bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figures from CDK4/6 Inhibition Promotes Antitumor Immunity through the Induction of T-cell Memory
Authors: Lelliott Emily J. , Kong Isabella Y. , Zethoven Magnus , Ramsbottom Kelly M. , Martelotto Luciano G. , Meyran Deborah , Zhu Joe Jiang , Costacurta Matteo , Kirby Laura , Sandow Jarrod J. , Lim Lydia , Dominguez Pilar M. , Todorovski Izabela , Haynes Nicole M. , Beavis Paul A. , Neeson Paul J. , Hawkins Edwin D. , McArthur Grant A. , Parish Ian A. , Johnstone Ricky W. , Oliaro Jane , Sheppard Karen E. , Kearney Conor J. , Vervoort Stephin J.
Published: April 2023

Supplementary Figures 1-12
Supplementary Tables from An In Vivo CRISPR Screening Platform for Prioritizing Therapeutic Targets in AML
Authors: Lin Shan , Larrue Clément , Scheidegger Nastassja K. , Seong Bo Kyung A. , Dharia Neekesh V. , Kuljanin Miljan , Wechsler Caroline S. , Kugener Guillaume , Robichaud Amanda L. , Conway Amy Saur , Mashaka Thelma , Mouche Sarah , Adane Biniam , Ryan Jeremy A. , Mancias Joseph D. , Younger Scott T. , Piccioni Federica , Lee Lynn H. , Wunderlich Mark , Letai Anthony , Tamburini Jérôme , Stegmaier Kimberly
Published: April 2023

Supplementary Tables from An In Vivo CRISPR Screening Platform for Prioritizing Therapeutic Targets in AML
Supplementary Methods from Pharmacologic Activation of p53 Triggers Viral Mimicry Response Thereby Abolishing Tumor Immune Evasion and Promoting Antitumor Immunity
Authors: Zhou Xiaolei , Singh Madhurendra , Sanz Santos Gema , Guerlavais Vincent , Carvajal Luis A. , Aivado Manuel , Zhan Yue , Oliveira Mariana M.S. , Westerberg Lisa S. , Annis D. Allen , Johnsen John Inge , Selivanova Galina
Published: April 2023

Supplementary Methods
Supplementary Figure from The Pediatric Precision Oncology INFORM Registry: Clinical Outcome and Benefit for Patients with Very High-Evidence Targets
Authors: van Tilburg Cornelis M. , Pfaff Elke , Pajtler Kristian W. , Langenberg Karin P.S. , Fiesel Petra , Jones Barbara C. , Balasubramanian Gnana Prakash , Stark Sebastian , Johann Pascal D. , Blattner-Johnson Mirjam , Schramm Kathrin , Dikow Nicola , Hirsch Steffen , Sutter Christian , Grund Kerstin , von Stackelberg Arend , Kulozik Andreas E. , Lissat Andrej , Borkhardt Arndt , Meisel Roland , Reinhardt Dirk , Klusmann Jan-Henning , Fleischhack Gudrun , Tippelt Stephan , von Schweinitz Dietrich , Schmid Irene , Kramm Christof M. , von Bueren André O. , Calaminus Gabriele , Vorwerk Peter , Graf Norbert , Westermann Frank , Fischer Matthias , Eggert Angelika , Burkhardt Birgit , Wößmann Wilhelm , Nathrath Michaela , Hecker-Nolting Stefanie , Frühwald Michael C. , Schneider Dominik T. , Brecht Ines B. , Ketteler Petra , Fulda Simone , Koscielniak Ewa , Meister Michael T. , Scheer Monika , Hettmer Simone , Schwab Matthias , Tremmel Roman , Øra Ingrid , Hutter Caroline , Gerber Nicolas U. , Lohi Olli , Kazanowska Bernarda , Kattamis Antonis , Filippidou Maria , Goemans Bianca , Zwaan C. Michel , Milde Till , Jäger Natalie , Wolf Stephan , Reuss David , Sahm Felix , von Deimling Andreas , Dirksen Uta , Freitag Angelika , Witt Ruth , Lichter Peter , Kopp-Schneider Annette , Jones David T.W. , Molenaar Jan J. , Capper David , Pfister Stefan M. , Witt Olaf
Published: April 2023

Supplementary Figure from The Pediatric Precision Oncology INFORM Registry: Clinical Outcome and Benefit for Patients with Very High-Evidence Targets
Supplementary Table S7 from Resistance to Durvalumab and Durvalumab plus Tremelimumab Is Associated with Functional STK11 Mutations in Patients with Non–Small Cell Lung Cancer and Is Reversed by STAT3 Knockdown
Authors: Pore Nabendu , Wu Song , Standifer Nathan , Jure-Kunkel Maria , de los Reyes Melissa , Shrestha Yashaswi , Halpin Rebecca , Rothstein Raymond , Mulgrew Kathy , Blackmore Stephen , Martin Philip , Meekin John , Griffin Matthew , Bisha Ina , Proia Theresa A. , Miragaia Ricardo J. , Herbst Ronald , Gupta Ashok , Abdullah Shaad E. , Raja Rajiv , Frigault Melanie M. , Barrett J. Carl , Dennis Phillip A. , Ascierto Maria Libera , Oberst Michael D.
Published: April 2023

Time to 50% survival, in days, for mice engrafted with EMT6 tumors left untreated or treated with isotype control Ab or anti-PD-L1 plus anti-CTLA-4.
Supplementary Figures from Macropinocytosis in Cancer-Associated Fibroblasts Is Dependent on CaMKK2/ARHGEF2 Signaling and Functions to Support Tumor and Stromal Cell Fitness
Authors: Zhang Yijuan , Recouvreux M. Victoria , Jung Michael , Galenkamp Koen M.O. , Li Yunbo , Zagnitko Olga , Scott David A. , Lowy Andrew M. , Commisso Cosimo
Published: April 2023

Supplementary Figures
Figure S2 from ZFTA Translocations Constitute Ependymoma Chromatin Remodeling and Transcription Factors
Authors: Kupp Robert , Ruff Lisa , Terranova Sabrina , Nathan Erica , Ballereau Stephane , Stark Rory , Sekhar Reddy Chilamakuri Chandra , Hoffmann Nadin , Wickham-Rahrmann Katherine , Widdess Marcus , Arabzade Amir , Zhao Yanhua , Varadharajan Srinidhi , Zheng Tuyu , Murugesan Mohankumar , Pfister Stefan M. , Kawauchi Daisuke , Pajtler Kristian W. , Deneen Benjamin , Mack Stephen C. , Masih Katherine E. , Gryder Berkley E. , Khan Javed , Gilbertson Richard J.
Published: April 2023

A common mouse and human ZFTA-RELAFUS1 ependymoma transcriptome
Table S1 from Rates and Patterns of Clonal Oncogenic Mutations in the Normal Human Brain
Authors: Ganz Javier , Maury Eduardo A. , Becerra Basheer , Bizzotto Sara , Doan Ryan N. , Kenny Connor J. , Shin Taehwan , Kim Junho , Zhou Zinan , Ligon Keith L. , Lee Eunjung Alice , Walsh Christopher A.
Published: April 2023

