bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figure S5 from Therapy-Induced Senescence Enhances the Efficacy of HER2-Targeted Antibody–Drug Conjugates in Breast Cancer
Authors: Duro-Sánchez Santiago , Nadal-Serrano Mercedes , Lalinde-Gutiérrez Marta , Arenas Enrique Javier , Bernadó Morales Cristina , Morancho Beatriz , Escorihuela Marta , Pérez-Ramos Sandra , Escrivá-de-Romaní Santiago , Gandullo-Sánchez Lucía , Pandiella Atanasio , Esteve-Codina Anna , Rodilla Verónica , Dijcks Fred A. , Dokter Wim H.A. , Cortés Javier , Saura Cristina , Arribas Joaquín
Published: March 2023

Effect of knock-down of cathepsins on the bystander effect of SYD985.
Supplementary Data from Pan-Cancer Analysis of Microbiome Quantitative Trait Loci
Authors: Chen Can , Cai Yimin , Liu Yizhuo , Chen Shuoni , Li Yanmin , Zhang Fuwei , Zhang Ming , Lu Zequn , Ying Pingting , Huang Jinyu , Fan Linyun , Cai Xiaomin , Ning Caibo , Wang Wenzhuo , Jiang Yuan , Zhang Heng , Yang Shuhui , Wang Zhihua , Wang Xiaoyang , Zhang Shaokai , Huang Chaoqun , Xu Bin , Fu Zhenming , Song Qibin , Jin Mingjuan , Chen Kun , Chen Hongda , Dai Min , Miao Xiaoping , Yang Xiaojun , Zhu Ying , Tian Jianbo
Published: March 2023

Supplementary Data from Pan-Cancer Analysis of Microbiome Quantitative Trait Loci
Supplementary Figure S1 from Therapy-Induced Senescence Enhances the Efficacy of HER2-Targeted Antibody–Drug Conjugates in Breast Cancer
Authors: Duro-Sánchez Santiago , Nadal-Serrano Mercedes , Lalinde-Gutiérrez Marta , Arenas Enrique Javier , Bernadó Morales Cristina , Morancho Beatriz , Escorihuela Marta , Pérez-Ramos Sandra , Escrivá-de-Romaní Santiago , Gandullo-Sánchez Lucía , Pandiella Atanasio , Esteve-Codina Anna , Rodilla Verónica , Dijcks Fred A. , Dokter Wim H.A. , Cortés Javier , Saura Cristina , Arribas Joaquín
Published: March 2023

Cellular phenotypes induced by diverse senescence inducers
Supplementary Data from Notch Signaling Promotes Mature T-Cell Lymphomagenesis
Authors: Gao Xin , Wang Chenguang , Abdelrahman Suhaib , Kady Nermin , Murga-Zamalloa Carlos , Gann Peter , Sverdlov Maria , Wolfe Ashley , Polk Avery , Brown Noah , Bailey Nathanael G. , Inamdar Kedar , Casavilca-Zambrano Sandro , Montes Jaime , Barrionuevo Carlos , Taxa Luis , Reneau John , Siebel Christian W. , Maillard Ivan , Wilcox Ryan A.
Published: March 2023

Supplementary Data from Notch Signaling Promotes Mature T-Cell Lymphomagenesis
Supplementary Data from High-Resolution Profiling of Lung Adenocarcinoma Identifies Expression Subtypes with Specific Biomarkers and Clinically Relevant Vulnerabilities
Authors: Roh Whijae , Geffen Yifat , Cha Hongui , Miller Mendy , Anand Shankara , Kim Jaegil , Heiman David I. , Gainor Justin F. , Laird Peter W. , Cherniack Andrew D. , Ock Chan-Young , Lee Se-Hoon , Getz Gad
Published: March 2023

Supplementary Data from High-Resolution Profiling of Lung Adenocarcinoma Identifies Expression Subtypes with Specific Biomarkers and Clinically Relevant Vulnerabilities
Supplementary Data from Potent and Selective PTDSS1 Inhibitors Induce Collateral Lethality in Cancers with PTDSS2 Deletion
Authors: Yoshihama Yohei , Namiki Hidenori , Kato Taiga , Shimazaki Naomi , Takaishi Sachiko , Kadoshima-Yamaoka Kumiko , Yukinaga Hideo , Maeda Naoyuki , Shibutani Tomoko , Fujimoto Kazunori , Hirasawa Makoto , Goto Hiroki , Wada Naoya , Tsutsumi Shinji , Hirota Yasuhide , Ishikawa Tomoki , Yamamoto Shoji
Published: March 2023

