bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Tables S1 - S4 from Genomic Complexity Profiling Reveals That HORMAD1 Overexpression Contributes to Homologous Recombination Deficiency in Triple-Negative Breast Cancers
Authors: Watkins Johnathan , Weekes Daniel , Shah Vandna , Gazinska Patrycja , Joshi Shalaka , Sidhu Bhavna , Gillett Cheryl , Pinder Sarah , Vanoli Fabio , Jasin Maria , Mayrhofer Markus , Isaksson Anders , Cheang Maggie C.U. , Mirza Hasan , Frankum Jessica , Lord Christopher J. , Ashworth Alan , Vinayak Shaveta , Ford James M. , Telli Melinda L. , Grigoriadis Anita , Tutt Andrew N.J.
Published: April 2023

Supplementary Table S1. KCL TNBC and breast cell line cohort characteristics. Supplementary Table S2. Categories of genomic segment used as the basis for measuring SCINS. Supplementary Table S3. Genes expressed in a SAM of different SCINS clusters. Supplementary Table S4. Gene expression signatures of genomic instability.
Supplementary Methods, Figure Legends, Table Legends from Genomic Complexity Profiling Reveals That HORMAD1 Overexpression Contributes to Homologous Recombination Deficiency in Triple-Negative Breast Cancers
Authors: Watkins Johnathan , Weekes Daniel , Shah Vandna , Gazinska Patrycja , Joshi Shalaka , Sidhu Bhavna , Gillett Cheryl , Pinder Sarah , Vanoli Fabio , Jasin Maria , Mayrhofer Markus , Isaksson Anders , Cheang Maggie C.U. , Mirza Hasan , Frankum Jessica , Lord Christopher J. , Ashworth Alan , Vinayak Shaveta , Ford James M. , Telli Melinda L. , Grigoriadis Anita , Tutt Andrew N.J.
Published: April 2023

Supplementary Methods, Figure Legends, Table Legends
Supplementary File from Genomic Complexity Profiling Reveals That HORMAD1 Overexpression Contributes to Homologous Recombination Deficiency in Triple-Negative Breast Cancers
Authors: Watkins Johnathan , Weekes Daniel , Shah Vandna , Gazinska Patrycja , Joshi Shalaka , Sidhu Bhavna , Gillett Cheryl , Pinder Sarah , Vanoli Fabio , Jasin Maria , Mayrhofer Markus , Isaksson Anders , Cheang Maggie C.U. , Mirza Hasan , Frankum Jessica , Lord Christopher J. , Ashworth Alan , Vinayak Shaveta , Ford James M. , Telli Melinda L. , Grigoriadis Anita , Tutt Andrew N.J.
Published: April 2023

SWEAVE document. R code for SCINS analysis.
Supplementary Figure 6 from High-Level Clonal FGFR Amplification and Response to FGFR Inhibition in a Translational Clinical Trial
Authors: Pearson Alex , Smyth Elizabeth , Babina Irina S. , Herrera-Abreu Maria Teresa , Tarazona Noelia , Peckitt Clare , Kilgour Elaine , Smith Neil R. , Geh Catherine , Rooney Claire , Cutts Ros , Campbell James , Ning Jian , Fenwick Kerry , Swain Amanda , Brown Gina , Chua Sue , Thomas Anne , Johnston Stephen R.D. , Ajaz Mazhar , Sumpter Katherine , Gillbanks Angela , Watkins David , Chau Ian , Popat Sanjay , Cunningham David , Turner Nicholas C.
Published: April 2023

Models of PI3 kinase-AKT signalling in FGFR driven cell lines.
Supplementary Tables S1 - S12 from Whole Genome Sequencing Defines the Genetic Heterogeneity of Familial Pancreatic Cancer
Authors: Roberts Nicholas J. , Norris Alexis L. , Petersen Gloria M. , Bondy Melissa L. , Brand Randall , Gallinger Steven , Kurtz Robert C. , Olson Sara H. , Rustgi Anil K. , Schwartz Ann G. , Stoffel Elena , Syngal Sapna , Zogopoulos George , Ali Syed Z. , Axilbund Jennifer , Chaffee Kari G. , Chen Yun-Ching , Cote Michele L. , Childs Erica J. , Douville Christopher , Goes Fernando S. , Herman Joseph M. , Iacobuzio-Donahue Christine , Kramer Melissa , Makohon-Moore Alvin , McCombie Richard W. , McMahon K. Wyatt , Niknafs Noushin , Parla Jennifer , Pirooznia Mehdi , Potash James B. , Rhim Andrew D. , Smith Alyssa L. , Wang Yuxuan , Wolfgang Christopher L. , Wood Laura D. , Zandi Peter P. , Goggins Michael , Karchin Rachel , Eshleman James R. , Papadopoulos Nickolas , Kinzler Kenneth W. , Vogelstein Bert , Hruban Ralph H. , Klein Alison P.
Published: April 2023

Supplementary Tables S1 - S12. Supplementary Table S1. Prioritization of candidate FPC susceptibility genes by private heterozygous PTVs. Supplementary Table S2. FPC patients harboring a private PTVs ASXL1, DNMT3A, and TET2. Supplementary Table S3. 87 genes analyzed in-depth in FPC patients and kindreds. Supplementary Table S4. Deleterious variants in FPC patients and kindreds. Supplementary Table S5. FPC samples with more than one deleterious variant. Supplementary Table S6. Deleterious variants in BCCS samples. Supplementary Table S7. Deleterious variants in FPC kindreds and BCCS samples. Supplementary Table S8. Differences in deleterious variants between FPC kindreds with three or more affected members and BCCS samples. Supplementary Table S9. Private heterozygous PTVs present in all sequenced affected members of a kindred. Supplementary Table S10. Deleterious variants shared between affected members of an FPC kindred. Supplementary Table S11. Somatic mutations in FPC patient tumors. Supplementary Table S12. Summary of somatic mutation data for FPC patient tumors by gene.
Supplementary Figure 5 from High-Level Clonal FGFR Amplification and Response to FGFR Inhibition in a Translational Clinical Trial
Authors: Pearson Alex , Smyth Elizabeth , Babina Irina S. , Herrera-Abreu Maria Teresa , Tarazona Noelia , Peckitt Clare , Kilgour Elaine , Smith Neil R. , Geh Catherine , Rooney Claire , Cutts Ros , Campbell James , Ning Jian , Fenwick Kerry , Swain Amanda , Brown Gina , Chua Sue , Thomas Anne , Johnston Stephen R.D. , Ajaz Mazhar , Sumpter Katherine , Gillbanks Angela , Watkins David , Chau Ian , Popat Sanjay , Cunningham David , Turner Nicholas C.
Published: April 2023

Investigation of PI3K-AKT signalling in FGFR amplified cell lines.
Supplementary Tables S1 - S7 from Integrin-α10 Dependency Identifies RAC and RICTOR as Therapeutic Targets in High-Grade Myxofibrosarcoma
Authors: Okada Tomoyo , Lee Ann Y. , Qin Li-Xuan , Agaram Narasimhan , Mimae Takahiro , Shen Yawei , O'Connor Rachael , López-Lago Miguel A. , Craig Amanda , Miller Martin L. , Agius Phaedra , Molinelli Evan , Socci Nicholas D. , Crago Aimee M. , Shima Fumi , Sander Chris , Singer Samuel
Published: April 2023