Supplementary information related to panel sequencing.
Supplementary Table S3 from PRC2 Inhibitors Overcome Glucocorticoid Resistance Driven by NSD2 Mutation in Pediatric Acute Lymphoblastic Leukemia
Authors: Li Jianping , Hlavka-Zhang Julia , Shrimp Jonathan H. , Piper Crissandra , Dupéré-Richér Daphne , Roth Jacob S. , Jing Duohui , Casellas Román Heidi L. , Troche Catalina , Swaroop Alok , Kulis Marta , Oyer Jon A. , Will Christine M. , Shen Min , Riva Alberto , Bennett Richard L. , Ferrando Adolfo A. , Hall Matthew D. , Lock Richard B. , Licht Jonathan D.
Published: April 2023

Glucocorticoid response of PDX Cells with NSD2 mutations
Supplementary Table S2 from PRC2 Inhibitors Overcome Glucocorticoid Resistance Driven by NSD2 Mutation in Pediatric Acute Lymphoblastic Leukemia
Authors: Li Jianping , Hlavka-Zhang Julia , Shrimp Jonathan H. , Piper Crissandra , Dupéré-Richér Daphne , Roth Jacob S. , Jing Duohui , Casellas Román Heidi L. , Troche Catalina , Swaroop Alok , Kulis Marta , Oyer Jon A. , Will Christine M. , Shen Min , Riva Alberto , Bennett Richard L. , Ferrando Adolfo A. , Hall Matthew D. , Lock Richard B. , Licht Jonathan D.
Published: April 2023

ALL patients with NSD2 mutations
Supplementary Methods from Genetic Determinants of EGFR-Driven Lung Cancer Growth and Therapeutic Response In Vivo
Authors: Foggetti Giorgia , Li Chuan , Cai Hongchen , Hellyer Jessica A. , Lin Wen-Yang , Ayeni Deborah , Hastings Katherine , Choi Jungmin , Wurtz Anna , Andrejka Laura , Maghini Dylan G. , Rashleigh Nicholas , Levy Stellar , Homer Robert , Gettinger Scott N. , Diehn Maximilian , Wakelee Heather A. , Petrov Dmitri A. , Winslow Monte M. , Politi Katerina
Published: April 2023

Supplementary Methods on Tuba-seq analysis
Supplementary Figures S11-S14 from Genetic Determinants of EGFR-Driven Lung Cancer Growth and Therapeutic Response In Vivo
Authors: Foggetti Giorgia , Li Chuan , Cai Hongchen , Hellyer Jessica A. , Lin Wen-Yang , Ayeni Deborah , Hastings Katherine , Choi Jungmin , Wurtz Anna , Andrejka Laura , Maghini Dylan G. , Rashleigh Nicholas , Levy Stellar , Homer Robert , Gettinger Scott N. , Diehn Maximilian , Wakelee Heather A. , Petrov Dmitri A. , Winslow Monte M. , Politi Katerina
Published: April 2023

Supplementary Figures
Supplementary Table 7 from Nongenetic Evolution Drives Lung Adenocarcinoma Spatial Heterogeneity and Progression
Authors: Tavernari Daniele , Battistello Elena , Dheilly Elie , Petruzzella Aaron S. , Mina Marco , Sordet-Dessimoz Jessica , Peters Solange , Krueger Thorsten , Gfeller David , Riggi Nicolo , Oricchio Elisa , Letovanec Igor , Ciriello Giovanni
Published: April 2023

Supplementary Table 7
Supplementary Table 6 from Nongenetic Evolution Drives Lung Adenocarcinoma Spatial Heterogeneity and Progression
Authors: Tavernari Daniele , Battistello Elena , Dheilly Elie , Petruzzella Aaron S. , Mina Marco , Sordet-Dessimoz Jessica , Peters Solange , Krueger Thorsten , Gfeller David , Riggi Nicolo , Oricchio Elisa , Letovanec Igor , Ciriello Giovanni
Published: April 2023

Supplementary Table 6
Supplementary Datasets from NKX3.1 Localization to Mitochondria Suppresses Prostate Cancer Initiation
Authors: Papachristodoulou Alexandros , Rodriguez-Calero Antonio , Panja Sukanya , Margolskee Elizabeth , Virk Renu K. , Milner Teresa A. , Martina Luis Pina , Kim Jaime Y. , Di Bernardo Matteo , Williams Alanna B. , Maliza Elvis A. , Caputo Joseph M. , Haas Christopher , Wang Vinson , De Castro Guarionex Joel , Wenske Sven , Hibshoosh Hanina , McKiernan James M. , Shen Michael M. , Rubin Mark A. , Mitrofanova Antonina , Dutta Aditya , Abate-Shen Cory
Published: April 2023

Datasets reported in the manuscript including gene expression, pathway analyses, and mass spectrometry data.
Supplementary Figure 3 from Nongenetic Evolution Drives Lung Adenocarcinoma Spatial Heterogeneity and Progression
Authors: Tavernari Daniele , Battistello Elena , Dheilly Elie , Petruzzella Aaron S. , Mina Marco , Sordet-Dessimoz Jessica , Peters Solange , Krueger Thorsten , Gfeller David , Riggi Nicolo , Oricchio Elisa , Letovanec Igor , Ciriello Giovanni
Published: April 2023

Supplementary Figure 3
Supplementary Methods from Fasting-Mimicking Diet Is Safe and Reshapes Metabolism and Antitumor Immunity in Patients with Cancer
Authors: Vernieri Claudio , Fucà Giovanni , Ligorio Francesca , Huber Veronica , Vingiani Andrea , Iannelli Fabio , Raimondi Alessandra , Rinchai Darawan , Frigè Gianmaria , Belfiore Antonino , Lalli Luca , Chiodoni Claudia , Cancila Valeria , Zanardi Federica , Ajazi Arta , Cortellino Salvatore , Vallacchi Viviana , Squarcina Paola , Cova Agata , Pesce Samantha , Frati Paola , Mall Raghvendra , Corsetto Paola Antonia , Rizzo Angela Maria , Ferraris Cristina , Folli Secondo , Garassino Marina Chiara , Capri Giuseppe , Bianchi Giulia , Colombo Mario Paolo , Minucci Saverio , Foiani Marco , Longo Valter Daniel , Apolone Giovanni , Torri Valter , Pruneri Giancarlo , Bedognetti Davide , Rivoltini Licia , de Braud Filippo
Published: April 2023

Supplementary Methods
Table S1 from Actinomycin D Targets NPM1c-Primed Mitochondria to Restore PML-Driven Senescence in AML Therapy
Authors: Wu Hsin-Chieh , Rérolle Domitille , Berthier Caroline , Hleihel Rita , Sakamoto Takashi , Quentin Samuel , Benhenda Shirine , Morganti Claudia , Wu Chengchen , Conte Lidio , Rimsky Sylvie , Sebert Marie , Clappier Emmanuelle , Souquere Sylvie , Gachet Stéphanie , Soulier Jean , Durand Sylvère , Trowbridge Jennifer J. , Bénit Paule , Rustin Pierre , El Hajj Hiba , Raffoux Emmanuel , Ades Lionel , Itzykson Raphael , Dombret Hervé , Fenaux Pierre , Espeli Olivier , Kroemer Guido , Brunetti Lorenzo , Mak Tak W. , Lallemand-Breitenbach Valérie , Bazarbachi Ali , Falini Brunangelo , Ito Keisuke , Martelli Maria Paola , de Thé Hugues
Published: April 2023

