bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Table 2 from Functional Metabolic Screen Identifies 6-Phosphofructo-2-Kinase/Fructose-2,6-Biphosphatase 4 as an Important Regulator of Prostate Cancer Cell Survival
Authors: Ros Susana , Santos Claudio R. , Moco Sofia , Baenke Franziska , Kelly Gavin , Howell Michael , Zamboni Nicola , Schulze Almut
Published: April 2023

PDF file - 145K
Supplementary Table 2 from Proteomic Profiling Identifies Dysregulated Pathways in Small Cell Lung Cancer and Novel Therapeutic Targets Including PARP1
Authors: Byers Lauren Averett , Wang Jing , Nilsson Monique B. , Fujimoto Junya , Saintigny Pierre , Yordy John , Giri Uma , Peyton Michael , Fan You Hong , Diao Lixia , Masrorpour Fatemeh , Shen Li , Liu Wenbin , Duchemann Boris , Tumula Praveen , Bhardwaj Vikas , Welsh James , Weber Stephanie , Glisson Bonnie S. , Kalhor Neda , Wistuba Ignacio I. , Girard Luc , Lippman Scott M. , Mills Gordon B. , Coombes Kevin R. , Weinstein John N. , Minna John D. , Heymach John V.
Published: April 2023

PDF file, 64K, Non-small cell lung cancer cell lines.
Supplementary Figure 7 from Noncovalent Wild-type–Sparing Inhibitors of EGFR T790M
Authors: Lee Ho-June , Schaefer Gabriele , Heffron Timothy P. , Shao Lily , Ye Xiaofen , Sideris Steve , Malek Shiva , Chan Emily , Merchant Mark , La Hank , Ubhayakar Savita , Yauch Robert L. , Pirazzoli Valentina , Politi Katerina , Settleman Jeff
Published: April 2023

PDF file - 25K, Pharmacokinetic parameters of PKC412.
Supplementary Figure 3 from Noncovalent Wild-type–Sparing Inhibitors of EGFR T790M
Authors: Lee Ho-June , Schaefer Gabriele , Heffron Timothy P. , Shao Lily , Ye Xiaofen , Sideris Steve , Malek Shiva , Chan Emily , Merchant Mark , La Hank , Ubhayakar Savita , Yauch Robert L. , Pirazzoli Valentina , Politi Katerina , Settleman Jeff
Published: April 2023

PDF file - 177K, Comparison of EGFR T790M inhibitors in NR6 cell lines expressing WT EGFR.
Supplementary Figure 7 from A Hormone–DNA Repair Circuit Governs the Response to Genotoxic Insult
Authors: Goodwin Jonathan F. , Schiewer Matthew J. , Dean Jeffry L. , Schrecengost Randy S. , de Leeuw Renée , Han Sumin , Ma Teng , Den Robert B. , Dicker Adam P. , Feng Felix Y. , Knudsen Karen E.
Published: April 2023

Supplementary Figure 7 - PDF file 79K, Supplemental data further demonstrating that androgen deprivation sensitizes CRPC cells to IR
Supplementary Table S2 from Inhibiting EGF Receptor or SRC Family Kinase Signaling Overcomes BRAF Inhibitor Resistance in Melanoma
Authors: Girotti Maria R. , Pedersen Malin , Sanchez-Laorden Berta , Viros Amaya , Turajlic Samra , Niculescu-Duvaz Dan , Zambon Alfonso , Sinclair John , Hayes Andrew , Gore Martin , Lorigan Paul , Springer Caroline , Larkin James , Jorgensen Claus , Marais Richard
Published: April 2023

PDF file - 67K,MIG6-ERRFI1 differentially expressed phosphopeptides in A375(X) vs A375(X)/R cells
Supplementary Figure S2 from Inhibiting EGF Receptor or SRC Family Kinase Signaling Overcomes BRAF Inhibitor Resistance in Melanoma
Authors: Girotti Maria R. , Pedersen Malin , Sanchez-Laorden Berta , Viros Amaya , Turajlic Samra , Niculescu-Duvaz Dan , Zambon Alfonso , Sinclair John , Hayes Andrew , Gore Martin , Lorigan Paul , Springer Caroline , Larkin James , Jorgensen Claus , Marais Richard
Published: April 2023

PDF file - 116K, Photomicrographs showing phospho-EGFR staining in patients' tumours
Supplementary Figure Legends from Inhibiting EGF Receptor or SRC Family Kinase Signaling Overcomes BRAF Inhibitor Resistance in Melanoma
Authors: Girotti Maria R. , Pedersen Malin , Sanchez-Laorden Berta , Viros Amaya , Turajlic Samra , Niculescu-Duvaz Dan , Zambon Alfonso , Sinclair John , Hayes Andrew , Gore Martin , Lorigan Paul , Springer Caroline , Larkin James , Jorgensen Claus , Marais Richard
Published: April 2023

PDF file - 77K,Supplementary Figure Legends for Supplementary Figures S1 and S2
Supplementary Methods from Coordinate Direct Input of Both KRAS and IGF1 Receptor to Activation of PI3 kinase in KRAS-Mutant Lung Cancer
Authors: Molina-Arcas Miriam , Hancock David C. , Sheridan Clare , Kumar Madhu S. , Downward Julian
Published: April 2023

Supplementary Methods - PDF file 52K, Supplementary Methods
Supplementary Figure 11 from Discovery of a Mutant-Selective Covalent Inhibitor of EGFR that Overcomes T790M-Mediated Resistance in NSCLC
Authors: Walter Annette O. , Sjin Robert Tjin Tham , Haringsma Henry J. , Ohashi Kadoaki , Sun Jing , Lee Kwangho , Dubrovskiy Aleksandr , Labenski Matthew , Zhu Zhendong , Wang Zhigang , Sheets Michael , St Martin Thia , Karp Russell , van Kalken Dan , Chaturvedi Prasoon , Niu Deqiang , Nacht Mariana , Petter Russell C. , Westlin William , Lin Kevin , Jaw-Tsai Sarah , Raponi Mitch , Van Dyke Terry , Etter Jeff , Weaver Zoe , Pao William , Singh Juswinder , Simmons Andrew D. , Harding Thomas C. , Allen Andrew
Published: April 2023

Supplementary Figure 11 - PDF file 255K, Analysis of the role of AXL in mediating CO-1686 resistance in COR cell clones.
Supplementary Table S1 from Co-occurring Genomic Alterations Define Major Subsets of KRAS-Mutant Lung Adenocarcinoma with Distinct Biology, Immune Profiles, and Therapeutic Vulnerabilities
Authors: Skoulidis Ferdinandos , Byers Lauren A. , Diao Lixia , Papadimitrakopoulou Vassiliki A. , Tong Pan , Izzo Julie , Behrens Carmen , Kadara Humam , Parra Edwin R. , Canales Jaime Rodriguez , Zhang Jianjun , Giri Uma , Gudikote Jayanthi , Cortez Maria A. , Yang Chao , Fan Youhong , Peyton Michael , Girard Luc , Coombes Kevin R. , Toniatti Carlo , Heffernan Timothy P. , Choi Murim , Frampton Garrett M. , Miller Vincent , Weinstein John N. , Herbst Roy S. , Wong Kwok-Kin , Zhang Jianhua , Sharma Padmanee , Mills Gordon B. , Hong Waun K. , Minna John D. , Allison James P. , Futreal Andrew , Wang Jing , Wistuba Ignacio I. , Heymach John V.
Published: April 2023