Supplementary Table S1, patient characteristics. Supplementary Table S2, genes in the signature distinguishing Cluster 1 and Cluster 2. Supplementary Table S3, genes associated with disease-specific survival. Supplementary Table S4, pathway modules identified by NetBox. Supplementary Table S5, functional annotation enrichment analysis. Supplementary Table S6, antibodies used. Supplementary Table S7, samples analyzed for ITGA10 mRNA in the comparison of primary and metastatic tissue.
Supplementary Table 4 from LncRNA GClnc1 Promotes Gastric Carcinogenesis and May Act as a Modular Scaffold of WDR5 and KAT2A Complexes to Specify the Histone Modification Pattern
Authors: Sun Tian-Tian , He Jie , Liang Qian , Ren Lin-Lin , Yan Ting-Ting , Yu Ta-Chung , Tang Jia-Yin , Bao Yu-Jie , Hu Ye , Lin Yanwei , Sun Danfeng , Chen Ying-Xuan , Hong Jie , Chen Haoyan , Zou Weiping , Fang Jing-Yuan
Published: April 2023

Supplementary Table 4. RNA-seq analysis in BGC823 cells after GClnc1 shRNA and control shRNA transfection.
Supplementary Table 3 from Oncogenic Deregulation of EZH2 as an Opportunity for Targeted Therapy in Lung Cancer
Authors: Zhang Haikuo , Qi Jun , Reyes Jaime M. , Li Lewyn , Rao Prakash K. , Li Fugen , Lin Charles Y. , Perry Jennifer A. , Lawlor Matthew A. , Federation Alexander , De Raedt Thomas , Li Yvonne Y. , Liu Yan , Duarte Melissa A. , Zhang Yanxi , Herter-Sprie Grit S. , Kikuchi Eiki , Carretero Julian , Perou Charles M. , Reibel Jacob B. , Paulk Joshiawa , Bronson Roderick T. , Watanabe Hideo , Brainson Christine Fillmore , Kim Carla F. , Hammerman Peter S. , Brown Myles , Cichowski Karen , Long Henry , Bradner James E. , Wong Kwok-Kin
Published: April 2023

Supplementary Table 3. Quality Control of RNA-Sequencing Data.
Supplementary Tables 1 through 13 from Epigenomic Promoter Alterations Amplify Gene Isoform and Immunogenic Diversity in Gastric Adenocarcinoma
Authors: Qamra Aditi , Xing Manjie , Padmanabhan Nisha , Kwok Jeffrey Jun Ting , Zhang Shenli , Xu Chang , Leong Yan Shan , Lee Lim Ai Ping , Tang Qianqao , Ooi Wen Fong , Suling Lin Joyce , Nandi Tannistha , Yao Xiaosai , Ong Xuewen , Lee Minghui , Tay Su Ting , Keng Angie Tan Lay , Gondo Santoso Erna , Ng Cedric Chuan Young , Ng Alvin , Jusakul Apinya , Smoot Duane , Ashktorab Hassan , Rha Sun Young , Yeoh Khay Guan , Peng Yong Wei , Chow Pierce K.H. , Chan Weng Hoong , Ong Hock Soo , Soo Khee Chee , Kim Kyoung-Mee , Wong Wai Keong , Rozen Steven G. , Teh Bin Tean , Kappei Dennis , Lee Jeeyun , Connolly John , Tan Patrick
Published: April 2023

Supplementary Table 1: Clinicopathological Parameters of samples used Supplementary Table 2: Read Mapping Statistics of NanoChIP-seq Libraries Supplementary Table 3: Non coding RNAs associated with Somatic Promoters Supplementary Table 4: Alternative Promoters Supplementary Table 5: Spectral Counts from CRC samples of N terminal peptides predicted to be gained in GC Supplementary Table 6: HLA prediction of GC samples Supplementary Table 7: Recurrent N terminal sequences with high affinity to MHC Class I Supplementary Table 8: P values of Wilcoxon test between ACRG samples with high and low somatic promoter usage Supplementary Table 9: HLA types of healthy PBMC donors Supplementary Table 10: Peptide pools for alternative promoters Supplementary Table 11: Cytokine Responses of N terminal Peptides Supplementary Table 12: Somatic Promoters Overlapping EZH2/SUZ12 Binding Sites Supplementary Table 13: RACE Primers
Figures S1-S16 from Crebbp Loss Drives Small Cell Lung Cancer and Increases Sensitivity to HDAC Inhibition
Authors: Jia Deshui , Augert Arnaud , Kim Dong-Wook , Eastwood Emily , Wu Nan , Ibrahim Ali H. , Kim Kee-Beom , Dunn Colin T. , Pillai Smitha P.S. , Gazdar Adi F. , Bolouri Hamid , Park Kwon-Sik , MacPherson David
Published: April 2023

Supplementary Figures S1 to S16
Supplementary Materials from MYC Drives a Subset of High-Risk Pediatric Neuroblastomas and Is Activated through Mechanisms Including Enhancer Hijacking and Focal Enhancer Amplification
Authors: Zimmerman Mark W. , Liu Yu , He Shuning , Durbin Adam D. , Abraham Brian J. , Easton John , Shao Ying , Xu Beisi , Zhu Shizhen , Zhang Xiaoling , Li Zhaodong , Weichert-Leahey Nina , Young Richard A. , Zhang Jinghui , Look A. Thomas
Published: April 2023

All supplemental methods, tables, figures and references
Supplementary Figure 6 from Cabozantinib Eradicates Advanced Murine Prostate Cancer by Activating Antitumor Innate Immunity
Authors: Patnaik Akash , Swanson Kenneth D. , Csizmadia Eva , Solanki Aniruddh , Landon-Brace Natalie , Gehring Marina P. , Helenius Katja , Olson Brian M. , Pyzer Athalia R. , Wang Lily C. , Elemento Olivier , Novak Jesse , Thornley Thomas B. , Asara John M. , Montaser Laleh , Timmons Joshua J. , Morgan Todd M. , Wang Yugang , Levantini Elena , Clohessy John G. , Kelly Kathleen , Pandolfi Pier Paolo , Rosenblatt Jacalyn M. , Avigan David E. , Ye Huihui , Karp Jeffrey M. , Signoretti Sabina , Balk Steven P. , Cantley Lewis C.
Published: April 2023

Cabozantinib-mediated tumor clearance is independent of NK and T cells.
Supplementary Figure Legends from Discovery and Optimization of HKT288, a Cadherin-6–Targeting ADC for the Treatment of Ovarian and Renal Cancers
Authors: Bialucha Carl U. , Collins Scott D. , Li Xiao , Saxena Parmita , Zhang Xiamei , Dürr Clemens , Lafont Bruno , Prieur Pierric , Shim Yeonju , Mosher Rebecca , Lee David , Ostrom Lance , Hu Tiancen , Bilic Sanela , Rajlic Ivana Liric , Capka Vladimir , Jiang Wei , Wagner Joel P. , Elliott GiNell , Veloso Artur , Piel Jessica C. , Flaherty Meghan M. , Mansfield Keith G. , Meseck Emily K. , Rubic-Schneider Tina , London Anne Serdakowski , Tschantz William R. , Kurz Markus , Nguyen Duc , Bourret Aaron , Meyer Matthew J. , Faris Jason E. , Janatpour Mary J. , Chan Vivien W. , Yoder Nicholas C. , Catcott Kalli C. , McShea Molly A. , Sun Xiuxia , Gao Hui , Williams Juliet , Hofmann Francesco , Engelman Jeffrey A. , Ettenberg Seth A. , Sellers William R. , Lees Emma
Published: April 2023