Supplementary table S1
Supplementary Figures from Live-Cell Imaging Shows Uneven Segregation of Extrachromosomal DNA Elements and Transcriptionally Active Extrachromosomal DNA Hubs in Cancer
Authors: Yi Eunhee , Gujar Amit D. , Guthrie Molly , Kim Hoon , Zhao Dacheng , Johnson Kevin C. , Amin Samirkumar B. , Costa Megan L. , Yu Qianru , Das Sunit , Jillette Nathaniel , Clow Patricia A. , Cheng Albert W. , Verhaak Roel G.W.
Published: April 2023

Supplementary Figures 1-26
Supplementary methods, tables and figures. from Genomic and Transcriptomic Analyses of Breast Cancer Primaries and Matched Metastases in AURORA, the Breast International Group (BIG) Molecular Screening Initiative
Authors: Aftimos Philippe , Oliveira Mafalda , Irrthum Alexandre , Fumagalli Debora , Sotiriou Christos , Gal-Yam Einav Nili , Robson Mark E. , Ndozeng Justin , Di Leo Angelo , Ciruelos Eva M. , de Azambuja Evandro , Viale Giuseppe , Scheepers Elsemieke D. , Curigliano Giuseppe , Bliss Judith M. , Reis-Filho Jorge S. , Colleoni Marco , Balic Marija , Cardoso Fatima , Albanell Joan , Duhem Caroline , Marreaud Sandrine , Romagnoli Dario , Rojas Beatriz , Gombos Andrea , Wildiers Hans , Guerrero-Zotano Angel , Hall Peter , Bonetti Andrea , Larsson Karolina Fs , Degiorgis Martina , Khodaverdi Silvia , Greil Richard , Sverrisdóttir Ásgerdur , Paoli Marta , Seyll Ethel , Loibl Sibylle , Linderholm Barbro , Zoppoli Gabriele , Davidson Nancy E. , Johannsson Oskar Th , Bedard Philippe L. , Loi Sherene , Knox Susan , Cameron David A. , Harbeck Nadia , Montoya Maite Lasa , Brandão Mariana , Vingiani Andrea , Caballero Carmela , Hilbers Florentine S. , Yates Lucy R. , Benelli Matteo , Venet David , Piccart Martine J.
Published: April 2023

File with the supplementary material & methods, supplementary tables and supplementary figure.
Supplementary Tables from TNIK Is a Therapeutic Target in Lung Squamous Cell Carcinoma and Regulates FAK Activation through Merlin
Authors: Torres-Ayuso Pedro , An Elvira , Nyswaner Katherine M. , Bensen Ryan C. , Ritt Daniel A. , Specht Suzanne I. , Das Sudipto , Andresson Thorkell , Cachau Raul E. , Liang Roger J. , Ries Amy L. , Robinson Christina M. , Difilippantonio Simone , Gouker Brad , Bassel Laura , Karim Baktiar O. , Miller Chad J. , Turk Benjamin E. , Morrison Deborah K. , Brognard John
Published: April 2023

Supplementary Tables
Supplementary Figure S8.2 from TNIK Is a Therapeutic Target in Lung Squamous Cell Carcinoma and Regulates FAK Activation through Merlin
Authors: Torres-Ayuso Pedro , An Elvira , Nyswaner Katherine M. , Bensen Ryan C. , Ritt Daniel A. , Specht Suzanne I. , Das Sudipto , Andresson Thorkell , Cachau Raul E. , Liang Roger J. , Ries Amy L. , Robinson Christina M. , Difilippantonio Simone , Gouker Brad , Bassel Laura , Karim Baktiar O. , Miller Chad J. , Turk Benjamin E. , Morrison Deborah K. , Brognard John
Published: April 2023

Uncropped immunoblots reported in this study.
Supplementary Data from Pharmacologic Reduction of Mitochondrial Iron Triggers a Noncanonical BAX/BAK-Dependent Cell Death
Authors: Garciaz Sylvain , Guirguis Andrew A. , Müller Sebastian , Brown Fiona C. , Chan Yih-Chih , Motazedian Ali , Rowe Caitlin L. , Kuzich James A. , Chan Kah Lok , Tran Kevin , Smith Lorey , MacPherson Laura , Liddicoat Brian , Lam Enid Y.N. , Cañeque Tatiana , Burr Marian L. , Litalien Véronique , Pomilio Giovanna , Poplineau Mathilde , Duprez Estelle , Dawson Sarah-Jane , Ramm Georg , Cox Andrew G. , Brown Kristin K. , Huang David C.S. , Wei Andrew H. , McArthur Kate , Rodriguez Raphaël , Dawson Mark A.
Published: April 2023

Supplementary Data from Pharmacologic Reduction of Mitochondrial Iron Triggers a Noncanonical BAX/BAK-Dependent Cell Death
Supplementary Figure from Common Trajectories of Highly Effective CD19-Specific CAR T Cells Identified by Endogenous T-cell Receptor Lineages
Authors: Wilson Taylor L. , Kim Hyunjin , Chou Ching-Heng , Langfitt Deanna , Mettelman Robert C. , Minervina Anastasia A. , Allen E. Kaitlynn , Métais Jean-Yves , Pogorelyy Mikhail V. , Riberdy Janice M. , Velasquez M. Paulina , Kottapalli Pratibha , Trivedi Sanchit , Olsen Scott R. , Lockey Timothy , Willis Catherine , Meagher Michael M. , Triplett Brandon M. , Talleur Aimee C. , Gottschalk Stephen , Crawford Jeremy Chase , Thomas Paul G.
Published: April 2023

Supplementary Figure from Common Trajectories of Highly Effective CD19-Specific CAR T Cells Identified by Endogenous T-cell Receptor Lineages
Supplementary Figure from Alpelisib Monotherapy for PI3K-Altered, Pretreated Advanced Breast Cancer: A Phase II Study
Authors: Savas Peter , Lo Louisa L. , Luen Stephen J. , Blackley Elizabeth F. , Callahan Jason , Moodie Kate , van Geelen Courtney T. , Ko Yi-An , Weng Chen-Fang , Wein Lironne , Silva Maria João , Bujak Andjelija Zivanovic , Yeung Miriam M. , Ftouni Sarah , Hicks Rodney J. , Francis Prudence A. , Lee Chee Khoon , Dawson Sarah-Jane , Loi Sherene
Published: April 2023

Supplementary Figure from Alpelisib Monotherapy for PI3K-Altered, Pretreated Advanced Breast Cancer: A Phase II Study
Supplementary Figure from Epigenetic Activation of Plasmacytoid DCs Drives IFNAR-Dependent Therapeutic Differentiation of AML
Authors: Salmon Jessica M. , Todorovski Izabela , Stanley Kym L. , Bruedigam Claudia , Kearney Conor J. , Martelotto Luciano G. , Rossello Fernando , Semple Timothy , Arnau Gisela Mir , Zethoven Magnus , Bots Michael , Bjelosevic Stefan , Cluse Leonie A. , Fraser Peter J. , Litalien Veronique , Vidacs Eva , McArthur Kate , Matthews Antony Y. , Gressier Elise , de Weerd Nicole A. , Lichte Jens , Kelly Madison J. , Hogg Simon J. , Hertzog Paul J. , Kats Lev M. , Vervoort Stephin J. , De Carvalho Daniel D. , Scheu Stefanie , Bedoui Sammy , Kile Benjamin T. , Lane Steven W. , Perkins Andrew C. , Wei Andrew H. , Dominguez Pilar M. , Johnstone Ricky W.
Published: April 2023

