jasmin , Raabe Michael J. , Nieman Linda T. , Desai Niyati , Arora Kshitij S. , Ligorio Matteo , Thapar Vishal , Cohen Limor , Garden Padric M. , Senussi Yasmeen , Zheng Hui , Allen Jill N. , Blaszkowsky Lawrence S. , Clark Jeffrey W. , Goyal Lipika , Wo Jennifer Y. , Ryan David P. , Corcoran Ryan B. , Deshpande Vikram , Rivera Miguel N. , Aryee Martin J. , Hong Theodore S. , Berger Shelley L. , Walt David R. , Burns Kathleen H. , Park Peter J. , Greenbaum Benjamin D. , Ting David T.
Published: April 2023

Supplementary Data from Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer
Supplementary table from Mutant IDH Inhibits IFNγ–TET2 Signaling to Promote Immunoevasion and Tumor Maintenance in Cholangiocarcinoma
Authors: Wu Meng-Ju , Shi Lei , Dubrot Juan , Merritt Joshua , Vijay Vindhya , Wei Ting-Yu , Kessler Emily , Olander Kira E. , Adil Ramzi , Pankaj Amaya , Tummala Krishna Seshu , Weeresekara Vajira , Zhen Yuanli , Wu Qibiao , Luo Meiqi , Shen William , García-Beccaria María , Fernández-Vaquero Mirian , Hudson Christine , Ronseaux Sebastien , Sun Yi , Saad-Berreta Rodrigo , Jenkins Russell W. , Wang Tong , Heikenwälder Mathias , Ferrone Cristina R. , Goyal Lipika , Nicolay Brandon , Deshpande Vikram , Kohli Rahul M. , Zheng Hongwu , Manguso Robert T. , Bardeesy Nabeel
Published: April 2023

Supplementary table from Mutant IDH Inhibits IFNγ–TET2 Signaling to Promote Immunoevasion and Tumor Maintenance in Cholangiocarcinoma
Supplementary Figure from Mutant IDH Inhibits IFNγ–TET2 Signaling to Promote Immunoevasion and Tumor Maintenance in Cholangiocarcinoma
Authors: Wu Meng-Ju , Shi Lei , Dubrot Juan , Merritt Joshua , Vijay Vindhya , Wei Ting-Yu , Kessler Emily , Olander Kira E. , Adil Ramzi , Pankaj Amaya , Tummala Krishna Seshu , Weeresekara Vajira , Zhen Yuanli , Wu Qibiao , Luo Meiqi , Shen William , García-Beccaria María , Fernández-Vaquero Mirian , Hudson Christine , Ronseaux Sebastien , Sun Yi , Saad-Berreta Rodrigo , Jenkins Russell W. , Wang Tong , Heikenwälder Mathias , Ferrone Cristina R. , Goyal Lipika , Nicolay Brandon , Deshpande Vikram , Kohli Rahul M. , Zheng Hongwu , Manguso Robert T. , Bardeesy Nabeel
Published: April 2023

Supplementary Figure from Mutant IDH Inhibits IFNγ–TET2 Signaling to Promote Immunoevasion and Tumor Maintenance in Cholangiocarcinoma
Supplementary Figure from Genomic and Single-Cell Landscape Reveals Novel Drivers and Therapeutic Vulnerabilities of Transformed Cutaneous T-cell Lymphoma
Authors: Song Xiaofei , Chang Shiun , Seminario-Vidal Lucia , de Mingo Pulido Alvaro , Tordesillas Leticia , Song Xingzhi , Reed Rhianna A. , Harkins Andrea , Whiddon Shannen , Nguyen Jonathan V. , Segura Carlos Moran , Zhang Chaomei , Yoder Sean , Sayegh Zena , Zhao Yun , Messina Jane L. , Harro Carly M. , Zhang Xiaohui , Conejo-Garcia José R. , Berglund Anders , Sokol Lubomir , Zhang Jianhua , Rodriguez Paulo C. , Mulé James J. , Futreal Andrew P. , Tsai Kenneth Y. , Chen Pei-Ling
Published: April 2023