This file contains the figure legends for supplementary figures S1-S7.
Supp Video from Secondary Somatic Mutations Restoring RAD51C and RAD51D Associated with Acquired Resistance to the PARP Inhibitor Rucaparib in High-Grade Ovarian Carcinoma
Authors: Kondrashova Olga , Nguyen Minh , Shield-Artin Kristy , Tinker Anna V. , Teng Nelson N.H. , Harrell Maria I. , Kuiper Michael J. , Ho Gwo-Yaw , Barker Holly , Jasin Maria , Prakash Rohit , Kass Elizabeth M. , Sullivan Meghan R. , Brunette Gregory J. , Bernstein Kara A. , Coleman Robert L. , Floquet Anne , Friedlander Michael , Kichenadasse Ganessan , O'Malley David M. , Oza Amit , Sun James , Robillard Liliane , Maloney Lara , Bowtell David , Giordano Heidi , Wakefield Matthew J. , Kaufmann Scott H. , Simmons Andrew D. , Harding Thomas C. , Raponi Mitch , McNeish Iain A. , Swisher Elizabeth M. , Lin Kevin K. , Scott Clare L.
Published: April 2023

Molecular Dynamics Modeling of WT RAD51D monofilament interaction with dsDNA.
SuppTable2 from Identifying and Targeting Sporadic Oncogenic Genetic Aberrations in Mouse Models of Triple-Negative Breast Cancer
Authors: Liu Hui , Murphy Charles J. , Karreth Florian A. , Emdal Kristina B. , White Forest M. , Elemento Olivier , Toker Alex , Wulf Gerburg M. , Cantley Lewis C.
Published: April 2023

Supplementary table 2 lists all mutations
Supplementary Tables S1 through S3 from Identification of a DNA Damage–Induced Alternative Splicing Pathway That Regulates p53 and Cellular Senescence Markers
Authors: Chen Jing , Crutchley John , Zhang Dadong , Owzar Kouros , Kastan Michael B.
Published: April 2023

Table S1: Top 20 pathways altered in control and p53beta CRISPR clones in response to IR. Table S2: Top 20 positive and negative splicing index for a comparison between IR and no IR treated cells. Table S3: siRNA and PCR primer sequences used in this study.
Supplementary Methods and Supplementary Figure Legends from Cell-Cycle Reprogramming for PI3K Inhibition Overrides a Relapse-Specific C481S BTK Mutation Revealed by Longitudinal Functional Genomics in Mantle Cell Lymphoma
Authors: Chiron David , Di Liberto Maurizio , Martin Peter , Huang Xiangao , Sharman Jeff , Blecua Pedro , Mathew Susan , Vijay Priyanka , Eng Ken , Ali Siraj , Johnson Amy , Chang Betty , Ely Scott , Elemento Olivier , Mason Christopher E. , Leonard John P. , Chen-Kiang Selina
Published: April 2023

Supplementary Methods and Supplementary Figure Legends from Cell-Cycle Reprogramming for PI3K Inhibition Overrides a Relapse-Specific C481S BTK Mutation Revealed by Longitudinal Functional Genomics in Mantle Cell Lymphoma
Supplementary Figure S2 from Cell-Cycle Reprogramming for PI3K Inhibition Overrides a Relapse-Specific C481S BTK Mutation Revealed by Longitudinal Functional Genomics in Mantle Cell Lymphoma
Authors: Chiron David , Di Liberto Maurizio , Martin Peter , Huang Xiangao , Sharman Jeff , Blecua Pedro , Mathew Susan , Vijay Priyanka , Eng Ken , Ali Siraj , Johnson Amy , Chang Betty , Ely Scott , Elemento Olivier , Mason Christopher E. , Leonard John P. , Chen-Kiang Selina
Published: April 2023

NIK and p52 of the alternative NF-kappaB pathway are expressed in JEKO-1 MCL cells and not modulated by targeting of CDK4 with PD 0332991 in combination with ibrutinib.
Supplementary Table S6 from Chemotherapy-Resistant Human Acute Myeloid Leukemia Cells Are Not Enriched for Leukemic Stem Cells but Require Oxidative Metabolism
Authors: Farge Thomas , Saland Estelle , de Toni Fabienne , Aroua Nesrine , Hosseini Mohsen , Perry Robin , Bosc Claudie , Sugita Mayumi , Stuani Lucille , Fraisse Marine , Scotland Sarah , Larrue Clément , Boutzen Héléna , Féliu Virginie , Nicolau-Travers Marie-Laure , Cassant-Sourdy Stéphanie , Broin Nicolas , David Marion , Serhan Nizar , Sarry Audrey , Tavitian Suzanne , Kaoma Tony , Vallar Laurent , Iacovoni Jason , Linares Laetitia K. , Montersino Camille , Castellano Rémy , Griessinger Emmanuel , Collette Yves , Duchamp Olivier , Barreira Yara , Hirsch Pierre , Palama Tony , Gales Lara , Delhommeau François , Garmy-Susini Barbara H. , Portais Jean-Charles , Vergez François , Selak Mary , Danet-Desnoyers Gwenn , Carroll Martin , Récher Christian , Sarry Jean-Emmanuel
Published: April 2023

HIGH CD36 gene signature generated from upregulated genes in AML patients that express the most CD36 mRNA compared to that of the lowest expression of CD36 in TCGA cohort.
Supplementary Figure S2 from Adaptive Reprogramming of De Novo Pyrimidine Synthesis Is a Metabolic Vulnerability in Triple-Negative Breast Cancer
Authors: Brown Kristin K. , Spinelli Jessica B. , Asara John M. , Toker Alex
Published: April 2023

Supplementary Figure S2. Inhibition of the de novo pyrimidine synthesis pathway sensitizes TNBC cells to genotoxic chemotherapy.
Supplementary Methods, Figures S1 - S9 from The Genetic Basis of Hepatosplenic T-cell Lymphoma
Authors: McKinney Matthew , Moffitt Andrea B. , Gaulard Philippe , Travert Marion , De Leval Laurence , Nicolae Alina , Raffeld Mark , Jaffe Elaine S. , Pittaluga Stefania , Xi Liqiang , Heavican Tayla , Iqbal Javeed , Belhadj Karim , Delfau-Larue Marie Helene , Fataccioli Virginie , Czader Magdalena B. , Lossos Izidore S. , Chapman-Fredricks Jennifer R. , Richards Kristy L. , Fedoriw Yuri , Ondrejka Sarah L. , Hsi Eric D. , Low Lawrence , Weisenburger Dennis , Chan Wing C. , Mehta-Shah Neha , Horwitz Steven , Bernal-Mizrachi Leon , Flowers Christopher R. , Beaven Anne W. , Parihar Mayur , Baseggio Lucile , Parrens Marie , Moreau Anne , Sujobert Pierre , Pilichowska Monika , Evens Andrew M. , Chadburn Amy , Au-Yeung Rex K.H. , Srivastava Gopesh , Choi William W. L. , Goodlad John R. , Aurer Igor , Basic-Kinda Sandra , Gascoyne Randy D. , Davis Nicholas S. , Li Guojie , Zhang Jenny , Rajagopalan Deepthi , Reddy Anupama , Love Cassandra , Levy Shawn , Zhuang Yuan , Datta Jyotishka , Dunson David B. , Davé Sandeep S.
Published: April 2023