Supplementary Figure from Epigenetic Activation of Plasmacytoid DCs Drives IFNAR-Dependent Therapeutic Differentiation of AML
Supplementary Data from Drug-Induced Epigenomic Plasticity Reprograms Circadian Rhythm Regulation to Drive Prostate Cancer toward Androgen Independence
Authors: Linder Simon , Hoogstraat Marlous , Stelloo Suzan , Eickhoff Nils , Schuurman Karianne , de Barros Hilda , Alkemade Maartje , Bekers Elise M. , Severson Tesa M. , Sanders Joyce , Huang Chia-Chi Flora , Morova Tunc , Altintas Umut Berkay , Hoekman Liesbeth , Kim Yongsoo , Baca Sylvan C. , Sjöström Martin , Zaalberg Anniek , Hintzen Dorine C. , de Jong Jeroen , Kluin Roelof J.C. , de Rink Iris , Giambartolomei Claudia , Seo Ji-Heui , Pasaniuc Bogdan , Altelaar Maarten , Medema René H. , Feng Felix Y. , Zoubeidi Amina , Freedman Matthew L. , Wessels Lodewyk F.A. , Butler Lisa M. , Lack Nathan A. , van der Poel Henk , Bergman Andries M. , Zwart Wilbert
Published: April 2023

Supplementary Data from Drug-Induced Epigenomic Plasticity Reprograms Circadian Rhythm Regulation to Drive Prostate Cancer toward Androgen Independence
Supplementary Figure from Enhancing PD-L1 Degradation by ITCH during MAPK Inhibitor Therapy Suppresses Acquired Resistance
Authors: Yang Zhentao , Wang Yan , Liu Sixue , Deng Weixian , Lomeli Shirley H. , Moriceau Gatien , Wohlschlegel James , Piva Marco , Lo Roger S.
Published: April 2023

Supplementary Figure from Enhancing PD-L1 Degradation by ITCH during MAPK Inhibitor Therapy Suppresses Acquired Resistance
Supplementary Data from The Spatial Landscape of Progression and Immunoediting in Primary Melanoma at Single-Cell Resolution
Authors: Nirmal Ajit J. , Maliga Zoltan , Vallius Tuulia , Quattrochi Brian , Chen Alyce A. , Jacobson Connor A. , Pelletier Roxanne J. , Yapp Clarence , Arias-Camison Raquel , Chen Yu-An , Lian Christine G. , Murphy George F. , Santagata Sandro , Sorger Peter K.
Published: April 2023

Supplementary Data from The Spatial Landscape of Progression and Immunoediting in Primary Melanoma at Single-Cell Resolution
Supplementary Figure from Dietary Lactobacillus-Derived Exopolysaccharide Enhances Immune-Checkpoint Blockade Therapy
Authors: Kawanabe-Matsuda Hirotaka , Takeda Kazuyoshi , Nakamura Marie , Makino Seiya , Karasaki Takahiro , Kakimi Kazuhiro , Nishimukai Megumi , Ohno Tatsukuni , Omi Jumpei , Kano Kuniyuki , Uwamizu Akiharu , Yagita Hideo , Boneca Ivo Gomperts , Eberl Gérard , Aoki Junken , Smyth Mark J. , Okumura Ko
Published: April 2023

Supplementary Figure from Dietary Lactobacillus-Derived Exopolysaccharide Enhances Immune-Checkpoint Blockade Therapy
Supplementary Data from Tumor ENPP1 (CD203a)/Haptoglobin Axis Exploits Myeloid-Derived Suppressor Cells to Promote Post-Radiotherapy Local Recurrence in Breast Cancer
Authors: Ruiz-Fernández de Córdoba Borja , Moreno Haritz , Valencia Karmele , Perurena Naiara , Ruedas Pablo , Walle Thomas , Pezonaga-Torres Alberto , Hinojosa Juan , Guruceaga Elisabet , Pineda-Lucena Antonio , Abengózar-Muela Marta , Cochonneau Denis , Zandueta Carolina , Martínez-Canarias Susana , Teijeira Álvaro , Ajona Daniel , Ortiz-Espinosa Sergio , Morales Xabier , Ortiz de Solórzano Carlos , Santisteban Marta , Ramos-García Luis I. , Guembe Laura , Strnad Vratislav , Heymann Dominique , Hervás-Stubbs Sandra , Pío Rubén , Rodríguez-Ruiz María E. , de Andrea Carlos E. , Vicent Silvestre , Melero Ignacio , Lecanda Fernando , Martínez-Monge Rafael
Published: April 2023

Supplementary Data from Tumor ENPP1 (CD203a)/Haptoglobin Axis Exploits Myeloid-Derived Suppressor Cells to Promote Post-Radiotherapy Local Recurrence in Breast Cancer
Supplementary Table from Phase Separation Mediates NUP98 Fusion Oncoprotein Leukemic Transformation
Authors: Chandra Bappaditya , Michmerhuizen Nicole L. , Shirnekhi Hazheen K. , Tripathi Swarnendu , Pioso Brittany J. , Baggett David W. , Mitrea Diana M. , Iacobucci Ilaria , White Michael R. , Chen Jingjing , Park Cheon-Gil , Wu Huiyun , Pounds Stanley , Medyukhina Anna , Khairy Khaled , Gao Qingsong , Qu Chunxu , Abdelhamed Sherif , Gorman Scott D. , Bawa Simranjot , Maslanka Carolyn , Kinger Swati , Dogra Priyanka , Ferrolino Mylene C. , Di Giacomo Danika , Mecucci Cristina , Klco Jeffery M. , Mullighan Charles G. , Kriwacki Richard W.
Published: April 2023

Supplementary Table from Phase Separation Mediates NUP98 Fusion Oncoprotein Leukemic Transformation
Supp Table 2 from Human Bone Marrow Organoids for Disease Modeling, Discovery, and Validation of Therapeutic Targets in Hematologic Malignancies
Authors: Khan Abdullah O. , Rodriguez-Romera Antonio , Reyat Jasmeet S. , Olijnik Aude-Anais , Colombo Michela , Wang Guanlin , Wen Wei Xiong , Sousos Nikolaos , Murphy Lauren C. , Grygielska Beata , Perrella Gina , Mahony Christopher B. , Ling Rebecca E. , Elliott Natalina E. , Karali Christina Simoglou , Stone Andrew P. , Kemble Samuel , Cutler Emily A. , Fielding Adele K. , Croft Adam P. , Bassett David , Poologasundarampillai Gowsihan , Roy Anindita , Gooding Sarah , Rayes Julie , Machlus Kellie R. , Psaila Bethan
Published: April 2023