Supplementary Table S1. Individual KRAS, STK11/LKB1, TP53, ATM and KEAP1 somatic mutations from the indicated clinical cohorts.
Supplementary Figure S3 from Suppression of CHK1 by ETS Family Members Promotes DNA Damage Response Bypass and Tumorigenesis
Authors: Lunardi Andrea , Varmeh Shohreh , Chen Ming , Taulli Riccardo , Guarnerio Jlenia , Ala Ugo , Seitzer Nina , Ishikawa Tomoki , Carver Brett S. , Hobbs Robin M. , Quarantotti Valentina , Ng Christopher , Berger Alice H. , Nardella Caterina , Poliseno Laura , Montironi Rodolfo , Castillo-Martin Mireia , Cordon-Cardo Carlos , Signoretti Sabina , Pandolfi Pier Paolo
Published: April 2023

Supplementary Figure S3. ERG binding to CHK1 promoter.
Supplementary Information and Figures from PDK1 Signaling Toward PLK1–MYC Activation Confers Oncogenic Transformation, Tumor-Initiating Cell Activation, and Resistance to mTOR-Targeted Therapy
Authors: Tan Jing , Li Zhimei , Lee Puay Leng , Guan Peiyong , Aau Mei Yee , Lee Shuet Theng , Feng Min , Lim Cheryl Zihui , Lee Eric Yong Jing , Wee Zhen Ning , Lim Yaw Chyn , Karuturi R.K. Murthy , Yu Qiang
Published: April 2023

Supplementary Information and Figures - PDF file 1406K, Figure S1 provides additional data on PDK1-induced oncogenic transformation; Figure S2, Synthetic Lethal Screening Identifies PLK1 as a Crucial Downstream Effector of PDK1 to Mediate Cancer Cell Survival; Figure S3 shows PLK1 Inhibition Decrease Myc Protein expression in various Cancer Cell Lines; Figures S4 shows Genetic and Pharmacologic Inhibition of PDK1 Blocks PLK1 Activity in Cancer Cells; Figure S5 shows PDK1 Drives Cancer Initiating Cell Maintenance and Self-Renewal; Figure S6 shows that PDK1-induced gene signature associated with human cancers and patient survival; Figure S7 shows BI2356 synergizes with BEZ235 to induce synthetic lethality in CRC both in vitro and in vivo; Figure S8 shows The Effects of BI2536 in Combination with PP242 or Rapamycin on Apoptosis and proliferation; Supplementary table 1 shows the expression profiles of PDK1-regulated genes in HEK-Vector, -PDK1, -Myc and -E545K cells
Supplementary Table S8 from CD38-Mediated Immunosuppression as a Mechanism of Tumor Cell Escape from PD-1/PD-L1 Blockade
Authors: Chen Limo , Diao Lixia , Yang Yongbin , Yi Xiaohui , Rodriguez B. Leticia , Li Yanli , Villalobos Pamela A. , Cascone Tina , Liu Xi , Tan Lin , Lorenzi Philip L. , Huang Anfei , Zhao Qiang , Peng Di , Fradette Jared J. , Peng David H. , Ungewiss Christin , Roybal Jonathon , Tong Pan , Oba Junna , Skoulidis Ferdinandos , Peng Weiyi , Carter Brett W. , Gay Carl M. , Fan Youhong , Class Caleb A. , Zhu Jingfen , Rodriguez-Canales Jaime , Kawakami Masanori , Byers Lauren Averett , Woodman Scott E. , Papadimitrakopoulou Vassiliki A. , Dmitrovsky Ethan , Wang Jing , Ullrich Stephen E. , Wistuba Ignacio I. , Heymach John V. , Qin F. Xiao-Feng , Gibbons Don L.
Published: April 2023

Patient sample information as well as CD38 and PD-L1 IHC score in lung cancer tissue microarray bank TMA4.
Supplementary figures from Transcriptomic Profiling of the Tumor Microenvironment Reveals Distinct Subgroups of Clear Cell Renal Cell Cancer: Data from a Randomized Phase III Trial
Authors: Hakimi A. Ari , Voss Martin H. , Kuo Fengshen , Sanchez Alejandro , Liu Ming , Nixon Briana G. , Vuong Lynda , Ostrovnaya Irina , Chen Ying-Bei , Reuter Victor , Riaz Nadeem , Cheng Yuan , Patel Parul , Marker Mahtab , Reising Albert , Li Ming O. , Chan Timothy A. , Motzer Robert J.
Published: April 2023

Supplementary figures. Raw ppt file with figures.
Supplementary Figure Legends from A Preexisting Rare PIK3CAE545K Subpopulation Confers Clinical Resistance to MEK plus CDK4/6 Inhibition in NRAS Melanoma and Is Dependent on S6K1 Signaling
Authors: Romano Gabriele , Chen Pei-Ling , Song Ping , McQuade Jennifer L. , Liang Roger J. , Liu Mingguang , Roh Whijae , Duose Dzifa Y. , Carapeto Fernando C.L. , Li Jun , Teh Jessica L.F. , Aplin Andrew E. , Chen Merry , Zhang Jianhua , Lazar Alexander J. , Davies Michael A. , Futreal P. Andrew , Amaria Rodabe N. , Zhang David Y. , Wargo Jennifer A. , Kwong Lawrence N.
Published: April 2023

Supplementary Figure Legends
Supplementary Table S2 from NRG1 Fusions in KRAS Wild-Type Pancreatic Cancer
Authors: Heining Christoph , Horak Peter , Uhrig Sebastian , Codo Paula L. , Klink Barbara , Hutter Barbara , Fröhlich Martina , Bonekamp David , Richter Daniela , Steiger Katja , Penzel Roland , Endris Volker , Ehrenberg Karl Roland , Frank Stephanie , Kleinheinz Kortine , Toprak Umut H. , Schlesner Matthias , Mandal Ranadip , Schulz Lothar , Lambertz Helmut , Fetscher Sebastian , Bitzer Michael , Malek Nisar P. , Horger Marius , Giese Nathalia A. , Strobel Oliver , Hackert Thilo , Springfeld Christoph , Feuerbach Lars , Bergmann Frank , Schröck Evelin , von Kalle Christof , Weichert Wilko , Scholl Claudia , Ball Claudia R. , Stenzinger Albrecht , Brors Benedikt , Fröhling Stefan , Glimm Hanno
Published: April 2023

Supplementary Table S2 shows sequencing coverage metrics.
Supplementary Figure S1 from NRG1 Fusions in KRAS Wild-Type Pancreatic Cancer
Authors: Heining Christoph , Horak Peter , Uhrig Sebastian , Codo Paula L. , Klink Barbara , Hutter Barbara , Fröhlich Martina , Bonekamp David , Richter Daniela , Steiger Katja , Penzel Roland , Endris Volker , Ehrenberg Karl Roland , Frank Stephanie , Kleinheinz Kortine , Toprak Umut H. , Schlesner Matthias , Mandal Ranadip , Schulz Lothar , Lambertz Helmut , Fetscher Sebastian , Bitzer Michael , Malek Nisar P. , Horger Marius , Giese Nathalia A. , Strobel Oliver , Hackert Thilo , Springfeld Christoph , Feuerbach Lars , Bergmann Frank , Schröck Evelin , von Kalle Christof , Weichert Wilko , Scholl Claudia , Ball Claudia R. , Stenzinger Albrecht , Brors Benedikt , Fröhling Stefan , Glimm Hanno
Published: April 2023