Supplementary Figure S1. Sanger sequencing chromatograms. Supplementary Figure S2. Cancer cell fraction for driver genes. Supplementary Figure S3. Ideogram with chromosome 7 alterations. Supplementary Figure S4. Examples of Exome Copy Number. Supplementary Figure S5. Exploratory Kaplan-Meier plots for clinical covariates. Supplementary Figure S6. Exploratory Kaplan-Meier plots for molecular covariates. Supplementary Figure S7. Sanger and exome sequencing validation of SETD2 biallelic mutation in one HSTL case. Supplementary Figure S8. SETD2 expression in mutant vs. wildtype cases. Supplementary Figure S9. Mutual exclusivity of STAT5B, PIK3CD, and STAT3 mutations.
Supplemental Figures from Early Detection of Molecular Residual Disease in Localized Lung Cancer by Circulating Tumor DNA Profiling
Authors: Chaudhuri Aadel A. , Chabon Jacob J. , Lovejoy Alexander F. , Newman Aaron M. , Stehr Henning , Azad Tej D. , Khodadoust Michael S. , Esfahani Mohammad Shahrokh , Liu Chih Long , Zhou Li , Scherer Florian , Kurtz David M. , Say Carmen , Carter Justin N. , Merriott David J. , Dudley Jonathan C. , Binkley Michael S. , Modlin Leslie , Padda Sukhmani K. , Gensheimer Michael F. , West Robert B. , Shrager Joseph B. , Neal Joel W. , Wakelee Heather A. , Loo Billy W. , Alizadeh Ash A. , Diehn Maximilian
Published: April 2023

Figures S1-S10
Supplementary Movie 2 from ER Translocation of the MAPK Pathway Drives Therapy Resistance in BRAF-Mutant Melanoma
Authors: Ojha Rani , Leli Nektaria M. , Onorati Angelique , Piao Shengfu , Verginadis Ioannis I. , Tameire Feven , Rebecca Vito W. , Chude Cynthia I. , Murugan Sengottuvelan , Fennelly Colin , Noguera-Ortega Estela , Chu Charleen T. , Liu Shujing , Xu Xiaowei , Krepler Clemens , Xiao Min , Xu Wei , Wei Zhi , Frederick Dennie T. , Boland Genevieve , Mitchell Tara C. , Karakousis Giorgos C. , Schuchter Lynn M. , Flaherty Keith T. , Zhang Gao , Herlyn Meenhard , Koumenis Constantinos , Amaravadi Ravi K.
Published: April 2023

ERK translocation from ER to the nucleus
Figures S7-S10 from Discovery of Selective Estrogen Receptor Covalent Antagonists for the Treatment of ERαWT and ERαMUT Breast Cancer
Authors: Puyang Xiaoling , Furman Craig , Zheng Guo Zhu , Wu Zhenhua J. , Banka Deepti , Aithal Kiran , Agoulnik Sergei , Bolduc David M. , Buonamici Silvia , Caleb Benjamin , Das Subhasree , Eckley Sean , Fekkes Peter , Hao Ming-Hong , Hart Andrew , Houtman René , Irwin Sean , Joshi Jaya J. , Karr Craig , Kim Amy , Kumar Namita , Kumar Pavan , Kuznetsov Galina , Lai Weidong G. , Larsen Nicholas , Mackenzie Crystal , Martin Lesley-Ann , Melchers Diana , Moriarty Alyssa , Nguyen Tuong-Vi , Norris John , O'Shea Morgan , Pancholi Sunil , Prajapati Sudeep , Rajagopalan Sujatha , Reynolds Dominic J. , Rimkunas Victoria , Rioux Nathalie , Ribas Ricardo , Siu Amy , Sivakumar Sasirekha , Subramanian Vanitha , Thomas Michael , Vaillancourt Frédéric H. , Wang John , Wardell Suzanne , Wick Michael J. , Yao Shihua , Yu Lihua , Warmuth Markus , Smith Peter G. , Zhu Ping , Korpal Manav
Published: April 2023

C530 residue is critical for H3B-5942 potency
Supplementary Data from EIF1AX and RAS Mutations Cooperate to Drive Thyroid Tumorigenesis through ATF4 and c-MYC
Authors: Krishnamoorthy Gnana P. , Davidson Natalie R. , Leach Steven D. , Zhao Zhen , Lowe Scott W. , Lee Gina , Landa Iňigo , Nagarajah James , Saqcena Mahesh , Singh Kamini , Wendel Hans-Guido , Dogan Snjezana , Tamarapu Prasanna P. , Blenis John , Ghossein Ronald A. , Knauf Jeffrey A. , Rätsch Gunnar , Fagin James A.
Published: April 2023

Figure S1, Figure S2, Figure S3, Figure S4, Figure S5 and Figure S6.
Supplemental Figure Legends from Organoid Profiling Identifies Common Responders to Chemotherapy in Pancreatic Cancer
Authors: Tiriac Hervé , Belleau Pascal , Engle Dannielle D. , Plenker Dennis , Deschênes Astrid , Somerville Tim D. D. , Froeling Fieke E. M. , Burkhart Richard A. , Denroche Robert E. , Jang Gun-Ho , Miyabayashi Koji , Young C. Megan , Patel Hardik , Ma Michelle , LaComb Joseph F. , Palmaira Randze Lerie D. , Javed Ammar A. , Huynh Jasmine C. , Johnson Molly , Arora Kanika , Robine Nicolas , Shah Minita , Sanghvi Rashesh , Goetz Austin B. , Lowder Cinthya Y. , Martello Laura , Driehuis Else , LeComte Nicolas , Askan Gokce , Iacobuzio-Donahue Christine A. , Clevers Hans , Wood Laura D. , Hruban Ralph H. , Thompson Elizabeth , Aguirre Andrew J. , Wolpin Brian M. , Sasson Aaron , Kim Joseph , Wu Maoxin , Bucobo Juan Carlos , Allen Peter , Sejpal Divyesh V. , Nealon William , Sullivan James D. , Winter Jordan M. , Gimotty Phyllis A. , Grem Jean L. , DiMaio Dominick J. , Buscaglia Jonathan M. , Grandgenett Paul M. , Brody Jonathan R. , Hollingsworth Michael A. , O'Kane Grainne M. , Notta Faiyaz , Kim Edward , Crawford James M. , Devoe Craig , Ocean Allyson , Wolfgang Christopher L. , Yu Kenneth H. , Li Ellen , Vakoc Christopher R. , Hubert Benjamin , Fischer Sandra E. , Wilson Julie M. , Moffitt Richard , Knox Jennifer , Krasnitz Alexander , Gallinger Steven , Tuveson David A.
Published: April 2023