Supplementary Table 2 Gene sets for GSEA
Supplementary Data from Intraventricular B7-H3 CAR T Cells for Diffuse Intrinsic Pontine Glioma: Preliminary First-in-Human Bioactivity and Safety
Authors: Vitanza Nicholas A. , Wilson Ashley L. , Huang Wenjun , Seidel Kristy , Brown Christopher , Gustafson Joshua A. , Yokoyama Jason K. , Johnson Adam J. , Baxter Blake A. , Koning Ryan W. , Reid Aquene N. , Meechan Michael , Biery Matthew C. , Myers Carrie , Rawlings-Rhea Stephanie D. , Albert Catherine M. , Browd Samuel R. , Hauptman Jason S. , Lee Amy , Ojemann Jeffrey G. , Berens Michael E. , Dun Matthew D. , Foster Jessica B. , Crotty Erin E. , Leary Sarah E.S. , Cole Bonnie L. , Perez Francisco A. , Wright Jason N. , Orentas Rimas J. , Chour Tony , Newell Evan W. , Whiteaker Jeffrey R. , Zhao Lei , Paulovich Amanda G. , Pinto Navin , Gust Juliane , Gardner Rebecca A. , Jensen Michael C. , Park Julie R.
Published: April 2023

Supplementary Data from Intraventricular B7-H3 CAR T Cells for Diffuse Intrinsic Pontine Glioma: Preliminary First-in-Human Bioactivity and Safety
Supplementary Figure 5 from A Small Molecule Reacts with the p53 Somatic Mutant Y220C to Rescue Wild-type Thermal Stability
Authors: Guiley Keelan Z. , Shokat Kevan M.
Published: April 2023

Supplementary Figure S5: CDKN1A EMSA gels and intensity plots (A) EMSA for p53 WT-CL. (B) EMSA for p53 Y220C-CL. (C) EMSA for p53 Y220C-CL complexed with KG13. (D) EMSA for p53 R273C-CL. (E) Upper band intensities plotted for each protein construct. (F) Upper band intensities plotted for p53 R273C-CL.
Supplementary Video 1 from Bone Metastasis Initiation Is Coupled with Bone Remodeling through Osteogenic Differentiation of NG2+ Cells
Authors: Zhang Weijie , Xu Zhan , Hao Xiaoxin , He Tiancheng , Li Jiasong , Shen Yichao , Liu Kai , Gao Yang , Liu Jun , Edwards David G. , Muscarella Aaron M. , Wu Ling , Yu Liqun , Xu Longyong , Chen Xi , Wu Yi-Hsuan , Bado Igor L. , Ding Yunfeng , Aguirre Sergio , Wang Hai , Gugala Zbigniew , Satcher Robert L. , Wong Stephen T.C. , Zhang Xiang H.-F.
Published: April 2023

Supplemantary Video 1, LLC1 cells cocultured with NG2+ BMSCs
Supplementary Figure from The Impact of Inflammation-Induced Tumor Plasticity during Myeloid Transformation
Authors: Yeaton Anna , Cayanan Geraldine , Loghavi Sanam , Dolgalev Igor , Leddin Emmett M. , Loo Christian E. , Torabifard Hedieh , Nicolet Deedra , Wang Jingjing , Corrigan Kate , Paraskevopoulou Varvara , Starczynowski Daniel T , Wang Eric , Abdel-Wahab Omar , Viny Aaron D , Stone Richard M. , Byrd John C. , Guryanova Olga A. , Kohli Rahul M. , Cisneros G. Andrés , Tsirigos Aristotelis , Eisfeld Ann-Kathrin , Aifantis Iannis , Guillamot Maria
Published: April 2023

Supplementary Figure from The Impact of Inflammation-Induced Tumor Plasticity during Myeloid Transformation
Supplementary Figure S2 from Identifying the Transcriptional Drivers of Metastasis Embedded within Localized Melanoma
Authors: Suresh Shruthy , Rabbie Roy , Garg Manik , Lumaquin Dianne , Huang Ting-Hsiang , Montal Emily , Ma Yilun , Cruz Nelly M , Tang Xinran , Nsengimana Jérémie , Newton-Bishop Julia , Hunter Miranda V. , Zhu Yuxin , Chen Kevin , de Stanchina Elisa , Adams David J. , White Richard M.
Published: April 2023

CRISPR Sequencing of MAS2X tumors.
Supp Table S5 from Identifying the Transcriptional Drivers of Metastasis Embedded within Localized Melanoma
Authors: Suresh Shruthy , Rabbie Roy , Garg Manik , Lumaquin Dianne , Huang Ting-Hsiang , Montal Emily , Ma Yilun , Cruz Nelly M , Tang Xinran , Nsengimana Jérémie , Newton-Bishop Julia , Hunter Miranda V. , Zhu Yuxin , Chen Kevin , de Stanchina Elisa , Adams David J. , White Richard M.
Published: April 2023

Supplementary Table S5. Normalized Counts of transcripts in GRAMD1B KO and NT cells.
Supplementary Figure from African Ancestry–Associated Gene Expression Profiles in Triple-Negative Breast Cancer Underlie Altered Tumor Biology and Clinical Outcome in Women of African Descent
Authors: Martini Rachel , Delpe Princesca , Chu Timothy R. , Arora Kanika , Lord Brittany , Verma Akanksha , Bedi Deepa , Karanam Balasubramanyam , Elhussin Isra , Chen Yalei , Gebregzabher Endale , Oppong Joseph K. , Adjei Ernest K. , Jibril Suleiman Aisha , Awuah Baffour , Muleta Mahteme Bekele , Abebe Engida , Kyei Ishmael , Aitpillah Frances S. , Adinku Michael O. , Ankomah Kwasi , Osei-Bonsu Ernest Baawuah , Chitale Dhananjay A. , Bensenhaver Jessica M. , Nathanson David S. , Jackson LaToya , Petersen Lindsay F. , Proctor Erica , Stonaker Brian , Gyan Kofi K. , Gibbs Lee D. , Monojlovic Zarko , Kittles Rick A. , White Jason , Yates Clayton C. , Manne Upender , Gardner Kevin , Mongan Nigel , Cheng Esther , Ginter Paula , Hoda Syed , Elemento Olivier , Robine Nicolas , Sboner Andrea , Carpten John D. , Newman Lisa , Davis Melissa B.
Published: April 2023

Supplementary Figure from African Ancestry–Associated Gene Expression Profiles in Triple-Negative Breast Cancer Underlie Altered Tumor Biology and Clinical Outcome in Women of African Descent
Supplementary Table S7 from Human Papillomavirus 42 Drives Digital Papillary Adenocarcinoma and Elicits a Germ Cell–like Program Conserved in HPV-Positive Cancers
Authors: Leiendecker Lukas , Neumann Tobias , Jung Pauline S. , Cronin Shona M. , Steinacker Thomas L. , Schleiffer Alexander , Schutzbier Michael , Mechtler Karl , Kervarrec Thibault , Laurent Estelle , Bachiri Kamel , Coyaud Etienne , Murali Rajmohan , Busam Klaus J. , Itzinger-Monshi Babak , Kirnbauer Reinhard , Cerroni Lorenzo , Calonje Eduardo , Rütten Arno , Stubenrauch Frank , Griewank Klaus G. , Wiesner Thomas , Obenauf Anna C.
Published: April 2023

HPV42 variant allele frequencies.
Supplementary Table S2 from Human Papillomavirus 42 Drives Digital Papillary Adenocarcinoma and Elicits a Germ Cell–like Program Conserved in HPV-Positive Cancers
Authors: Leiendecker Lukas , Neumann Tobias , Jung Pauline S. , Cronin Shona M. , Steinacker Thomas L. , Schleiffer Alexander , Schutzbier Michael , Mechtler Karl , Kervarrec Thibault , Laurent Estelle , Bachiri Kamel , Coyaud Etienne , Murali Rajmohan , Busam Klaus J. , Itzinger-Monshi Babak , Kirnbauer Reinhard , Cerroni Lorenzo , Calonje Eduardo , Rütten Arno , Stubenrauch Frank , Griewank Klaus G. , Wiesner Thomas , Obenauf Anna C.
Published: April 2023