Supplementary Figure S1 shows circos plots including 17 PDACs of the patient cohort and a PDCM.
Supplemental Figures S1-S7 and Supplemental Table S1 from A Unified Approach to Targeting the Lysosome's Degradative and Growth Signaling Roles
Authors: Rebecca Vito W. , Nicastri Michael C. , McLaughlin Noel , Fennelly Colin , McAfee Quentin , Ronghe Amruta , Nofal Michel , Lim Chun-Yan , Witze Eric , Chude Cynthia I. , Zhang Gao , Alicea Gretchen M. , Piao Shengfu , Murugan Sengottuvelan , Ojha Rani , Levi Samuel M. , Wei Zhi , Barber-Rotenberg Julie S. , Murphy Maureen E. , Mills Gordon B. , Lu Yiling , Rabinowitz Joshua , Marmorstein Ronen , Liu Qin , Liu Shujing , Xu Xiaowei , Herlyn Meenhard , Zoncu Roberto , Brady Donita C. , Speicher David W. , Winkler Jeffrey D. , Amaravadi Ravi K.
Published: April 2023

Supplemental Figures and Table
Figure S4 from Age-Related Changes in HAPLN1 Increase Lymphatic Permeability and Affect Routes of Melanoma Metastasis
Authors: Ecker Brett L. , Kaur Amanpreet , Douglass Stephen M. , Webster Marie R. , Almeida Filipe V. , Marino Gloria E. , Sinnamon Andrew J. , Neuwirth Madalyn G. , Alicea Gretchen M. , Ndoye Abibatou , Fane Mitchell , Xu Xiaowei , Sim Myung Shin , Deutsch Gary B. , Faries Mark B. , Karakousis Giorgos C. , Weeraratna Ashani T.
Published: April 2023

Supplementary Figure S4
Figure S3 from Age-Related Changes in HAPLN1 Increase Lymphatic Permeability and Affect Routes of Melanoma Metastasis
Authors: Ecker Brett L. , Kaur Amanpreet , Douglass Stephen M. , Webster Marie R. , Almeida Filipe V. , Marino Gloria E. , Sinnamon Andrew J. , Neuwirth Madalyn G. , Alicea Gretchen M. , Ndoye Abibatou , Fane Mitchell , Xu Xiaowei , Sim Myung Shin , Deutsch Gary B. , Faries Mark B. , Karakousis Giorgos C. , Weeraratna Ashani T.
Published: April 2023

Supplementary Figure 3
Table S1, Table S2, Table S3, Table S4 from Clinical and Biological Correlates of Neurotoxicity Associated with CAR T-cell Therapy in Patients with B-cell Acute Lymphoblastic Leukemia
Authors: Santomasso Bianca D. , Park Jae H. , Salloum Darin , Riviere Isabelle , Flynn Jessica , Mead Elena , Halton Elizabeth , Wang Xiuyan , Senechal Brigitte , Purdon Terence , Cross Justin R. , Liu Hui , Vachha Behroze , Chen Xi , DeAngelis Lisa M. , Li Daniel , Bernal Yvette , Gonen Mithat , Wendel Hans-Guido , Sadelain Michel , Brentjens Renier J.
Published: April 2023

Table S1: Detailed descriptions of all grade neurotoxicity; Table S2: Correlation between CAR T cell phenotype and neurotoxicity; Table S3: Correlation between CSF cytokines and CSF protein concentrations; Table S4: Definitions of CRS
Supplementary Table S11 from Tissue-Specific Oncogenic Activity of KRASA146T
Authors: Poulin Emily J. , Bera Asim K. , Lu Jia , Lin Yi-Jang , Strasser Samantha Dale , Paulo Joao A. , Huang Tannie Q. , Morales Carolina , Yan Wei , Cook Joshua , Nowak Jonathan A. , Brubaker Douglas K. , Joughin Brian A. , Johnson Christian W. , DeStefanis Rebecca A. , Ghazi Phaedra C. , Gondi Sudershan , Wales Thomas E. , Iacob Roxana E. , Bogdanova Lana , Gierut Jessica J. , Li Yina , Engen John R. , Perez-Mancera Pedro A. , Braun Benjamin S. , Gygi Steven P. , Lauffenburger Douglas A. , Westover Kenneth D. , Haigis Kevin M.
Published: April 2023

GSEA analysis of colons expressing WT or mutant K-Ras.
Supplementary Table S1 from Tissue-Specific Oncogenic Activity of KRASA146T
Authors: Poulin Emily J. , Bera Asim K. , Lu Jia , Lin Yi-Jang , Strasser Samantha Dale , Paulo Joao A. , Huang Tannie Q. , Morales Carolina , Yan Wei , Cook Joshua , Nowak Jonathan A. , Brubaker Douglas K. , Joughin Brian A. , Johnson Christian W. , DeStefanis Rebecca A. , Ghazi Phaedra C. , Gondi Sudershan , Wales Thomas E. , Iacob Roxana E. , Bogdanova Lana , Gierut Jessica J. , Li Yina , Engen John R. , Perez-Mancera Pedro A. , Braun Benjamin S. , Gygi Steven P. , Lauffenburger Douglas A. , Westover Kenneth D. , Haigis Kevin M.
Published: April 2023

Data collection and refinement statistics
Supplementary Table S1-S3 from Recurrent Tumor Cell–Intrinsic and –Extrinsic Alterations during MAPKi-Induced Melanoma Regression and Early Adaptation
Authors: Song Chunying , Piva Marco , Sun Lu , Hong Aayoung , Moriceau Gatien , Kong Xiangju , Zhang Hong , Lomeli Shirley , Qian Jin , Yu Clarissa C. , Damoiseaux Robert , Kelley Mark C. , Dahlman Kimberley B. , Scumpia Philip O. , Sosman Jeffrey A. , Johnson Douglas B. , Ribas Antoni , Hugo Willy , Lo Roger S.
Published: April 2023

Supplementary Table S1-S3
Figure S1 from Recurrent Tumor Cell–Intrinsic and –Extrinsic Alterations during MAPKi-Induced Melanoma Regression and Early Adaptation
Authors: Song Chunying , Piva Marco , Sun Lu , Hong Aayoung , Moriceau Gatien , Kong Xiangju , Zhang Hong , Lomeli Shirley , Qian Jin , Yu Clarissa C. , Damoiseaux Robert , Kelley Mark C. , Dahlman Kimberley B. , Scumpia Philip O. , Sosman Jeffrey A. , Johnson Douglas B. , Ribas Antoni , Hugo Willy , Lo Roger S.
Published: April 2023

Figure S1
Figure S1 to S13 from YAP Is Essential for Treg-Mediated Suppression of Antitumor Immunity
Authors: Ni Xuhao , Tao Jinhui , Barbi Joseph , Chen Qian , Park Benjamin V. , Li Zhiguang , Zhang Nailing , Lebid Andriana , Ramaswamy Anjali , Wei Ping , Zheng Ying , Zhang Xuehong , Wu Xingmei , Vignali Paolo , Yang Cui-Ping , Li Huabin , Pardoll Drew , Lu Ling , Pan Duojia , Pan Fan
Published: April 2023