Supplementary Data from Potent and Selective PTDSS1 Inhibitors Induce Collateral Lethality in Cancers with PTDSS2 Deletion
Supplementary Data from Lipid Metabolic Reprogramming Extends beyond Histologic Tumor Demarcations in Operable Human Pancreatic Cancer
Authors: Pirhonen Juho , Szkalisity Ábel , Hagström Jaana , Kim Yonghyo , Migh Ede , Kovács Mária , Hölttä Maarit , Peränen Johan , Seppänen Hanna , Haglund Caj , Gil Jeovanis , Rezeli Melinda , Malm Johan , Horvath Peter , Markó-Varga György , Puolakkainen Pauli , Ikonen Elina
Published: March 2023

Supplementary Data from Lipid Metabolic Reprogramming Extends beyond Histologic Tumor Demarcations in Operable Human Pancreatic Cancer
Supplementary Table from Systematic Comparison of Pancreatic Ductal Adenocarcinoma Models Identifies a Conserved Highly Plastic Basal Cell State
Authors: Pitter Kenneth L. , Grbovic-Huezo Olivera , Joost Simon , Singhal Anupriya , Blum Melissa , Wu Katherine , Holm Matilda , Ferrena Alexander , Bhutkar Arjun , Hudson Anna , Lecomte Nicolas , de Stanchina Elisa , Chaligne Ronan , Iacobuzio-Donahue Christine A. , Pe'er Dana , Tammela Tuomas
Published: March 2023

Supplementary Table from Systematic Comparison of Pancreatic Ductal Adenocarcinoma Models Identifies a Conserved Highly Plastic Basal Cell State
Supplementary Figure from Systematic Comparison of Pancreatic Ductal Adenocarcinoma Models Identifies a Conserved Highly Plastic Basal Cell State
Authors: Pitter Kenneth L. , Grbovic-Huezo Olivera , Joost Simon , Singhal Anupriya , Blum Melissa , Wu Katherine , Holm Matilda , Ferrena Alexander , Bhutkar Arjun , Hudson Anna , Lecomte Nicolas , de Stanchina Elisa , Chaligne Ronan , Iacobuzio-Donahue Christine A. , Pe'er Dana , Tammela Tuomas
Published: March 2023

Supplementary Figure from Systematic Comparison of Pancreatic Ductal Adenocarcinoma Models Identifies a Conserved Highly Plastic Basal Cell State
Supplementary Data from MEX3A Impairs DNA Mismatch Repair Signaling and Mediates Acquired Temozolomide Resistance in Glioblastoma
Authors: Gan Tian , Wang Yan , Xie Manyi , Wang Qiang , Zhao Saisai , Wang Peng , Shi Qinyu , Qian Xuanchen , Miao Faan , Shen Zhigang , Nie Er
Published: March 2023

Supplementary Data from MEX3A Impairs DNA Mismatch Repair Signaling and Mediates Acquired Temozolomide Resistance in Glioblastoma
Supplementary Data from ATF3 Reprograms the Bone Marrow Niche in Response to Early Breast Cancer Transformation
Authors: Perrone Milena , Chiodoni Claudia , Lecchi Mara , Botti Laura , Bassani Barbara , Piva Annamaria , Jachetti Elena , Milani Matteo , Lecis Daniele , Tagliabue Elda , Verderio Paolo , Sangaletti Sabina , Colombo Mario P.
Published: March 2023

This file includes Supplementary Figures S1-S5
Supplementary Figure from Loss of MLL Induces Epigenetic Dysregulation of Rasgrf1 to Attenuate Kras-Driven Lung Tumorigenesis
Authors: Zhu Ling-Yu , Yuan Jun-Bo , Zhang Li , He Chun-Xiao , Lin Xiao , Xu Bin , Jin Guang-Hui
Published: March 2023

Supplementary Figure from Loss of MLL Induces Epigenetic Dysregulation of Rasgrf1 to Attenuate Kras-Driven Lung Tumorigenesis
Supplementary Table 2 from Monounsaturated and Diunsaturated Fatty Acids Sensitize Cervical Cancer to Radiation Therapy
Authors: Muhammad Naoshad , Ruiz Fiona , Stanley Jennifer , Rashmi Ramachandran , Cho Kevin , Jayachandran Kay , Zahner Michael C. , Huang Yi , Zhang Jin , Markovina Stephanie , Patti Gary J. , Schwarz Julie K.
Published: March 2023