Viral abundance scores in ViroCap assay.
Supplementary Figure 3 from Molecular Characterization of Acquired Resistance to KRASG12C–EGFR Inhibition in Colorectal Cancer
Authors: Yaeger Rona , Mezzadra Riccardo , Sinopoli Jenna , Bian Yu , Marasco Michelangelo , Kaplun Esther , Gao Yijun , Zhao HuiYong , Paula Arnaud Da Cruz , Zhu Yingjie , Perez Almudena Chaves , Chadalavada Kalyani , Tse Edison , Chowdhry Sudhir , Bowker Sydney , Chang Qing , Qeriqi Besnik , Weigelt Britta , Nanjangud Gouri J. , Berger Michael F. , Der-Torossian Hirak , Anderes Kenna , Socci Nicholas D. , Shia Jinru , Riely Gregory J. , Murciano-Goroff Yonina R. , Li Bob T. , Christensen James G. , Reis-Filho Jorge S. , Solit David B. , de Stanchina Elisa , Lowe Scott W. , Rosen Neal , Misale Sandra
Published: April 2023

RW7213 cell lines sequencing analysis
Table S2 from OncoLoop: A Network-Based Precision Cancer Medicine Framework
Authors: Vasciaveo Alessandro , Arriaga Juan Martín , de Almeida Francisca Nunes , Zou Min , Douglass Eugene F. , Picech Florencia , Shibata Maho , Rodriguez-Calero Antonio , de Brot Simone , Mitrofanova Antonina , Chua Chee Wai , Karan Charles , Realubit Ronald , Pampou Sergey , Kim Jaime Y. , Afari Stephanie N. , Mukhammadov Timur , Zanella Luca , Corey Eva , Alvarez Mariano J. , Rubin Mark A. , Shen Michael M. , Califano Andrea , Abate-Shen Cory
Published: April 2023

Supplementary Table 2: Transcriptomic analyses of the GEMMs
A. GEMMs Interactome
B. Protein activity
C. Cluster analyses
D. Pathway analyses
Supplementary Figure from Genetic Ancestry Correlates with Somatic Differences in a Real-World Clinical Cancer Sequencing Cohort
Authors: Arora Kanika , Tran Thinh N. , Kemel Yelena , Mehine Miika , Liu Ying L. , Nandakumar Subhiksha , Smith Shaleigh A. , Brannon A. Rose , Ostrovnaya Irina , Stopsack Konrad H. , Razavi Pedram , Safonov Anton , Rizvi Hira A. , Hellmann Matthew D. , Vijai Joseph , Reynolds Thomas C. , Fagin James A. , Carrot-Zhang Jian , Offit Kenneth , Solit David B. , Ladanyi Marc , Schultz Nikolaus , Zehir Ahmet , Brown Carol L. , Stadler Zsofia K. , Chakravarty Debyani , Bandlamudi Chaitanya , Berger Michael F.
Published: April 2023

Supplementary Figure from Genetic Ancestry Correlates with Somatic Differences in a Real-World Clinical Cancer Sequencing Cohort
Supplementary Data from Genetic Ancestry Correlates with Somatic Differences in a Real-World Clinical Cancer Sequencing Cohort
Authors: Arora Kanika , Tran Thinh N. , Kemel Yelena , Mehine Miika , Liu Ying L. , Nandakumar Subhiksha , Smith Shaleigh A. , Brannon A. Rose , Ostrovnaya Irina , Stopsack Konrad H. , Razavi Pedram , Safonov Anton , Rizvi Hira A. , Hellmann Matthew D. , Vijai Joseph , Reynolds Thomas C. , Fagin James A. , Carrot-Zhang Jian , Offit Kenneth , Solit David B. , Ladanyi Marc , Schultz Nikolaus , Zehir Ahmet , Brown Carol L. , Stadler Zsofia K. , Chakravarty Debyani , Bandlamudi Chaitanya , Berger Michael F.
Published: April 2023

Supplementary Data from Genetic Ancestry Correlates with Somatic Differences in a Real-World Clinical Cancer Sequencing Cohort
Table S1 from An Aged/Autoimmune B-cell Program Defines the Early Transformation of Extranodal Lymphomas
Authors: Venturutti Leandro , Rivas Martin A. , Pelzer Benedikt W. , Flümann Ruth , Hansen Julia , Karagiannidis Ioannis , Xia Min , McNally Dylan R. , Isshiki Yusuke , Lytle Andrew , Teater Matt , Chin Christopher R. , Meydan Cem , Knittel Gero , Ricker Edd , Mason Christopher E. , Ye Xiaofei , Pan-Hammarström Qiang , Steidl Christian , Scott David W. , Reinhardt Hans Christian , Pernis Alessandra B. , Béguelin Wendy , Melnick Ari M.
Published: April 2023

Supplementary Table S1 - Differentially expressed genes and PAGE analysis in Myd88 L252P GCB
Figures S1-S7 from An Aged/Autoimmune B-cell Program Defines the Early Transformation of Extranodal Lymphomas
Authors: Venturutti Leandro , Rivas Martin A. , Pelzer Benedikt W. , Flümann Ruth , Hansen Julia , Karagiannidis Ioannis , Xia Min , McNally Dylan R. , Isshiki Yusuke , Lytle Andrew , Teater Matt , Chin Christopher R. , Meydan Cem , Knittel Gero , Ricker Edd , Mason Christopher E. , Ye Xiaofei , Pan-Hammarström Qiang , Steidl Christian , Scott David W. , Reinhardt Hans Christian , Pernis Alessandra B. , Béguelin Wendy , Melnick Ari M.
Published: April 2023

Gating strategies, validation of results using alternative models or definitions, QC controls, etc.
Supplementary Figure S2 from LZTR1 Mutation Mediates Oncogenesis through Stabilization of EGFR and AXL
Authors: Ko Aram , Hasanain Mohammad , Oh Young Taek , D'Angelo Fulvio , Sommer Danika , Frangaj Brulinda , Tran Suzanne , Bielle Franck , Pollo Bianca , Paterra Rosina , Mokhtari Karima , Soni Rajesh Kumar , Peyre Matthieu , Eoli Marica , Papi Laura , Kalamarides Michel , Sanson Marc , Iavarone Antonio , Lasorella Anna
Published: April 2023

The Kelch domain of LZTR1 and carboxyl tail of EGFR are required for their interaction
Table S2 from CD19/CD20 Bispecific Chimeric Antigen Receptor (CAR) in Naive/Memory T Cells for the Treatment of Relapsed or Refractory Non-Hodgkin Lymphoma
Authors: Larson Sarah M. , Walthers Christopher M. , Ji Brenda , Ghafouri Sanaz N. , Naparstek Jacob , Trent Jacqueline , Chen Jia Ming , Roshandell Mobina , Harris Caitlin , Khericha Mobina , Schweppe Thomas , Berent-Maoz Beata , Gosliner Stanley B. , Almaktari Amr , Ceja Melanie Ayala , Allen-Auerbach Martin S. , Said Jonathan , Nawaly Karla , Mead Monica , de Vos Sven , Young Patricia A. , Oliai Caspian , Schiller Gary J. , Timmerman John M. , Ribas Antoni , Chen Yvonne Y.
Published: April 2023