Supplementary Figure S1. Expression and activation of YAP and other Hippo Pathway factors in CD4+ T cell subsets; Supplementary Figure S2. Characterization of the baseline immune profile of T cell-specific YAP-deficient mice; Supplementary Figure S3. Haematoxylin and eosin staining of lung, kidney, liver, small intestine and stomach sections from 21-day-old wild-type and YAPcKO mice; Supplementary Figure S4. The effect on iTreg generation under optimal TGFβ concentration; Supplementary Figure S5. Treg-specific YAP deficiency slows the growth of implanted MC38-colon tumors and boosts anti-tumor immunity; Supplementary Figure S6. Treg-specific YAP deficiency slows the growth of implanted EL4 thymomas and boosts anti-tumor immunity; Supplementary Figure S7. The effect of YAP inhibition monotherapy and combinational immunotherapy treatments on the immune constituents of the tumor microenvironment; Supplementary Figure S8. Correlation of gene expression in stimulated wild-type and YAP cKO derived Tregs; Supplementary Figure S9. Both Activin A and its receptor (ACVR1c) are upregulated during the course of iTreg differentiation; Supplementary Figure S10. Effect of AcVR1c deficiency on iTreg differentiation; Supplementary Figure S11. Supplemental Activin fails to rescue iTreg generation when SMAD2/3 levels are lacking; Supplementary Figure S12. Effects of GM-Vac and Anti-Activin treatment on B16 tumor progression in Wild Type and AcVR1c KO mice; Supplementary Figure S13. A model for YAP-mediated TGFβ/SMAD signaling enhancement
Table S2 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

Table S2 shows data concerning the association between baseline characteristics and presence of BRCA reversion mutations in pretreatment circulating cell-free DNA
Supplementary Figures S1-S9 from Homophilic CD44 Interactions Mediate Tumor Cell Aggregation and Polyclonal Metastasis in Patient-Derived Breast Cancer Models
Authors: Liu Xia , Taftaf Rokana , Kawaguchi Madoka , Chang Ya-Fang , Chen Wenjing , Entenberg David , Zhang Youbin , Gerratana Lorenzo , Huang Simo , Patel Dhwani B. , Tsui Elizabeth , Adorno-Cruz Valery , Chirieleison Steven M. , Cao Yue , Harney Allison S. , Patel Shivani , Patsialou Antonia , Shen Yang , Avril Stefanie , Gilmore Hannah L. , Lathia Justin D. , Abbott Derek W. , Cristofanilli Massimo , Condeelis John S. , Liu Huiping
Published: April 2023

Supplementary Figures S1-S9
Suppl List of Videos,Tables and Methods from Homophilic CD44 Interactions Mediate Tumor Cell Aggregation and Polyclonal Metastasis in Patient-Derived Breast Cancer Models
Authors: Liu Xia , Taftaf Rokana , Kawaguchi Madoka , Chang Ya-Fang , Chen Wenjing , Entenberg David , Zhang Youbin , Gerratana Lorenzo , Huang Simo , Patel Dhwani B. , Tsui Elizabeth , Adorno-Cruz Valery , Chirieleison Steven M. , Cao Yue , Harney Allison S. , Patel Shivani , Patsialou Antonia , Shen Yang , Avril Stefanie , Gilmore Hannah L. , Lathia Justin D. , Abbott Derek W. , Cristofanilli Massimo , Condeelis John S. , Liu Huiping
Published: April 2023

List of Videos S1-8 Tables S1-7 and Methods
Supplementary Figures S1-S4 from PPT1 Promotes Tumor Growth and Is the Molecular Target of Chloroquine Derivatives in Cancer
Authors: Rebecca Vito W. , Nicastri Michael C. , Fennelly Colin , Chude Cynthia I. , Barber-Rotenberg Julie S. , Ronghe Amruta , McAfee Quentin , McLaughlin Noel P. , Zhang Gao , Goldman Aaron R. , Ojha Rani , Piao Shengfu , Noguera-Ortega Estela , Martorella Alessandra , Alicea Gretchen M. , Lee Jennifer J. , Schuchter Lynn M. , Xu Xiaowei , Herlyn Meenhard , Marmorstein Ronen , Gimotty Phyllis A. , Speicher David W. , Winkler Jeffrey D. , Amaravadi Ravi K.
Published: April 2023

Supplementary Figures S1-S4
Chemical Methods from PPT1 Promotes Tumor Growth and Is the Molecular Target of Chloroquine Derivatives in Cancer
Authors: Rebecca Vito W. , Nicastri Michael C. , Fennelly Colin , Chude Cynthia I. , Barber-Rotenberg Julie S. , Ronghe Amruta , McAfee Quentin , McLaughlin Noel P. , Zhang Gao , Goldman Aaron R. , Ojha Rani , Piao Shengfu , Noguera-Ortega Estela , Martorella Alessandra , Alicea Gretchen M. , Lee Jennifer J. , Schuchter Lynn M. , Xu Xiaowei , Herlyn Meenhard , Marmorstein Ronen , Gimotty Phyllis A. , Speicher David W. , Winkler Jeffrey D. , Amaravadi Ravi K.
Published: April 2023

Chemical Methods
Table S2 from Single and Dual Targeting of Mutant EGFR with an Allosteric Inhibitor
Authors: To Ciric , Jang Jaebong , Chen Ting , Park Eunyoung , Mushajiang Mierzhati , De Clercq Dries J.H. , Xu Man , Wang Stephen , Cameron Michael D. , Heppner David E. , Shin Bo Hee , Gero Thomas W. , Yang Annan , Dahlberg Suzanne E. , Wong Kwok-Kin , Eck Michael J. , Gray Nathanael S. , Jänne Pasi A.
Published: April 2023

KINOMEscan selectivity profiling of JBJ-04-125-02 and IC50 of EAI045, JBJ-02-112-05 and JBJ-04-125-02 in BaF3 cells.
Supplemental Methods from Single and Dual Targeting of Mutant EGFR with an Allosteric Inhibitor
Authors: To Ciric , Jang Jaebong , Chen Ting , Park Eunyoung , Mushajiang Mierzhati , De Clercq Dries J.H. , Xu Man , Wang Stephen , Cameron Michael D. , Heppner David E. , Shin Bo Hee , Gero Thomas W. , Yang Annan , Dahlberg Suzanne E. , Wong Kwok-Kin , Eck Michael J. , Gray Nathanael S. , Jänne Pasi A.
Published: April 2023

Supplemental methods for structural modeling of inhibitor binding, pharmacokinetic assays, in vivo studies, crosslinking and biotinylated drug pull-down assays.
Supplementary Video S2 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

Membrane oscillation followed by regression of cleavage furrow in E-cadherin defective cell exposed to foretinib leading to failed cytokinesis
Supplementary Tables S1-S11 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

Supplementary Tables
Table S1 from ADAMDEC1 Maintains a Growth Factor Signaling Loop in Cancer Stem Cells
Authors: Jimenez-Pascual Ana , Hale James S. , Kordowski Anja , Pugh Jamie , Silver Daniel J. , Bayik Defne , Roversi Gustavo , Alban Tyler J. , Rao Shilpa , Chen Rui , McIntyre Thomas M. , Colombo Giorgio , Taraboletti Giulia , Holmberg Karl O. , Forsberg-Nilsson Karin , Lathia Justin D. , Siebzehnrubl Florian A.
Published: April 2023