Supplemental Figure Legends
Supplementary Movie 7 from Remodeling of the Collagen Matrix in Aging Skin Promotes Melanoma Metastasis and Affects Immune Cell Motility
Authors: Kaur Amanpreet , Ecker Brett L. , Douglass Stephen M. , Kugel Curtis H. , Webster Marie R. , Almeida Filipe V. , Somasundaram Rajasekharan , Hayden James , Ban Ehsan , Ahmadzadeh Hossein , Franco-Barraza Janusz , Shah Neelima , Mellis Ian A. , Keeney Frederick , Kossenkov Andrew , Tang Hsin-Yao , Yin Xiangfan , Liu Qin , Xu Xiaowei , Fane Mitchell , Brafford Patricia , Herlyn Meenhard , Speicher David W. , Wargo Jennifer A. , Tetzlaff Michael T. , Haydu Lauren E. , Raj Arjun , Shenoy Vivek , Cukierman Edna , Weeraratna Ashani T.
Published: April 2023

Supplementary Movie 7
Supplementary Movie 6 from Remodeling of the Collagen Matrix in Aging Skin Promotes Melanoma Metastasis and Affects Immune Cell Motility
Authors: Kaur Amanpreet , Ecker Brett L. , Douglass Stephen M. , Kugel Curtis H. , Webster Marie R. , Almeida Filipe V. , Somasundaram Rajasekharan , Hayden James , Ban Ehsan , Ahmadzadeh Hossein , Franco-Barraza Janusz , Shah Neelima , Mellis Ian A. , Keeney Frederick , Kossenkov Andrew , Tang Hsin-Yao , Yin Xiangfan , Liu Qin , Xu Xiaowei , Fane Mitchell , Brafford Patricia , Herlyn Meenhard , Speicher David W. , Wargo Jennifer A. , Tetzlaff Michael T. , Haydu Lauren E. , Raj Arjun , Shenoy Vivek , Cukierman Edna , Weeraratna Ashani T.
Published: April 2023

Supplementary Movie 6
Supplementary Movie 3 from Remodeling of the Collagen Matrix in Aging Skin Promotes Melanoma Metastasis and Affects Immune Cell Motility
Authors: Kaur Amanpreet , Ecker Brett L. , Douglass Stephen M. , Kugel Curtis H. , Webster Marie R. , Almeida Filipe V. , Somasundaram Rajasekharan , Hayden James , Ban Ehsan , Ahmadzadeh Hossein , Franco-Barraza Janusz , Shah Neelima , Mellis Ian A. , Keeney Frederick , Kossenkov Andrew , Tang Hsin-Yao , Yin Xiangfan , Liu Qin , Xu Xiaowei , Fane Mitchell , Brafford Patricia , Herlyn Meenhard , Speicher David W. , Wargo Jennifer A. , Tetzlaff Michael T. , Haydu Lauren E. , Raj Arjun , Shenoy Vivek , Cukierman Edna , Weeraratna Ashani T.
Published: April 2023

Supplementary Movie 3
Figure S7 from Exploiting Drug Addiction Mechanisms to Select against MAPKi-Resistant Melanoma
Authors: Hong Aayoung , Moriceau Gatien , Sun Lu , Lomeli Shirley , Piva Marco , Damoiseaux Robert , Holmen Sheri L. , Sharpless Norman E. , Hugo Willy , Lo Roger S.
Published: April 2023

Supplementary Figure S7. Effect of impairing DNA damage repair on the growth of slow-cycling predominant R-lines upon MAPKi withdrawal
Supplementary Figures from Multidimensional Analyses of Donor Memory-Like NK Cells Reveal New Associations with Response after Adoptive Immunotherapy for Leukemia
Authors: Berrien-Elliott Melissa M. , Cashen Amanda F. , Cubitt Celia C. , Neal Carly C. , Wong Pamela , Wagner Julia A. , Foster Mark , Schappe Timothy , Desai Sweta , McClain Ethan , Becker-Hapak Michelle , Foltz Jennifer A. , Cooper Matthew L. , Jaeger Natalia , Srivatsan Sridhar Nonavinkere , Gao Feng , Romee Rizwan , Abboud Camille N. , Uy Geoffrey L. , Westervelt Peter , Jacoby Meagan A. , Pusic Iskra , Stockerl-Goldstein Keith E. , Schroeder Mark A. , DiPersio John , Fehniger Todd A.
Published: April 2023

Supplemental figures S1-S11
Table S1 from H3.3 G34W Promotes Growth and Impedes Differentiation of Osteoblast-Like Mesenchymal Progenitors in Giant Cell Tumor of Bone
Authors: Khazaei Sima , De Jay Nicolas , Deshmukh Shriya , Hendrikse Liam D. , Jawhar Wajih , Chen Carol C.L. , Mikael Leonie G. , Faury Damien , Marchione Dylan M. , Lanoix Joel , Bonneil Éric , Ishii Takeaki , Jain Siddhant U. , Rossokhata Kateryna , Sihota Tianna S. , Eveleigh Robert , Lisi Véronique , Harutyunyan Ashot S. , Jung Sungmi , Karamchandani Jason , Dickson Brendan C. , Turcotte Robert , Wunder Jay S. , Thibault Pierre , Lewis Peter W. , Garcia Benjamin A. , Mack Stephen C. , Taylor Michael D. , Garzia Livia , Kleinman Claudia L. , Jabado Nada
Published: April 2023

Sample Characteristics and Quality Control
Supplementary Figures from H3.3 G34W Promotes Growth and Impedes Differentiation of Osteoblast-Like Mesenchymal Progenitors in Giant Cell Tumor of Bone
Authors: Khazaei Sima , De Jay Nicolas , Deshmukh Shriya , Hendrikse Liam D. , Jawhar Wajih , Chen Carol C.L. , Mikael Leonie G. , Faury Damien , Marchione Dylan M. , Lanoix Joel , Bonneil Éric , Ishii Takeaki , Jain Siddhant U. , Rossokhata Kateryna , Sihota Tianna S. , Eveleigh Robert , Lisi Véronique , Harutyunyan Ashot S. , Jung Sungmi , Karamchandani Jason , Dickson Brendan C. , Turcotte Robert , Wunder Jay S. , Thibault Pierre , Lewis Peter W. , Garcia Benjamin A. , Mack Stephen C. , Taylor Michael D. , Garzia Livia , Kleinman Claudia L. , Jabado Nada
Published: April 2023

Supplementary Figures
Table S2 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

MAGeCK analysis of CRISPR screen
Table S1 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

Reads count of CRISPR screen
Figure S6 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

Asf1a KO synergizes with anti-PD-1 to inhibit tumor progression in multiple models
Figure S5 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

Asf1a knockdown combined with anti-PD-1 therapy shows significant inhibition of tumor growth
Supplementary Table 9 from Posttranslational Regulation of the Exon Skipping Machinery Controls Aberrant Splicing in Leukemia
Authors: Zhou Yalu , Han Cuijuan , Wang Eric , Lorch Adam H. , Serafin Valentina , Cho Byoung-Kyu , Gutierrez Diaz Blanca T. , Calvo Julien , Fang Celestia , Khodadadi-Jamayran Alireza , Tabaglio Tommaso , Marier Christian , Kuchmiy Anna , Sun Limin , Yacu George , Filip Szymon K. , Jin Qi , Takahashi Yoh-Hei , Amici David R. , Rendleman Emily J. , Rawat Radhika , Bresolin Silvia , Paganin Maddalena , Zhang Cheng , Li Hu , Kandela Irawati , Politanska Yuliya , Abdala-Valencia Hiam , Mendillo Marc L. , Zhu Ping , Palhais Bruno , Van Vlierberghe Pieter , Taghon Tom , Aifantis Iannis , Goo Young Ah , Guccione Ernesto , Heguy Adriana , Tsirigos Aristotelis , Wee Keng Boon , Mishra Rama K. , Pflumio Francoise , Accordi Benedetta , Basso Giuseppe , Ntziachristos Panagiotis
Published: April 2023