Supplementary Figure from Genomic and Single-Cell Landscape Reveals Novel Drivers and Therapeutic Vulnerabilities of Transformed Cutaneous T-cell Lymphoma
Supplementary Data from Genomic and Single-Cell Landscape Reveals Novel Drivers and Therapeutic Vulnerabilities of Transformed Cutaneous T-cell Lymphoma
Authors: Song Xiaofei , Chang Shiun , Seminario-Vidal Lucia , de Mingo Pulido Alvaro , Tordesillas Leticia , Song Xingzhi , Reed Rhianna A. , Harkins Andrea , Whiddon Shannen , Nguyen Jonathan V. , Segura Carlos Moran , Zhang Chaomei , Yoder Sean , Sayegh Zena , Zhao Yun , Messina Jane L. , Harro Carly M. , Zhang Xiaohui , Conejo-Garcia José R. , Berglund Anders , Sokol Lubomir , Zhang Jianhua , Rodriguez Paulo C. , Mulé James J. , Futreal Andrew P. , Tsai Kenneth Y. , Chen Pei-Ling
Published: April 2023

Supplementary Data from Genomic and Single-Cell Landscape Reveals Novel Drivers and Therapeutic Vulnerabilities of Transformed Cutaneous T-cell Lymphoma
Supplementary Table from Synthetic Essentiality of Tryptophan 2,3-Dioxygenase 2 in APC-Mutated Colorectal Cancer
Authors: Lee Rumi , Li Jiexi , Li Jun , Wu Chang-Jiun , Jiang Shan , Hsu Wen-Hao , Chakravarti Deepavali , Chen Peiwen , LaBella Kyle A. , Li Jing , Spring Denise J. , Zhao Di , Wang Y. Alan , DePinho Ronald A.
Published: April 2023

Supplementary Table from Synthetic Essentiality of Tryptophan 2,3-Dioxygenase 2 in APC-Mutated Colorectal Cancer
Data from Synergistic Immunostimulatory Effects and Therapeutic Benefit of Combined Histone Deacetylase and Bromodomain Inhibition in Non–Small Cell Lung Cancer
Authors: Adeegbe Dennis O. , Liu Yan , Lizotte Patrick H. , Kamihara Yusuke , Aref Amir R. , Almonte Christina , Dries Ruben , Li Yuyang , Liu Shengwu , Wang Xiaoen , Warner-Hatten Tiquella , Castrillon Jessica , Yuan Guo-Cheng , Poudel-Neupane Neermala , Zhang Haikuo , Guerriero Jennifer L. , Han Shiwei , Awad Mark M. , Barbie David A. , Ritz Jerome , Jones Simon S. , Hammerman Peter S. , Bradner James , Quayle Steven N. , Wong Kwok-Kin
Published: April 2023

Abstract
Effective therapies for non–small cell lung cancer (NSCLC) remain challenging despite an increasingly comprehensive understanding of somatically altered oncogenic pathways. It is now clear that therapeutic agents with potential to impact the tumor immune microenvironment potentiate immune-orchestrated therapeutic benefit. Herein, we evaluated the immunoregulatory properties of histone deacetylase (HDAC) and bromodomain inhibitors, two classes of drugs that modulate the epigenome, with a focus on key cell subsets that are engaged in an immune response. By evaluating human peripheral blood and NSCLC tumors, we show that the selective HDAC6 inhibitor ricolinostat promotes phenotypic changes that support enhanced T-cell activation and improved function of antigen-presenting cells. The bromodomain inhibitor JQ1 attenuated CD4+FOXP3+ T regulatory cell suppressive function and synergized with ricolinostat to facilitate immune-mediated tumor growth arrest, leading to prolonged survival of mice with lung adenocarcinomas. Collectively, our findings highlight the immunomodulatory effects of two epigenetic modifiers that, together, promote T cell–mediated antitumor immunity and demonstrate their therapeutic potential for treatment of NSCLC.

Significance: Selective inhibition of HDACs and bromodomain proteins modulates tumor-associated immune cells in a manner that favors improved T-cell function and reduced inhibitory cellular mechanisms. These effects facilitated robust antitumor responses in tumor-bearing mice, demonstrating the therapeutic potential of combining these epigenetic modulators for the treatment of NSCLC. Cancer Discov; 7(8); 852–67. ©2017 AACR.