Supplementary Table S1
Supplementary Information 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

Supplementary Figure legends and methods
Figures S1-S7 from Antitumor Activity Associated with Prolonged Persistence of Adoptively Transferred NY-ESO-1 c259T Cells in Synovial Sarcoma
Authors: D'Angelo Sandra P. , Melchiori Luca , Merchant Melinda S. , Bernstein Donna , Glod John , Kaplan Rosandra , Grupp Stephan , Tap William D. , Chagin Karen , Binder Gwendolyn K. , Basu Samik , Lowther Daniel E. , Wang Ruoxi , Bath Natalie , Tipping Alex , Betts Gareth , Ramachandran Indu , Navenot Jean-Marc , Zhang Hua , Wells Daniel K. , Van Winkle Erin , Kari Gabor , Trivedi Trupti , Holdich Tom , Pandite Lini , Amado Rafael , Mackall Crystal L.
Published: April 2023

Figure S1. Consort diagram. Figure S2. Longitudinal analyses of persistence, memory cells and exhaustion marker expression. Figure S3. NY-ESO-1c259T cells exhibit and maintain polyfunctionality prior to and postinfusion. Figure S4. NY-ESO-1c259TCR+CD3+ T cells from the manufactured product and post-infusion PBMCs from a representative patient. Figure S5. Tumor analyses following NY-ESO-1c259T cell therapy in patient 202. Figure S6. NY-ESO-1 Expression at Screening and Relapse. Figure S7. Analysis of TCRBV sequences within sorted cell subsets.
Supplementary Table 1 from An Empirical Approach Leveraging Tumorgrafts to Dissect the Tumor Microenvironment in Renal Cell Carcinoma Identifies Missing Link to Prognostic Inflammatory Factors
Authors: Wang Tao , Lu Rong , Kapur Payal , Jaiswal Bijay S. , Hannan Raquibul , Zhang Ze , Pedrosa Ivan , Luke Jason J. , Zhang He , Goldstein Leonard D. , Yousuf Qurratulain , Gu Yi-Feng , McKenzie Tiffani , Joyce Allison , Kim Min S. , Wang Xinlei , Luo Danni , Onabolu Oreoluwa , Stevens Christina , Xie Zhiqun , Chen Mingyi , Filatenkov Alexander , Torrealba Jose , Luo Xin , Guo Wenbin , He Jingxuan , Stawiski Eric , Modrusan Zora , Durinck Steffen , Seshagiri Somasekar , Brugarolas James
Published: April 2023

List of UTSW KCP patients with RNA-Seq and exome-seq. Sheet 1 contains information of 35 patients whose matched trio RNA-Seq data were used in the primary DisHet analyses. Sheet 2 contains information of patients whose bulk tumors were analyzed by RNA-Seq and whose follow up data are available. There are overlap between patients from these two sheets. Sheet 3 contains the information of tumorgraft data used in Fig. 5bc.
Supplementary Figures 1-6 from An Empirical Approach Leveraging Tumorgrafts to Dissect the Tumor Microenvironment in Renal Cell Carcinoma Identifies Missing Link to Prognostic Inflammatory Factors
Authors: Wang Tao , Lu Rong , Kapur Payal , Jaiswal Bijay S. , Hannan Raquibul , Zhang Ze , Pedrosa Ivan , Luke Jason J. , Zhang He , Goldstein Leonard D. , Yousuf Qurratulain , Gu Yi-Feng , McKenzie Tiffani , Joyce Allison , Kim Min S. , Wang Xinlei , Luo Danni , Onabolu Oreoluwa , Stevens Christina , Xie Zhiqun , Chen Mingyi , Filatenkov Alexander , Torrealba Jose , Luo Xin , Guo Wenbin , He Jingxuan , Stawiski Eric , Modrusan Zora , Durinck Steffen , Seshagiri Somasekar , Brugarolas James
Published: April 2023

Sup. Fig. 1 Simulation analyses show accurate dissection of bulk tumor RNA-Seq data by DisHet. Sup. Fig. 2 Validating immune/stroma component expression dissected by DisHet. Sup. Fig. 3 Comparison of dissection performance of DeMix and DisHet. Sup. Fig. 4 Principal Component Analysis (PCA) shows the clustering of TCGA pan-RCC patients tumors by the tumor-specific genes and eTME-specific genes, respectively. Sup. Fig. 5 CD4 and CD8 immunohistochemistry staining in the Six2-Cre;VhlF/F;Pbrm1F/F and Six2-Cre;VhlF/F;Bap1F/+. Supl. Fig. 6 Clinical manifestations of eTME-NIS patients.
Figure S2 from Genetic Predictors of Response to Systemic Therapy in Esophagogastric Cancer
Authors: Janjigian Yelena Y. , Sanchez-Vega Francisco , Jonsson Philip , Chatila Walid K. , Hechtman Jaclyn F. , Ku Geoffrey Y. , Riches Jamie C. , Tuvy Yaelle , Kundra Ritika , Bouvier Nancy , Vakiani Efsevia , Gao Jianjiong , Heins Zachary J. , Gross Benjamin E. , Kelsen David P. , Zhang Liying , Strong Vivian E. , Schattner Mark , Gerdes Hans , Coit Daniel G. , Bains Manjit , Stadler Zsofia K. , Rusch Valerie W. , Jones David R. , Molena Daniela , Shia Jinru , Robson Mark E. , Capanu Marinela , Middha Sumit , Zehir Ahmet , Hyman David M. , Scaltriti Maurizio , Ladanyi Marc , Rosen Neal , Ilson David H. , Berger Michael F. , Tang Laura , Taylor Barry S. , Solit David B. , Schultz Nikolaus
Published: April 2023

Concordance between copy-number inferred from next generation sequencing and protein overexpression by IHC or gene amplification by FISH.
Supplementary Data from Landscape of Acquired Resistance to Osimertinib in EGFR-Mutant NSCLC and Clinical Validation of Combined EGFR and RET Inhibition with Osimertinib and BLU-667 for Acquired RET Fusion
Authors: Piotrowska Zofia , Isozaki Hideko , Lennerz Jochen K. , Gainor Justin F. , Lennes Inga T. , Zhu Viola W. , Marcoux Nicolas , Banwait Mandeep K. , Digumarthy Subba R. , Su Wenjia , Yoda Satoshi , Riley Amanda K. , Nangia Varuna , Lin Jessica J. , Nagy Rebecca J. , Lanman Richard B. , Dias-Santagata Dora , Mino-Kenudson Mari , Iafrate A. John , Heist Rebecca S. , Shaw Alice T. , Evans Erica K. , Clifford Corinne , Ou Sai-Hong I. , Wolf Beni , Hata Aaron N. , Sequist Lecia V.
Published: April 2023

Supplementary Data and Methods
Figure S13 from In Vivo Epigenetic CRISPR Screen Identifies Asf1a as an Immunotherapeutic Target in Kras-Mutant Lung Adenocarcinoma
Authors: Li Fei , Huang Qingyuan , Luster Troy A. , Hu Hai , Zhang Hua , Ng Wai-Lung , Khodadadi-Jamayran Alireza , Wang Wei , Chen Ting , Deng Jiehui , Ranieri Michela , Fang Zhaoyuan , Pyon Val , Dowling Catríona M. , Bagdatlioglu Ece , Almonte Christina , Labbe Kristen , Silver Heather , Rabin Alexandra R. , Jani Kandarp , Tsirigos Aristotelis , Papagiannakopoulos Thales , Hammerman Peter S. , Velcheti Vamsidhar , Freeman Gordon J. , Qi Jun , Miller George , Wong Kwok-Kin
Published: April 2023