CRISP Screens of RNA Binding Proteins in T-ALL
Supplementary Figures S1-15 from Posttranslational Regulation of the Exon Skipping Machinery Controls Aberrant Splicing in Leukemia
Authors: Zhou Yalu , Han Cuijuan , Wang Eric , Lorch Adam H. , Serafin Valentina , Cho Byoung-Kyu , Gutierrez Diaz Blanca T. , Calvo Julien , Fang Celestia , Khodadadi-Jamayran Alireza , Tabaglio Tommaso , Marier Christian , Kuchmiy Anna , Sun Limin , Yacu George , Filip Szymon K. , Jin Qi , Takahashi Yoh-Hei , Amici David R. , Rendleman Emily J. , Rawat Radhika , Bresolin Silvia , Paganin Maddalena , Zhang Cheng , Li Hu , Kandela Irawati , Politanska Yuliya , Abdala-Valencia Hiam , Mendillo Marc L. , Zhu Ping , Palhais Bruno , Van Vlierberghe Pieter , Taghon Tom , Aifantis Iannis , Goo Young Ah , Guccione Ernesto , Heguy Adriana , Tsirigos Aristotelis , Wee Keng Boon , Mishra Rama K. , Pflumio Francoise , Accordi Benedetta , Basso Giuseppe , Ntziachristos Panagiotis
Published: April 2023

Supplementary Figures S1-S15 and Legends
Figure S5 from ID1 Mediates Escape from TGFβ Tumor Suppression in Pancreatic Cancer
Authors: Huang Yun-Han , Hu Jing , Chen Fei , Lecomte Nicolas , Basnet Harihar , David Charles J. , Witkin Matthew D. , Allen Peter J. , Leach Steven D. , Hollmann Travis J. , Iacobuzio-Donahue Christine A. , Massagué Joan
Published: April 2023

Figure S5
Figure S4 from ID1 Mediates Escape from TGFβ Tumor Suppression in Pancreatic Cancer
Authors: Huang Yun-Han , Hu Jing , Chen Fei , Lecomte Nicolas , Basnet Harihar , David Charles J. , Witkin Matthew D. , Allen Peter J. , Leach Steven D. , Hollmann Travis J. , Iacobuzio-Donahue Christine A. , Massagué Joan
Published: April 2023

Figure S4
Figure S3 from ID1 Mediates Escape from TGFβ Tumor Suppression in Pancreatic Cancer
Authors: Huang Yun-Han , Hu Jing , Chen Fei , Lecomte Nicolas , Basnet Harihar , David Charles J. , Witkin Matthew D. , Allen Peter J. , Leach Steven D. , Hollmann Travis J. , Iacobuzio-Donahue Christine A. , Massagué Joan
Published: April 2023

Figure S3
Figure S1 from ID1 Mediates Escape from TGFβ Tumor Suppression in Pancreatic Cancer
Authors: Huang Yun-Han , Hu Jing , Chen Fei , Lecomte Nicolas , Basnet Harihar , David Charles J. , Witkin Matthew D. , Allen Peter J. , Leach Steven D. , Hollmann Travis J. , Iacobuzio-Donahue Christine A. , Massagué Joan
Published: April 2023

Figure S1
Supplementary Video S2 from Gain-of-Function RHOA Mutations Promote Focal Adhesion Kinase Activation and Dependency in Diffuse Gastric Cancer
Authors: Zhang Haisheng , Schaefer Antje , Wang Yichen , Hodge Richard G. , Blake Devon R. , Diehl J. Nathaniel , Papageorge Alex G. , Stachler Matthew D. , Liao Jennifer , Zhou Jin , Wu Zhong , Akarca Fahire G. , de Klerk Leonie K. , Derks Sarah , Pierobon Mariaelena , Hoadley Katherine A. , Wang Timothy C. , Church George , Wong Kwok-Kin , Petricoin Emanuel F. , Cox Adrienne D. , Lowy Douglas R. , Der Channing J. , Bass Adam J.
Published: April 2023

Supplementary Video S2
Supplementary Methods from Gain-of-Function RHOA Mutations Promote Focal Adhesion Kinase Activation and Dependency in Diffuse Gastric Cancer
Authors: Zhang Haisheng , Schaefer Antje , Wang Yichen , Hodge Richard G. , Blake Devon R. , Diehl J. Nathaniel , Papageorge Alex G. , Stachler Matthew D. , Liao Jennifer , Zhou Jin , Wu Zhong , Akarca Fahire G. , de Klerk Leonie K. , Derks Sarah , Pierobon Mariaelena , Hoadley Katherine A. , Wang Timothy C. , Church George , Wong Kwok-Kin , Petricoin Emanuel F. , Cox Adrienne D. , Lowy Douglas R. , Der Channing J. , Bass Adam J.
Published: April 2023

Supplementary Methods
Supplementary Data from Mutations in the RNA Splicing Factor SF3B1 Promote Tumorigenesis through MYC Stabilization
Authors: Liu Zhaoqi , Yoshimi Akihide , Wang Jiguang , Cho Hana , Chun-Wei Lee Stanley , Ki Michelle , Bitner Lillian , Chu Timothy , Shah Harshal , Liu Bo , Mato Anthony R. , Ruvolo Peter , Fabbri Giulia , Pasqualucci Laura , Abdel-Wahab Omar , Rabadan Raul
Published: April 2023

Supplementary Tables S1-S11
Supplementary Data from Type I Interferon Regulates a Coordinated Gene Network to Enhance Cytotoxic T Cell–Mediated Tumor Killing
Authors: Fan Jun-Bao , Miyauchi Sayuri , Xu Hui-Zhong , Liu Dan , Kim Leo J.Y. , Burkart Christoph , Cheng Hua , Arimoto Kei-ichiro , Yan Ming , Zhou Yu , Győrffy Balázs , Knobeloch Klaus-Peter , Rich Jeremy N. , Cang Hu , Fu Xiang-Dong , Zhang Dong-Er
Published: April 2023

Supplementary methods and figures
Supplementary Data from Characteristics and Outcome of AKT1E17K-Mutant Breast Cancer Defined through AACR Project GENIE, a Clinicogenomic Registry
Authors: Smyth Lillian M. , Zhou Qin , Nguyen Bastien , Yu Celeste , Lepisto Eva M. , Arnedos Monica , Hasset Michael J. , Lenoue-Newton Michele L. , Blauvelt Natalie , Dogan Semih , Micheel Christine M. , Wathoo Chetna , Horlings Hugo , Hudecek Jan , Gross Benjamin E. , Kundra Ritika , Sweeney Shawn M. , Gao JianJiong , Schultz Nikolaus , Zarski Andrew , Gardos Stuart M. , Lee Jocelyn , Sheffler-Collins Seth , Park Ben H. , Sawyers Charles L. , André Fabrice , Levy Mia , Meric-Bernstam Funda , Bedard Philippe L. , Iasonos Alexia , Schrag Deborah , Hyman David M.
Published: April 2023