This article is highlighted in the In This Issue feature, p. 783
Data from BRCA Reversion Mutations in Circulating Tumor DNA Predict Primary and Acquired Resistance to the PARP Inhibitor Rucaparib in High-Grade Ovarian Carcinoma
Authors: Lin Kevin K. , Harrell Maria I. , Oza Amit M. , Oaknin Ana , Ray-Coquard Isabelle , Tinker Anna V. , Helman Elena , Radke Marc R. , Say Carmen , Vo Lan-Thanh , Mann Elaina , Isaacson Jeffrey D. , Maloney Lara , O'Malley David M. , Chambers Setsuko K. , Kaufmann Scott H. , Scott Clare L. , Konecny Gottfried E. , Coleman Robert L. , Sun James X. , Giordano Heidi , Brenton James D. , Harding Thomas C. , McNeish Iain A. , Swisher Elizabeth M.
Published: April 2023

Abstract
A key resistance mechanism to platinum-based chemotherapies and PARP inhibitors in BRCA-mutant cancers is the acquisition of BRCA reversion mutations that restore protein function. To estimate the prevalence of BRCA reversion mutations in high-grade ovarian carcinoma (HGOC), we performed targeted next-generation sequencing of circulating cell-free DNA (cfDNA) extracted from pretreatment and postprogression plasma in patients with deleterious germline or somatic BRCA mutations treated with the PARP inhibitor rucaparib. BRCA reversion mutations were identified in pretreatment cfDNA from 18% (2/11) of platinum-refractory and 13% (5/38) of platinum-resistant cancers, compared with 2% (1/48) of platinum-sensitive cancers (P = 0.049). Patients without BRCA reversion mutations detected in pretreatment cfDNA had significantly longer rucaparib progression-free survival than those with reversion mutations (median, 9.0 vs. 1.8 months; HR, 0.12; P < 0.0001). To study acquired resistance, we sequenced 78 postprogression cfDNA, identifying eight additional patients with BRCA reversion mutations not found in pretreatment cfDNA.
Significance:
BRCA reversion mutations are detected in cfDNA from platinum-resistant or platinum-refractory HGOC and are associated with decreased clinical benefit from rucaparib treatment. Sequencing of cfDNA can detect multiple BRCA reversion mutations, highlighting the ability to capture multiclonal heterogeneity.

This article is highlighted in the In This Issue feature, p. 151
Data from E-Cadherin/ROS1 Inhibitor Synthetic Lethality in Breast Cancer
Authors: Bajrami Ilirjana , Marlow Rebecca , van de Ven Marieke , Brough Rachel , Pemberton Helen N. , Frankum Jessica , Song Feifei , Rafiq Rumana , Konde Asha , Krastev Dragomir B. , Menon Malini , Campbell James , Gulati Aditi , Kumar Rahul , Pettitt Stephen J. , Gurden Mark D. , Cardenosa Marta Llorca , Chong Irene , Gazinska Patrycja , Wallberg Fredrik , Sawyer Elinor J. , Martin Lesley-Ann , Dowsett Mitch , Linardopoulos Spiros , Natrajan Rachael , Ryan Colm J. , Derksen Patrick W.B. , Jonkers Jos , Tutt Andrew N.J. , Ashworth Alan , Lord Christopher J.
Published: April 2023

Abstract
The cell adhesion glycoprotein E-cadherin (CDH1) is commonly inactivated in breast tumors. Precision medicine approaches that exploit this characteristic are not available. Using perturbation screens in breast tumor cells with CRISPR/Cas9-engineered CDH1 mutations, we identified synthetic lethality between E-cadherin deficiency and inhibition of the tyrosine kinase ROS1. Data from large-scale genetic screens in molecularly diverse breast tumor cell lines established that the E-cadherin/ROS1 synthetic lethality was not only robust in the face of considerable molecular heterogeneity but was also elicited with clinical ROS1 inhibitors, including foretinib and crizotinib. ROS1 inhibitors induced mitotic abnormalities and multinucleation in E-cadherin–defective cells, phenotypes associated with a defect in cytokinesis and aberrant p120 catenin phosphorylation and localization. In vivo, ROS1 inhibitors produced profound antitumor effects in multiple models of E-cadherin–defective breast cancer. These data therefore provide the preclinical rationale for assessing ROS1 inhibitors, such as the licensed drug crizotinib, in appropriately stratified patients.

Significance: E-cadherin defects are common in breast cancer but are currently not targeted with a precision medicine approach. Our preclinical data indicate that licensed ROS1 inhibitors, including crizotinib, should be repurposed to target E-cadherin–defective breast cancers, thus providing the rationale for the assessment of these agents in molecularly stratified phase II clinical trials. Cancer Discov; 8(4); 498–515. ©2018 AACR.