Representativeness of study participants
Figure S5 from CD19/CD20 Bispecific Chimeric Antigen Receptor (CAR) in Naive/Memory T Cells for the Treatment of Relapsed or Refractory Non-Hodgkin Lymphoma
Authors: Larson Sarah M. , Walthers Christopher M. , Ji Brenda , Ghafouri Sanaz N. , Naparstek Jacob , Trent Jacqueline , Chen Jia Ming , Roshandell Mobina , Harris Caitlin , Khericha Mobina , Schweppe Thomas , Berent-Maoz Beata , Gosliner Stanley B. , Almaktari Amr , Ceja Melanie Ayala , Allen-Auerbach Martin S. , Said Jonathan , Nawaly Karla , Mead Monica , de Vos Sven , Young Patricia A. , Oliai Caspian , Schiller Gary J. , Timmerman John M. , Ribas Antoni , Chen Yvonne Y.
Published: April 2023

Flow-cytometry analysis of post-infusion peripheral blood samples. (A) Gating strategy for T-cell analysis in CART19/20 cell products and post-infusion patient peripheral mononuclear blood cells (PBMCs). Two viable gates were set based on side scatter (SSC-A) vs. forward scatter (FSC-A). The more restrictive “Viable” gate includes only viable lymphocytes, to enable more precise identification of T cells. The “Viable (inclusive)” gate includes all viable PBMCs, to enable calculation of CAR-T cells as a fraction of PBMCs. Truncated epidermal growth factor receptor (EGFRt) is co-expressed with the CAR, and EGFRt staining is used for CAR expression detection. Percent CAR+ T cells among viable singlets as shown in main-text Fig. 4b is the EGFRt+ population as a % of grandparent in the viable PBMC branch.Percent CAR expression among T cells as shown in main-text Fig. 4c is the EGFRt+ population as a % of parent in the viable lymphocyte branch. (B) Examples of post-infusion patient sample analysis.
Figure S4 from CD19/CD20 Bispecific Chimeric Antigen Receptor (CAR) in Naive/Memory T Cells for the Treatment of Relapsed or Refractory Non-Hodgkin Lymphoma
Authors: Larson Sarah M. , Walthers Christopher M. , Ji Brenda , Ghafouri Sanaz N. , Naparstek Jacob , Trent Jacqueline , Chen Jia Ming , Roshandell Mobina , Harris Caitlin , Khericha Mobina , Schweppe Thomas , Berent-Maoz Beata , Gosliner Stanley B. , Almaktari Amr , Ceja Melanie Ayala , Allen-Auerbach Martin S. , Said Jonathan , Nawaly Karla , Mead Monica , de Vos Sven , Young Patricia A. , Oliai Caspian , Schiller Gary J. , Timmerman John M. , Ribas Antoni , Chen Yvonne Y.
Published: April 2023

PET scans taken for all patients treated with CART19/20 cell therapy.
Figure S1 from CD19/CD20 Bispecific Chimeric Antigen Receptor (CAR) in Naive/Memory T Cells for the Treatment of Relapsed or Refractory Non-Hodgkin Lymphoma
Authors: Larson Sarah M. , Walthers Christopher M. , Ji Brenda , Ghafouri Sanaz N. , Naparstek Jacob , Trent Jacqueline , Chen Jia Ming , Roshandell Mobina , Harris Caitlin , Khericha Mobina , Schweppe Thomas , Berent-Maoz Beata , Gosliner Stanley B. , Almaktari Amr , Ceja Melanie Ayala , Allen-Auerbach Martin S. , Said Jonathan , Nawaly Karla , Mead Monica , de Vos Sven , Young Patricia A. , Oliai Caspian , Schiller Gary J. , Timmerman John M. , Ribas Antoni , Chen Yvonne Y.
Published: April 2023

CART19/20 cell product characteristics. (A) % CD4+ among total T cells and CAR-expressing T cells. (B) Comparison of T-cell subtype frequency among CD4+ vs. CD8+ T cells in cryopreserved CART19/20 cell products. Te/exh: effector/exhausted T cells, CD45RA+/CD45RO–/CD62L–; Tem: effector-memory T cells, CD45RA–/CD45RO+/CD62L–; Tcm: central-memory T cells: CD45RA–/CD45RO+/CD62L+; naïve: CD45RA+/CD45RO–/CD62L+. (C) Phenotype of leukopak content prior to cell isolation. (D) Phenotype of cells obtained after isolation. (E) CD14 and CD25 expression patterns among CD62L+ cells in patient leukopak content prior to cell isolation.
Figure S1 from LKB1-Dependent Regulation of TPI1 Creates a Divergent Metabolic Liability between Human and Mouse Lung Adenocarcinoma
Authors: Stein Benjamin D. , Ferrarone John R. , Gardner Eric E. , Chang Jae Won , Wu David , Hollstein Pablo E. , Liang Roger J. , Yuan Min , Chen Qiuying , Coukos John S. , Sindelar Miriam , Ngo Bryan , Gross Steven S. , Shaw Reuben J. , Zhang Chen , Asara John M. , Moellering Raymond E. , Varmus Harold , Cantley Lewis C.
Published: April 2023

Figure S1. Differential co-occurrence and effects of KRAS, TP53 and LKB1 mutations on human and mouse LUADs.
Supplemental Figure S7 from Targeting Microglial Metabolic Rewiring Synergizes with Immune-Checkpoint Blockade Therapy for Glioblastoma
Authors: Ye Zengpanpan , Ai Xiaolin , Yang Kailin , Yang Zhengnan , Fei Fan , Liao Xiaoling , Qiu Zhixin , Gimple Ryan C. , Yuan Huairui , Huang Hao , Gong Yanqiu , Xiao Chaoxin , Yue Jing , Huang Liang , Saulnier Olivier , Wang Wei , Zhang Peidong , Dai Lunzhi , Wang Xin , Wang Xiuxing , Ahn Young Ha , You Chao , Xu Jianguo , Wan Xiaoxiao , Taylor Michael D. , Zhao Linjie , Rich Jeremy N. , Zhou Shengtao
Published: April 2023

Supplemental Figure S7 describes that oxidative stress in microglia as an independent predictor for clinical outcome in glioma patients.
Supplementary Figure S4 from Genomic Instability and Protumoral Inflammation Are Associated with Primary Resistance to Anti–PD-1 + Antiangiogenesis in Malignant Pleural Mesothelioma
Authors: Danlos François-Xavier , Texier Matthieu , Job Bastien , Mouraud Severine , Cassard Lydie , Baldini Capucine , Varga Andrea , Yurchenko Andrey A. , Rabeau Audrey , Champiat Stéphane , Letourneur Diane , Bredel Delphine , Susini Sandrine , Blum Yuna , Parpaleix Aurelien , Parlavecchio Cedric , Tselikas Lambros , Fahrner Jean-Eudes , Goubet Anne-Gaelle , Rouanne Mathieu , Rafie Saloomeh , Abbassi Alae , Kasraoui Ines , Breckler Marie , Farhane Siham , Ammari Samy , Laghouati Salim , Gazzah Anas , Lacroix Ludovic , Besse Benjamin , Droin Nathalie , Deloger Marc , Cotteret Sophie , Adam Julien , Zitvogel Laurence , Nikolaev Sergey I. , Chaput Nathalie , Massard Christophe , Soria Jean-Charles , Gomez-Roca Carlos , Zalcman Gerard , Planchard David , Marabelle Aurelien
Published: April 2023