Macrophages pre-cultured with Asf1a KO tumor cells show potential effect to activate T cells
Figure S12 from In Vivo Epigenetic CRISPR Screen Identifies Asf1a as an Immunotherapeutic Target in Kras-Mutant Lung Adenocarcinoma
Authors: Li Fei , Huang Qingyuan , Luster Troy A. , Hu Hai , Zhang Hua , Ng Wai-Lung , Khodadadi-Jamayran Alireza , Wang Wei , Chen Ting , Deng Jiehui , Ranieri Michela , Fang Zhaoyuan , Pyon Val , Dowling Catríona M. , Bagdatlioglu Ece , Almonte Christina , Labbe Kristen , Silver Heather , Rabin Alexandra R. , Jani Kandarp , Tsirigos Aristotelis , Papagiannakopoulos Thales , Hammerman Peter S. , Velcheti Vamsidhar , Freeman Gordon J. , Qi Jun , Miller George , Wong Kwok-Kin
Published: April 2023

ATAC-seq in KP cells and the up-regulation of CSF2 by ASF1A knockdown in H2009 cells
Figure S10 from In Vivo Epigenetic CRISPR Screen Identifies Asf1a as an Immunotherapeutic Target in Kras-Mutant Lung Adenocarcinoma
Authors: Li Fei , Huang Qingyuan , Luster Troy A. , Hu Hai , Zhang Hua , Ng Wai-Lung , Khodadadi-Jamayran Alireza , Wang Wei , Chen Ting , Deng Jiehui , Ranieri Michela , Fang Zhaoyuan , Pyon Val , Dowling Catríona M. , Bagdatlioglu Ece , Almonte Christina , Labbe Kristen , Silver Heather , Rabin Alexandra R. , Jani Kandarp , Tsirigos Aristotelis , Papagiannakopoulos Thales , Hammerman Peter S. , Velcheti Vamsidhar , Freeman Gordon J. , Qi Jun , Miller George , Wong Kwok-Kin
Published: April 2023

Alterations of myeloid populations in an orthotopic KP lung tumor model with short-term treatment
Supplementary Figure All from Lower Airway Dysbiosis Affects Lung Cancer Progression
Authors: Tsay Jun-Chieh J. , Wu Benjamin G. , Sulaiman Imran , Gershner Katherine , Schluger Rosemary , Li Yonghua , Yie Ting-An , Meyn Peter , Olsen Evan , Perez Luisannay , Franca Brendan , Carpenito Joseph , Iizumi Tadasu , El-Ashmawy Mariam , Badri Michelle , Morton James T. , Shen Nan , He Linchen , Michaud Gaetane , Rafeq Samaan , Bessich Jamie L. , Smith Robert L. , Sauthoff Harald , Felner Kevin , Pillai Ray , Zavitsanou Anastasia-Maria , Koralov Sergei B. , Mezzano Valeria , Loomis Cynthia A. , Moreira Andre L. , Moore William , Tsirigos Aristotelis , Heguy Adriana , Rom William N. , Sterman Daniel H. , Pass Harvey I. , Clemente Jose C. , Li Huilin , Bonneau Richard , Wong Kwok-Kin , Papagiannakopoulos Thales , Segal Leopoldo N.
Published: April 2023

Supplementary Figure 1-23
Supplementary Tables from Circulating Tumor Cells Exhibit Metastatic Tropism and Reveal Brain Metastasis Drivers
Authors: Klotz Remi , Thomas Amal , Teng Teng , Han Sung Min , Iriondo Oihana , Li Lin , Restrepo-Vassalli Sara , Wang Alan , Izadian Negeen , MacKay Matthew , Moon Byoung-San , Liu Kevin J. , Ganesan Sathish Kumar , Lee Grace , Kang Diane S. , Walmsley Charlotte S. , Pinto Christopher , Press Michael F. , Lu Wange , Lu Janice , Juric Dejan , Bardia Aditya , Hicks James , Salhia Bodour , Attenello Frank , Smith Andrew D. , Yu Min
Published: April 2023

Includes supplementary tables S1, S2, S5, S6, S7 and S9
Table S8 from Somatic Mutations Drive Specific, but Reversible, Epigenetic Heterogeneity States in AML
Authors: Li Sheng , Chen Xiaowen , Wang Jiahui , Meydan Cem , Glass Jacob L. , Shih Alan H. , Delwel Ruud , Levine Ross L. , Mason Christopher E. , Melnick Ari M.
Published: April 2023

Patient information of all AML subtypes
Table S3 from Somatic Mutations Drive Specific, but Reversible, Epigenetic Heterogeneity States in AML
Authors: Li Sheng , Chen Xiaowen , Wang Jiahui , Meydan Cem , Glass Jacob L. , Shih Alan H. , Delwel Ruud , Levine Ross L. , Mason Christopher E. , Melnick Ari M.
Published: April 2023

Genes containing eloci within their promoters in each AML subtype
Table S2 from Somatic Mutations Drive Specific, but Reversible, Epigenetic Heterogeneity States in AML
Authors: Li Sheng , Chen Xiaowen , Wang Jiahui , Meydan Cem , Glass Jacob L. , Shih Alan H. , Delwel Ruud , Levine Ross L. , Mason Christopher E. , Melnick Ari M.
Published: April 2023

MSigDB curated gene set enrichment analysis for AML subtype-specific eloci
TableS3.docx from Prognostic and Predictive Impact of Circulating Tumor DNA in Patients with Advanced Cancers Treated with Immune Checkpoint Blockade
Authors: Zhang Qu , Luo Jia , Wu Song , Si Han , Gao Chen , Xu Wenjing , Abdullah Shaad E. , Higgs Brandon W. , Dennis Phillip A. , van der Heijden Michiel S. , Segal Neil H. , Chaft Jamie E. , Hembrough Todd , Barrett J. Carl , Hellmann Matthew D.
Published: April 2023

Table S3
TableS2.docx from Prognostic and Predictive Impact of Circulating Tumor DNA in Patients with Advanced Cancers Treated with Immune Checkpoint Blockade
Authors: Zhang Qu , Luo Jia , Wu Song , Si Han , Gao Chen , Xu Wenjing , Abdullah Shaad E. , Higgs Brandon W. , Dennis Phillip A. , van der Heijden Michiel S. , Segal Neil H. , Chaft Jamie E. , Hembrough Todd , Barrett J. Carl , Hellmann Matthew D.
Published: April 2023

Table S2
CD-20-0047R2_Supplementary_Figure_3.pdf from Prognostic and Predictive Impact of Circulating Tumor DNA in Patients with Advanced Cancers Treated with Immune Checkpoint Blockade
Authors: Zhang Qu , Luo Jia , Wu Song , Si Han , Gao Chen , Xu Wenjing , Abdullah Shaad E. , Higgs Brandon W. , Dennis Phillip A. , van der Heijden Michiel S. , Segal Neil H. , Chaft Jamie E. , Hembrough Todd , Barrett J. Carl , Hellmann Matthew D.
Published: April 2023