Supplementary Tables and Figures
Supplementary Data from The INPP4B Tumor Suppressor Modulates EGFR Trafficking and Promotes Triple-Negative Breast Cancer
Authors: Liu Hui , Paddock Marcia N. , Wang Haibin , Murphy Charles J. , Geck Renee C. , Navarro Adrija J. , Wulf Gerburg M. , Elemento Olivier , Haucke Volker , Cantley Lewis C. , Toker Alex
Published: April 2023

Supplementary figures S1-S7
Supplementary Table 3: H3 from A Mutation in Histone H2B Represents a New Class of Oncogenic Driver
Authors: Bennett Richard L. , Bele Aditya , Small Eliza C. , Will Christine M. , Nabet Behnam , Oyer Jon A. , Huang Xiaoxiao , Ghosh Rajarshi P. , Grzybowski Adrian T. , Yu Tao , Zhang Qiao , Riva Alberto , Lele Tanmay P. , Schatz George C. , Kelleher Neil L. , Ruthenburg Alexander J. , Liphardt Jan , Licht Jonathan D.
Published: April 2023

List of all H3 missense mutations in cBioPortal and dbSNP analysis
Supplementary Table 2: H2B from A Mutation in Histone H2B Represents a New Class of Oncogenic Driver
Authors: Bennett Richard L. , Bele Aditya , Small Eliza C. , Will Christine M. , Nabet Behnam , Oyer Jon A. , Huang Xiaoxiao , Ghosh Rajarshi P. , Grzybowski Adrian T. , Yu Tao , Zhang Qiao , Riva Alberto , Lele Tanmay P. , Schatz George C. , Kelleher Neil L. , Ruthenburg Alexander J. , Liphardt Jan , Licht Jonathan D.
Published: April 2023

List of all H2B missense mutations in cBioPortal and dbSNP analysis
Supplementary Data from CDK7 Inhibition Suppresses Castration-Resistant Prostate Cancer through MED1 Inactivation
Authors: Rasool Reyaz ur , Natesan Ramakrishnan , Deng Qu , Aras Shweta , Lal Priti , Sander Effron Samuel , Mitchell-Velasquez Erick , Posimo Jessica M. , Carskadon Shannon , Baca Sylvan C. , Pomerantz Mark M. , Siddiqui Javed , Schwartz Lauren E. , Lee Daniel J. , Palanisamy Nallasivam , Narla Goutham , Den Robert B. , Freedman Matthew L. , Brady Donita C. , Asangani Irfan A.
Published: April 2023

Supplementary Figures S1-S12, Supplementary Table S1-3, supplementary methods and reference.
Supplementary Data from A Genetic Mouse Model Recapitulates Immune Checkpoint Inhibitor–Associated Myocarditis and Supports a Mechanism-Based Therapeutic Intervention
Authors: Wei Spencer C. , Meijers Wouter C. , Axelrod Margaret L. , Anang Nana-Ama A.S. , Screever Elles M. , Wescott Elizabeth C. , Johnson Douglas B. , Whitley Elizabeth , Lehmann Lorenz , Courand Pierre-Yves , Mancuso James J. , Himmel Lauren E. , Lebrun-Vignes Benedicte , Wleklinski Matthew J. , Knollmann Bjorn C. , Srinivasan Jayashree , Li Yu , Atolagbe Oluwatomisin T. , Rao Xiayu , Zhao Yang , Wang Jing , Ehrlich Lauren I.R. , Sharma Padmanee , Salem Joe-Elie , Balko Justin M. , Moslehi Javid J. , Allison James P.
Published: April 2023

2 tables and 10 figures
Supplementary Figure S3 from Intraductal Transplantation Models of Human Pancreatic Ductal Adenocarcinoma Reveal Progressive Transition of Molecular Subtypes
Authors: Miyabayashi Koji , Baker Lindsey A. , Deschênes Astrid , Traub Benno , Caligiuri Giuseppina , Plenker Dennis , Alagesan Brinda , Belleau Pascal , Li Siran , Kendall Jude , Jang Gun Ho , Kawaguchi Risa Karakida , Somerville Tim D.D. , Tiriac Hervé , Hwang Chang-Il , Burkhart Richard A. , Roberts Nicholas J. , Wood Laura D. , Hruban Ralph H. , Gillis Jesse , Krasnitz Alexander , Vakoc Christopher R. , Wigler Michael , Notta Faiyaz , Gallinger Steven , Park Youngkyu , Tuveson David A.
Published: April 2023

When used for IGO transplants, distinct organoid lines generate either Fast- or Slow-progressors.
Supplementary Figures from Venetoclax Increases Intratumoral Effector T Cells and Antitumor Efficacy in Combination with Immune Checkpoint Blockade
Authors: Kohlhapp Frederick J. , Haribhai Dipica , Mathew Rebecca , Duggan Ryan , Ellis Paul A. , Wang Rui , Lasater Elisabeth A. , Shi Yan , Dave Nimita , Riehm Jacob J. , Robinson Valerie A. , Do An D. , Li Yijin , Orr Christine J. , Sampath Deepak , Raval Aparna , Merchant Mark , Bhathena Anahita , Salem Ahmed Hamed , Hamel Keith M. , Leverson Joel D. , Donawho Cherrie , Pappano William N. , Uziel Tamar
Published: April 2023

Supplementary Figures S1-S10
Supplementary Data from Venetoclax Increases Intratumoral Effector T Cells and Antitumor Efficacy in Combination with Immune Checkpoint Blockade
Authors: Kohlhapp Frederick J. , Haribhai Dipica , Mathew Rebecca , Duggan Ryan , Ellis Paul A. , Wang Rui , Lasater Elisabeth A. , Shi Yan , Dave Nimita , Riehm Jacob J. , Robinson Valerie A. , Do An D. , Li Yijin , Orr Christine J. , Sampath Deepak , Raval Aparna , Merchant Mark , Bhathena Anahita , Salem Ahmed Hamed , Hamel Keith M. , Leverson Joel D. , Donawho Cherrie , Pappano William N. , Uziel Tamar
Published: April 2023

Supplementary Table 1
Supplementary Table S4 from Integrative Bulk and Single-Cell Profiling of Premanufacture T-cell Populations Reveals Factors Mediating Long-Term Persistence of CAR T-cell Therapy
Authors: Chen Gregory M. , Chen Changya , Das Rajat K. , Gao Peng , Chen Chia-Hui , Bandyopadhyay Shovik , Ding Yang-Yang , Uzun Yasin , Yu Wenbao , Zhu Qin , Myers Regina M. , Grupp Stephan A. , Barrett David M. , Tan Kai
Published: April 2023

Supplementary Table S4. Primers for 3C-qPCR and RT-qPCR.
Figure S4 from Oncogenic KRAS Recruits an Expansive Transcriptional Network through Mutant p53 to Drive Pancreatic Cancer Metastasis
Authors: Kim Michael P. , Li Xinqun , Deng Jenying , Zhang Yun , Dai Bingbing , Allton Kendra L. , Hughes Tara G. , Siangco Christian , Augustine Jithesh J. , Kang Ya'an , McDaniel Joy M. , Xiong Shunbin , Koay Eugene J. , McAllister Florencia , Bristow Christopher A. , Heffernan Timothy P. , Maitra Anirban , Liu Bin , Barton Michelle C. , Wasylishen Amanda R. , Fleming Jason B. , Lozano Guillermina
Published: April 2023