Additional significant differences in circulating chemokines.
Supplemental Figure S5 from Targeting Microglial Metabolic Rewiring Synergizes with Immune-Checkpoint Blockade Therapy for Glioblastoma
Authors: Ye Zengpanpan , Ai Xiaolin , Yang Kailin , Yang Zhengnan , Fei Fan , Liao Xiaoling , Qiu Zhixin , Gimple Ryan C. , Yuan Huairui , Huang Hao , Gong Yanqiu , Xiao Chaoxin , Yue Jing , Huang Liang , Saulnier Olivier , Wang Wei , Zhang Peidong , Dai Lunzhi , Wang Xin , Wang Xiuxing , Ahn Young Ha , You Chao , Xu Jianguo , Wan Xiaoxiao , Taylor Michael D. , Zhao Linjie , Rich Jeremy N. , Zhou Shengtao
Published: April 2023

Supplemental Figure S5 describes that genetic knockout of Nr4a2 in microglia reverses immunosuppressive state.
Data from Blocking Genomic Instability Prevents Acquired Resistance to MAPK Inhibitor Therapy in Melanoma
Authors: Dharanipragada Prashanthi , Zhang Xiao , Liu Sixue , Lomeli Shirley H. , Hong Aayoung , Wang Yan , Yang Zhentao , Lo Kara Z. , Vega-Crespo Agustin , Ribas Antoni , Moschos Stergios J. , Moriceau Gatien , Lo Roger S.
Published: April 2023

Abstract
Blocking cancer genomic instability may prevent tumor diversification and escape from therapies. We show that, after MAPK inhibitor (MAPKi) therapy in patients and mice bearing patient-derived xenografts (PDX), acquired resistant genomes of metastatic cutaneous melanoma specifically amplify resistance-driver, nonhomologous end-joining (NHEJ), and homologous recombination repair (HRR) genes via complex genomic rearrangements (CGR) and extrachromosomal DNAs (ecDNA). Almost all sensitive and acquired-resistant genomes harbor pervasive chromothriptic regions with disproportionately high mutational burdens and significant overlaps with ecDNA and CGR spans. Recurrently, somatic mutations within ecDNA and CGR amplicons enrich for HRR signatures, particularly within acquired resistant tumors. Regardless of sensitivity or resistance, breakpoint–junctional sequence analysis suggests NHEJ as critical to double-stranded DNA break repair underlying CGR and ecDNA formation. In human melanoma cell lines and PDXs, NHEJ targeting by a DNA-PKCS inhibitor prevents/delays acquired MAPKi resistance by reducing the size of ecDNAs and CGRs early on combination treatment. Thus, targeting the causes of genomic instability prevents acquired resistance.
Significance:
Acquired resistance often results in heterogeneous, redundant survival mechanisms, which challenge strategies aimed at reversing resistance. Acquired-resistant melanomas recurrently evolve resistance-driving and resistance-specific amplicons via ecDNAs and CGRs, thereby nominating chromothripsis–ecDNA–CGR biogenesis as a resistance-preventive target. Specifically, targeting DNA-PKCS/NHEJ prevents resistance by suppressing ecDNA/CGR rearrangements in MAPKi-treated melanomas.

This article is highlighted in the In This Issue feature, p. 799
Data from Targeted MDM2 Degradation Reveals a New Vulnerability for p53-Inactivated Triple-Negative Breast Cancer
Authors: Adams Clare M. , Mitra Ramkrishna , Xiao Youcai , Michener Peter , Palazzo Juan , Chao Allen , Gour Jitendra , Cassel Joel , Salvino Joseph M. , Eischen Christine M.
Published: April 2023

Abstract
Triple-negative breast cancers (TNBC) frequently inactivate p53, increasing their aggressiveness and therapy resistance. We identified an unexpected protein vulnerability in p53-inactivated TNBC and designed a new PROteolysis TArgeting Chimera (PROTAC) to target it. Our PROTAC selectively targets MDM2 for proteasome-mediated degradation with high-affinity binding and VHL recruitment. MDM2 loss in p53 mutant/deleted TNBC cells in two-dimensional/three-dimensional culture and TNBC patient explants, including relapsed tumors, causes apoptosis while sparing normal cells. Our MDM2-PROTAC is stable in vivo, and treatment of TNBC xenograft-bearing mice demonstrates tumor on-target efficacy with no toxicity to normal cells, significantly extending survival. Transcriptomic analyses revealed upregulation of p53 family target genes. Investigations showed activation and a required role for TAp73 to mediate MDM2-PROTAC–induced apoptosis. Our data, challenging the current MDM2/p53 paradigm, show MDM2 is required for p53-inactivated TNBC cell survival, and PROTAC-targeted MDM2 degradation is an innovative potential therapeutic strategy for TNBC and superior to existing MDM2 inhibitors.
Significance:
p53-inactivated TNBC is an aggressive, therapy-resistant, and lethal breast cancer subtype. We designed a new compound targeting an unexpected vulnerability we identified in TNBC. Our MDM2-targeted degrader kills p53-inactivated TNBC cells, highlighting the requirement for MDM2 in TNBC cell survival and as a new therapeutic target for this disease.
Data from LKB1-Dependent Regulation of TPI1 Creates a Divergent Metabolic Liability between Human and Mouse Lung Adenocarcinoma
Authors: Stein Benjamin D. , Ferrarone John R. , Gardner Eric E. , Chang Jae Won , Wu David , Hollstein Pablo E. , Liang Roger J. , Yuan Min , Chen Qiuying , Coukos John S. , Sindelar Miriam , Ngo Bryan , Gross Steven S. , Shaw Reuben J. , Zhang Chen , Asara John M. , Moellering Raymond E. , Varmus Harold , Cantley Lewis C.
Published: April 2023

Abstract
KRAS is the most frequently mutated oncogene in human lung adenocarcinomas (hLUAD), and activating mutations frequently co-occur with loss-of-function mutations in TP53 or STK11/LKB1. However, mutation of all three genes is rarely observed in hLUAD, even though engineered comutation is highly aggressive in mouse lung adenocarcinoma (mLUAD). Here, we provide a mechanistic explanation for this difference by uncovering an evolutionary divergence in the regulation of triosephosphate isomerase (TPI1). In hLUAD, TPI1 activity is regulated via phosphorylation at Ser21 by the salt inducible kinases (SIK) in an LKB1-dependent manner, modulating flux between the completion of glycolysis and production of glycerol lipids. In mice, Ser21 of TPI1 is a Cys residue that can be oxidized to alter TPI1 activity without a need for SIKs or LKB1. Our findings suggest this metabolic flexibility is critical in rapidly growing cells with KRAS and TP53 mutations, explaining why the loss of LKB1 creates a liability in these tumors.
Significance:
Utilizing phosphoproteomics and metabolomics in genetically engineered human cell lines and genetically engineered mouse models (GEMM), we uncover an evolutionary divergence in metabolic regulation within a clinically relevant genotype of human LUAD with therapeutic implications. Our data provide a cautionary example of the limits of GEMMs as tools to study human diseases such as cancers.

This article is highlighted in the In This Issue feature, p. 799