This article is highlighted in the In This Issue feature, p. 371
Data from Molecular Profiling Reveals Unique Immune and Metabolic Features of Melanoma Brain Metastases
Authors: Fischer Grant M. , Jalali Ali , Kircher David A. , Lee Won-Chul , McQuade Jennifer L. , Haydu Lauren E. , Joon Aron Y. , Reuben Alexandre , de Macedo Mariana P. , Carapeto Fernando C. L. , Yang Chendong , Srivastava Anuj , Ambati Chandrashekar R. , Sreekumar Arun , Hudgens Courtney W. , Knighton Barbara , Deng Wanleng , Ferguson Sherise D. , Tawbi Hussein A. , Glitza Isabella C. , Gershenwald Jeffrey E. , Vashisht Gopal Y. N. , Hwu Patrick , Huse Jason T. , Wargo Jennifer A. , Futreal P. Andrew , Putluri Nagireddy , Lazar Alexander J. , DeBerardinis Ralph J. , Marszalek Joseph R. , Zhang Jianjun , Holmen Sheri L. , Tetzlaff Michael T. , Davies Michael A.
Published: April 2023

Abstract
There is a critical need to improve our understanding of the pathogenesis of melanoma brain metastases (MBM). Thus, we performed RNA sequencing on 88 resected MBMs and 42 patient-matched extracranial metastases; tumors with sufficient tissue also underwent whole-exome sequencing, T-cell receptor sequencing, and IHC. MBMs demonstrated heterogeneity of immune infiltrates that correlated with prior radiation and post-craniotomy survival. Comparison with patient-matched extracranial metastases identified significant immunosuppression and enrichment of oxidative phosphorylation (OXPHOS) in MBMs. Gene-expression analysis of intracranial and subcutaneous xenografts, and a spontaneous MBM model, confirmed increased OXPHOS gene expression in MBMs, which was also detected by direct metabolite profiling and [U-13C]-glucose tracing in vivo. IACS-010759, an OXPHOS inhibitor currently in early-phase clinical trials, improved survival of mice bearing MAPK inhibitor–resistant intracranial melanoma xenografts and inhibited MBM formation in the spontaneous MBM model. The results provide new insights into the pathogenesis and therapeutic resistance of MBMs.
Significance:
Improving our understanding of the pathogenesis of MBMs will facilitate the rational development and prioritization of new therapeutic strategies. This study reports the most comprehensive molecular profiling of patient-matched MBMs and extracranial metastases to date. The data provide new insights into MBM biology and therapeutic resistance.

See related commentary by Egelston and Margolin, p. 581.

This article is highlighted in the In This Issue feature, p. 565
Data from A Burned-Out CD8+ T-cell Subset Expands in the Tumor Microenvironment and Curbs Cancer Immunotherapy
Authors: Sanmamed Miguel F. , Nie Xinxin , Desai Shruti S. , Villaroel-Espindola Franz , Badri Ti , Zhao Dejian , Kim Anthony W. , Ji Lan , Zhang Tianxiang , Quinlan Edward , Cheng Xiaoxiao , Han Xue , Vesely Matthew D. , Nassar Ala F. , Sun Jingwei , Zhang Yu , Kim Tae Kon , Wang Jun , Melero Ignacio , Herbst Roy S. , Schalper Kurt A. , Chen Lieping
Published: April 2023

Abstract
Specific mechanisms by which tumor-infiltrating lymphocytes (TIL) become dysfunctional remain poorly understood. Here, we employed a two-pronged approach using single-cell mass cytometry and tissue imaging technologies to dissect TILs from 25 patients with resectable and 35 patients with advanced non–small cell lung cancer (NSCLC). We identified a burned-out CD8+ TIL subset (Ebo) that specifically accumulated within the tumor microenvironment (TME) but not in adjacent nontumoral tissues. Ebo showed the highest expression of proliferation and activation markers but produced the lowest amount of IFNγ and were the most apoptotic CD8+ TIL subset. Using a humanized patient-derived tumor xenograft model, we demonstrated that Ebo expansion occurred within the TME in a PD-1/B7-H1 pathway-dependent manner. Ebo abundance in baseline tumor tissues was associated with resistance to anti-PD therapy in patients with NSCLC. Our study identifies a dysfunctional TIL subset, with distinct features from previously described exhausted T cells, and implies strategies to overcome immunotherapy resistance.
Significance:
We identified a highly proliferative, overactivated, and apoptotic dysfunctional CD8+ tumor-infiltrating subpopulation that is functionally distinct from previously described exhausted T cells. This population is expanded in lung cancer tissues in a PD-1/B7-H1-dependent manner, and its abundance is associated with resistance to cancer immunotherapy, thus becoming a potential tissue biomarker.

This article is highlighted in the In This Issue feature, p. 1601