Figure S3
Supplementary Data from Efficacy and Determinants of Response to HER Kinase Inhibition in HER2-Mutant Metastatic Breast Cancer
Authors: Smyth Lillian M. , Piha-Paul Sarina A. , Won Helen H. , Schram Alison M. , Saura Cristina , Loi Sherene , Lu Janice , Shapiro Geoffrey I. , Juric Dejan , Mayer Ingrid A. , Arteaga Carlos L. , de la Fuente Macarena I. , Brufksy Adam M. , Spanggaard Iben , Mau-Sørensen Morten , Arnedos Monica , Moreno Victor , Boni Valentina , Sohn Joohyuk , Schwartzberg Lee S. , Gonzàlez-Farré Xavier , Cervantes Andrés , Bidard François-Clement , Gorelick Alexander N. , Lanman Richard B. , Nagy Rebecca J. , Ulaner Gary A. , Chandarlapaty Sarat , Jhaveri Komal , Gavrila Elena I. , Zimel Catherine , Selcuklu S. Duygu , Melcer Myra , Samoila Aliaksandra , Cai Yanyan , Scaltriti Maurizio , Mann Grace , Xu Feng , Eli Lisa D. , Dujka Melanie , Lalani Alshad S. , Bryce Richard , Baselga José , Taylor Barry S. , Solit David B. , Meric-Bernstam Funda , Hyman David M.
Published: April 2023

Supplementary data
Supplementary Data from Regulatory T-cell Depletion Alters the Tumor Microenvironment and Accelerates Pancreatic Carcinogenesis
Authors: Zhang Yaqing , Lazarus Jenny , Steele Nina G. , Yan Wei , Lee Ho-Joon , Nwosu Zeribe C. , Halbrook Christopher J. , Menjivar Rosa E. , Kemp Samantha B. , Sirihorachai Veerin R. , Velez-Delgado Ashley , Donahue Katelyn , Carpenter Eileen S. , Brown Kristee L. , Irizarry-Negron Valerie , Nevison Anna C. , Vinta Alekya , Anderson Michelle A. , Crawford Howard C. , Lyssiotis Costas A. , Frankel Timothy L. , Bednar Filip , Pasca di Magliano Marina
Published: April 2023

Supplemental figure 1 with legend
Supplementary Data from Regulatory T-cell Depletion Alters the Tumor Microenvironment and Accelerates Pancreatic Carcinogenesis
Authors: Zhang Yaqing , Lazarus Jenny , Steele Nina G. , Yan Wei , Lee Ho-Joon , Nwosu Zeribe C. , Halbrook Christopher J. , Menjivar Rosa E. , Kemp Samantha B. , Sirihorachai Veerin R. , Velez-Delgado Ashley , Donahue Katelyn , Carpenter Eileen S. , Brown Kristee L. , Irizarry-Negron Valerie , Nevison Anna C. , Vinta Alekya , Anderson Michelle A. , Crawford Howard C. , Lyssiotis Costas A. , Frankel Timothy L. , Bednar Filip , Pasca di Magliano Marina
Published: April 2023

Supplemental figure 2 with legend
Supplementary Data from Regulatory T-cell Depletion Alters the Tumor Microenvironment and Accelerates Pancreatic Carcinogenesis
Authors: Zhang Yaqing , Lazarus Jenny , Steele Nina G. , Yan Wei , Lee Ho-Joon , Nwosu Zeribe C. , Halbrook Christopher J. , Menjivar Rosa E. , Kemp Samantha B. , Sirihorachai Veerin R. , Velez-Delgado Ashley , Donahue Katelyn , Carpenter Eileen S. , Brown Kristee L. , Irizarry-Negron Valerie , Nevison Anna C. , Vinta Alekya , Anderson Michelle A. , Crawford Howard C. , Lyssiotis Costas A. , Frankel Timothy L. , Bednar Filip , Pasca di Magliano Marina
Published: April 2023

Supplemental figure 6 with legend
Supplementary Figure 6 from The TP53 Apoptotic Network Is a Primary Mediator of Resistance to BCL2 Inhibition in AML Cells
Authors: Nechiporuk Tamilla , Kurtz Stephen E. , Nikolova Olga , Liu Tingting , Jones Courtney L. , D'Alessandro Angelo , Culp-Hill Rachel , d'Almeida Amanda , Joshi Sunil K. , Rosenberg Mara , Tognon Cristina E. , Danilov Alexey V. , Druker Brian J. , Chang Bill H. , McWeeney Shannon K , Tyner Jeffrey W.
Published: April 2023

Response to entrectinib on AML patient samples with TP53 mutations in vivo and expression of RUNX1 isoforms in AML patient samples and MOLM13 parental and CRISPR modified cells.
Supplementary Figure 2 from The TP53 Apoptotic Network Is a Primary Mediator of Resistance to BCL2 Inhibition in AML Cells
Authors: Nechiporuk Tamilla , Kurtz Stephen E. , Nikolova Olga , Liu Tingting , Jones Courtney L. , D'Alessandro Angelo , Culp-Hill Rachel , d'Almeida Amanda , Joshi Sunil K. , Rosenberg Mara , Tognon Cristina E. , Danilov Alexey V. , Druker Brian J. , Chang Bill H. , McWeeney Shannon K , Tyner Jeffrey W.
Published: April 2023

Metabolites analyzed for the various metabolic pathways for TP53 and BAX KO cells in comparison to non-targeting control.
Supplementary Figure 1 from The TP53 Apoptotic Network Is a Primary Mediator of Resistance to BCL2 Inhibition in AML Cells
Authors: Nechiporuk Tamilla , Kurtz Stephen E. , Nikolova Olga , Liu Tingting , Jones Courtney L. , D'Alessandro Angelo , Culp-Hill Rachel , d'Almeida Amanda , Joshi Sunil K. , Rosenberg Mara , Tognon Cristina E. , Danilov Alexey V. , Druker Brian J. , Chang Bill H. , McWeeney Shannon K , Tyner Jeffrey W.
Published: April 2023

Confirmation of CRISPR KOs in MOLM13, MV4;11 and OCI-AML2 cells and additional apoptotic protein profiles in MOLM13 cells.
Supplementary Figures and Legends from Loss of EZH2 Reprograms BCAA Metabolism to Drive Leukemic Transformation
Authors: Gu Zhimin , Liu Yuxuan , Cai Feng , Patrick McKenzie , Zmajkovic Jakub , Cao Hui , Zhang Yuannyu , Tasdogan Alpaslan , Chen Mingyi , Qi Le , Liu Xin , Li Kailong , Lyu Junhua , Dickerson Kathryn E. , Chen Weina , Ni Min , Merritt Matthew E. , Morrison Sean J. , Skoda Radek C. , DeBerardinis Ralph J. , Xu Jian
Published: April 2023

Supplementary Figures and Legends combined file contains 14 supplementary figures
Supplementary Data from Genetically Defined Syngeneic Mouse Models of Ovarian Cancer as Tools for the Discovery of Combination Immunotherapy
Authors: Iyer Sonia , Zhang Shuang , Yucel Simge , Horn Heiko , Smith Sean G. , Reinhardt Ferenc , Hoefsmit Esmee , Assatova Bimarzhan , Casado Julia , Meinsohn Marie-Charlotte , Barrasa M. Inmaculada , Bell George W. , Pérez-Villatoro Fernando , Huhtinen Kaisa , Hynninen Johanna , Oikkonen Jaana , Galhenage Pamoda M. , Pathania Shailja , Hammond Paula T. , Neel Benjamin G. , Farkkila Anniina , Pépin David , Weinberg Robert A.
Published: April 2023