Supplementary Figure 4
Supplementary Table S2 from Discovery of Candidate DNA Methylation Cancer Driver Genes
Authors: Pan Heng , Renaud Loïc , Chaligne Ronan , Bloehdorn Johannes , Tausch Eugen , Mertens Daniel , Fink Anna Maria , Fischer Kirsten , Zhang Chao , Betel Doron , Gnirke Andreas , Imielinski Marcin , Moreaux Jérôme , Hallek Michael , Meissner Alexander , Stilgenbauer Stephan , Wu Catherine J. , Elemento Olivier , Landau Dan A.
Published: April 2023

MethSig DNAme drivers.
Supplementary Data from FGFR2 Extracellular Domain In-Frame Deletions Are Therapeutically Targetable Genomic Alterations That Function as Oncogenic Drivers in Cholangiocarcinoma
Authors: Cleary James M. , Raghavan Srivatsan , Wu Qibiao , Li Yvonne Y. , Spurr Liam F. , Gupta Hersh V. , Rubinson Douglas A. , Fetter Isobel J. , Hornick Jason L. , Nowak Jonathan A. , Siravegna Giulia , Goyal Lipika , Shi Lei , Brais Lauren K. , Loftus Maureen , Shinagare Atul B. , Abrams Thomas A. , Clancy Thomas E. , Wang Jiping , Patel Anuj K. , Brichory Franck , Vaslin Chessex Anne , Sullivan Ryan J. , Keller Rachel B. , Denning Sarah , Hill Emma R. , Shapiro Geoffrey I. , Pokorska-Bocci Anna , Zanna Claudio , Ng Kimmie , Schrag Deborah , Jänne Pasi A. , Hahn William C. , Cherniack Andrew D. , Corcoran Ryan B. , Meyerson Matthew , Daina Antoine , Zoete Vincent , Bardeesy Nabeel , Wolpin Brian M.
Published: April 2023

Supplemental Tables and Figures
Supplementary Figures 1 - 5 from NY-ESO-1 Expression in Meningioma Suggests a Rationale for New Immunotherapeutic Approaches
Authors: Baia Gilson S. , Caballero Otavia L. , Ho Janelle S.Y. , Zhao Qi , Cohen Tzeela , Binder Zev A. , Salmasi Vafi , Gallia Gary L. , Quinones-Hinojosa Alfredo , Olivi Alessandro , Brem Henry , Burger Peter , Strausberg Robert L. , Simpson Andrew J.G. , Eberhart Charles G. , Riggins Gregory J.
Published: April 2023

PDF file - 849K, Supplementary Figure 1 - Expression of Cancer/Testis Genes in Meningioma. Supplementary Figure 2 - NY-ESO-1 and MAGEA3 Expression in Testis. Supplementary Figure 3 - MAGEA3 Expression in Meningioma. Supplementary Figure 4 - Immunohistochemistry of Human Lymphocytes in Tonsil. Supplementary Figure 5 - Correlation of NY-ESO-1 expression and patient outcome.
Supplemental Figure 3 from Nature of Tumor Control by Permanently and Transiently Modified GD2 Chimeric Antigen Receptor T Cells in Xenograft Models of Neuroblastoma
Authors: Singh Nathan , Liu Xiaojun , Hulitt Jessica , Jiang Shuguang , June Carl H. , Grupp Stephan A. , Barrett David M. , Zhao Yangbing
Published: April 2023

Cell size of T cells engineered with lentivirus or RNA.
Supplementary Figure 4 from Phosphatidylserine-Targeting Antibody Induces M1 Macrophage Polarization and Promotes Myeloid-Derived Suppressor Cell Differentiation
Authors: Yin Yi , Huang Xianming , Lynn Kristi D. , Thorpe Philip E.
Published: April 2023

PDF file - 2187K, 2aG4 treatment of LNCaP tumor-bearing mice decreases MDSCs, increases TAMs and mature DCs.
Supplementary Figure 1 from Phosphatidylserine-Targeting Antibody Induces M1 Macrophage Polarization and Promotes Myeloid-Derived Suppressor Cell Differentiation
Authors: Yin Yi , Huang Xianming , Lynn Kristi D. , Thorpe Philip E.
Published: April 2023

PDF file - 41K, Regression of large subcutaneous LNCaP tumors and prevention of relapse from castration-resistant disease in mice treated with castration combined with 2aG4 plus docetaxel.
Supplementary Figure Legends from BET Bromodomain Inhibition Cooperates with PD-1 Blockade to Facilitate Antitumor Response in Kras-Mutant Non–Small Cell Lung Cancer
Authors: Adeegbe Dennis O. , Liu Shengwu , Hattersley Maureen M. , Bowden Michaela , Zhou Chensheng W. , Li Shuai , Vlahos Raven , Grondine Michael , Dolgalev Igor , Ivanova Elena V. , Quinn Max M. , Gao Peng , Hammerman Peter S. , Bradner James E. , Diehl J. Alan , Rustgi Anil K. , Bass Adam J. , Tsirigos Aristotelis , Freeman Gordon J. , Chen Huawei , Wong Kwok-Kin
Published: April 2023

figure legends for supplementary Table S1-S3 and supplementary Figure S1-S13
Supplementary Figure 3 from c-Abl Modulates Tumor Cell Sensitivity to Antibody-Dependent Cellular Cytotoxicity
Authors: Murray Joseph C. , Aldeghaither Dalal , Wang Shangzi , Nasto Rochelle E. , Jablonski Sandra A. , Tang Yong , Weiner Louis M.
Published: April 2023

Characterization of a real-time cell assay (RTCA) for assessment of ADCC.
Supplementary Figure 1 from c-Abl Modulates Tumor Cell Sensitivity to Antibody-Dependent Cellular Cytotoxicity
Authors: Murray Joseph C. , Aldeghaither Dalal , Wang Shangzi , Nasto Rochelle E. , Jablonski Sandra A. , Tang Yong , Weiner Louis M.
Published: April 2023

Development of a screening assay for modulators of ADCC.
Supplementary Methods from Tumor Microenvironment Characterization in Gastric Cancer Identifies Prognostic and Immunotherapeutically Relevant Gene Signatures
Authors: Zeng Dongqiang , Li Meiyi , Zhou Rui , Zhang Jingwen , Sun Huiying , Shi Min , Bin Jianping , Liao Yulin , Rao Jinjun , Liao Wangjun
Published: April 2023

1. Gastric cancer dataset search strategy; 2. Data sources and preprocessing; 3. Other gene signatures enrolled in this study; 4. Generation of TME gene signatures and signature score computation; 5. Other plot functions
Supplementary Figure 2 from Restoring Retinoic Acid Attenuates Intestinal Inflammation and Tumorigenesis in APCMin/+ Mice
Authors: Penny Hweixian Leong , Prestwood Tyler R. , Bhattacharya Nupur , Sun Fionna , Kenkel Justin A. , Davidson Matthew G. , Shen Lei , Zuniga Luis A. , Seeley E. Scott , Pai Reetesh , Choi Okmi , Tolentino Lorna , Wang Jinshan , Napoli Joseph L. , Engleman Edgar G.
Published: April 2023

Failure of injected RA to increase intestinal RA in APCMin/+ mice, and characterization of DC subsets in the SI-LP of APCMin/+ mice.