Supplementary data includes suppl methods, FigS1-7ï¼Œ Table S1-6, Methods Tables 1-5
Table S3 from The Phenotypes of Proliferating Glioblastoma Cells Reside on a Single Axis of Variation
Authors: Wang Lin , Babikir Husam , Müller Sören , Yagnik Garima , Shamardani Karin , Catalan Francisca , Kohanbash Gary , Alvarado Beatriz , Di Lullo Elizabeth , Kriegstein Arnold , Shah Sumedh , Wadhwa Harsh , Chang Susan M. , Phillips Joanna J. , Aghi Manish K. , Diaz Aaron A.
Published: April 2023

Table S3: Differentially expressed genes between mesenchymal and proneural cells.
Table S1 from The Phenotypes of Proliferating Glioblastoma Cells Reside on a Single Axis of Variation
Authors: Wang Lin , Babikir Husam , Müller Sören , Yagnik Garima , Shamardani Karin , Catalan Francisca , Kohanbash Gary , Alvarado Beatriz , Di Lullo Elizabeth , Kriegstein Arnold , Shah Sumedh , Wadhwa Harsh , Chang Susan M. , Phillips Joanna J. , Aghi Manish K. , Diaz Aaron A.
Published: April 2023

Table S1: Clinical and molecular characteristics of the glioma cases profiled by scRNA-seq.
Supplementary Figures from The Phenotypes of Proliferating Glioblastoma Cells Reside on a Single Axis of Variation
Authors: Wang Lin , Babikir Husam , Müller Sören , Yagnik Garima , Shamardani Karin , Catalan Francisca , Kohanbash Gary , Alvarado Beatriz , Di Lullo Elizabeth , Kriegstein Arnold , Shah Sumedh , Wadhwa Harsh , Chang Susan M. , Phillips Joanna J. , Aghi Manish K. , Diaz Aaron A.
Published: April 2023

Supplementary Figures
Supplementary Table S4 from Rational Targeting of Cooperating Layers of the Epigenome Yields Enhanced Therapeutic Efficacy against AML
Authors: Duy Cihangir , Teater Matt , Garrett-Bakelman Francine E. , Lee Tak C. , Meydan Cem , Glass Jacob L. , Li Meng , Hellmuth Johannes C. , Mohammad Helai P. , Smitheman Kimberly N. , Shih Alan H. , Abdel-Wahab Omar , Tallman Martin S. , Guzman Monica L. , Muench David , Grimes H. Leighton , Roboz Gail J. , Kruger Ryan G. , Creasy Caretha L. , Paietta Elisabeth M. , Levine Ross L. , Carroll Martin , Melnick Ari M.
Published: April 2023

Primary AML
Figure S4 from Oncogenic KRAS Induces NIX-Mediated Mitophagy to Promote Pancreatic Cancer
Authors: Humpton Timothy J. , Alagesan Brinda , DeNicola Gina M. , Lu Dan , Yordanov Georgi N. , Leonhardt Carl S. , Yao Melissa A. , Alagesan Priya , Zaatari Maya N. , Park Youngkyu , Skepper Jeremy N. , Macleod Kay F. , Perez-Mancera Pedro A. , Murphy Michael P. , Evan Gerard I. , Vousden Karen H. , Tuveson David A.
Published: April 2023

Supp figure 4
Supplementary Table 1 from Clinical BRCA1/2 Reversion Analysis Identifies Hotspot Mutations and Predicted Neoantigens Associated with Therapy Resistance
Authors: Pettitt Stephen J. , Frankum Jessica R. , Punta Marco , Lise Stefano , Alexander John , Chen Yi , Yap Timothy A. , Haider Syed , Tutt Andrew N.J. , Lord Christopher J.
Published: April 2023

Studies included
Supplementary Data from Clinical BRCA1/2 Reversion Analysis Identifies Hotspot Mutations and Predicted Neoantigens Associated with Therapy Resistance
Authors: Pettitt Stephen J. , Frankum Jessica R. , Punta Marco , Lise Stefano , Alexander John , Chen Yi , Yap Timothy A. , Haider Syed , Tutt Andrew N.J. , Lord Christopher J.
Published: April 2023

Supplementary Figures 1-8
Supplemental Tables 5-7 from Netrin G1 Promotes Pancreatic Tumorigenesis through Cancer-Associated Fibroblast–Driven Nutritional Support and Immunosuppression
Authors: Francescone Ralph , Barbosa Vendramini-Costa Débora , Franco-Barraza Janusz , Wagner Jessica , Muir Alexander , Lau Allison N. , Gabitova Linara , Pazina Tatiana , Gupta Sapna , Luong Tiffany , Rollins Dustin , Malik Ruchi , Thapa Roshan J. , Restifo Diana , Zhou Yan , Cai Kathy Q. , Hensley Harvey H. , Tan Yinfei , Kruger Warren D. , Devarajan Karthik , Balachandran Siddharth , Klein-Szanto Andres J. , Wang Huamin , El-Deiry Wafik S. , Vander Heiden Matthew G. , Peri Suraj , Campbell Kerry S. , Astsaturov Igor , Cukierman Edna
Published: April 2023

Sup Tables 5-7- Amino Acid Biochrom
Supplemental Table 4 from Netrin G1 Promotes Pancreatic Tumorigenesis through Cancer-Associated Fibroblast–Driven Nutritional Support and Immunosuppression
Authors: Francescone Ralph , Barbosa Vendramini-Costa Débora , Franco-Barraza Janusz , Wagner Jessica , Muir Alexander , Lau Allison N. , Gabitova Linara , Pazina Tatiana , Gupta Sapna , Luong Tiffany , Rollins Dustin , Malik Ruchi , Thapa Roshan J. , Restifo Diana , Zhou Yan , Cai Kathy Q. , Hensley Harvey H. , Tan Yinfei , Kruger Warren D. , Devarajan Karthik , Balachandran Siddharth , Klein-Szanto Andres J. , Wang Huamin , El-Deiry Wafik S. , Vander Heiden Matthew G. , Peri Suraj , Campbell Kerry S. , Astsaturov Igor , Cukierman Edna
Published: April 2023

RNAseq
Supplemental Table 2 from Netrin G1 Promotes Pancreatic Tumorigenesis through Cancer-Associated Fibroblast–Driven Nutritional Support and Immunosuppression
Authors: Francescone Ralph , Barbosa Vendramini-Costa Débora , Franco-Barraza Janusz , Wagner Jessica , Muir Alexander , Lau Allison N. , Gabitova Linara , Pazina Tatiana , Gupta Sapna , Luong Tiffany , Rollins Dustin , Malik Ruchi , Thapa Roshan J. , Restifo Diana , Zhou Yan , Cai Kathy Q. , Hensley Harvey H. , Tan Yinfei , Kruger Warren D. , Devarajan Karthik , Balachandran Siddharth , Klein-Szanto Andres J. , Wang Huamin , El-Deiry Wafik S. , Vander Heiden Matthew G. , Peri Suraj , Campbell Kerry S. , Astsaturov Igor , Cukierman Edna
Published: April 2023

TMA Clinical Data