Tumor growth kinetics of TC-1 orthograft tumors
Supplementary Table 19 from Genetic Ancestry Inference from Cancer-Derived Molecular Data across Genomic and Transcriptomic Platforms
Authors: Belleau Pascal , Deschênes Astrid , Chambwe Nyasha , Tuveson David A. , Krasnitz Alexander
Published: March 2023

Supplementary Table 19
Supplementary Figure 7 from Monounsaturated and Diunsaturated Fatty Acids Sensitize Cervical Cancer to Radiation Therapy
Authors: Muhammad Naoshad , Ruiz Fiona , Stanley Jennifer , Rashmi Ramachandran , Cho Kevin , Jayachandran Kay , Zahner Michael C. , Huang Yi , Zhang Jin , Markovina Stephanie , Patti Gary J. , Schwarz Julie K.
Published: March 2023

Oleic acid and radiation modulates PPARγ regulated gene expression
Supplementary Figure 4 from Monounsaturated and Diunsaturated Fatty Acids Sensitize Cervical Cancer to Radiation Therapy
Authors: Muhammad Naoshad , Ruiz Fiona , Stanley Jennifer , Rashmi Ramachandran , Cho Kevin , Jayachandran Kay , Zahner Michael C. , Huang Yi , Zhang Jin , Markovina Stephanie , Patti Gary J. , Schwarz Julie K.
Published: March 2023

Oleic acid plus radiation affects cell cycle distribution and expression of p53 related proteins, p21 and Bax.
Supplementary Figure 2 from Monounsaturated and Diunsaturated Fatty Acids Sensitize Cervical Cancer to Radiation Therapy
Authors: Muhammad Naoshad , Ruiz Fiona , Stanley Jennifer , Rashmi Ramachandran , Cho Kevin , Jayachandran Kay , Zahner Michael C. , Huang Yi , Zhang Jin , Markovina Stephanie , Patti Gary J. , Schwarz Julie K.
Published: March 2023

Oleic acid and linoleic acid supplementation does not affect radiation sensitivity in TP53
Supplementary Table 1 from N-myc–Mediated Translation Control Is a Therapeutic Vulnerability in Medulloblastoma
Authors: Kuzuoglu-Ozturk Duygu , Aksoy Ozlem , Schmidt Christin , Lea Robin , Larson Jon D. , Phelps Ryan R.L. , Nasholm Nicole , Holt Megan , Contreras Adrian , Huang Miller , Wong-Michalak Shannon , Shao Hao , Wechsler-Reya Robert , Phillips Joanna J. , Gestwicki Jason E. , Ruggero Davide , Weiss William A.
Published: March 2023

RNA abundance of Rapalink-1 and Rapamycin treated samples
Supplementary Table 1 from Stress-Mediated Attenuation of Translation Undermines T-cell Activity in Cancer
Authors: Riesenberg Brian P. , Hunt Elizabeth G. , Tennant Megan D. , Hurst Katie E. , Andrews Alex M. , Leddy Lee R. , Neskey David M. , Hill Elizabeth G. , Rivera Guillermo O. Rangel , Paulos Chrystal M. , Gao Peng , Thaxton Jessica E.
Published: March 2023

Mixed linear modeling results for tumor curves
Supplementary Dataset S5 from Loss of NF1 in Melanoma Confers Sensitivity to SYK Kinase Inhibition
Authors: Abecunas Cara , Whitehead Christopher E. , Ziemke Elizabeth K. , Baumann Douglas G. , Frankowski-McGregor Christy L. , Sebolt-Leopold Judith S. , Fallahi-Sichani Mohammad
Published: March 2023

Supplementary Dataset S5
Supplementary Table S7 from Gene Fusion Detection and Characterization in Long-Read Cancer Transcriptome Sequencing Data with FusionSeeker
Authors: Chen Yu , Wang Yiqing , Chen Weisheng , Tan Zhengzhi , Song Yuwei , Chen Herbert , Chong Zechen
Published: March 2023

Supplementary Table S7
Supplementary MovieS2a from Immunotherapeutic Targeting and PET Imaging of DLL3 in Small-Cell Neuroendocrine Prostate Cancer
Authors: Chou Jonathan , Egusa Emily A. , Wang Sinan , Badura Michelle L. , Lee Fei , Bidkar Anil P. , Zhu Jun , Shenoy Tanushree , Trepka Kai , Robinson Troy M. , Steri Veronica , Huang Jiaoti , Wang Yuzhuo , Small Eric J. , Chan Emily , Stohr Bradley A. , Ashworth Alan , Delafontaine Brant , Rottey Sylvie , Cooke Keegan S. , Hashemi Sadraei Nooshin , Yu Brian , Salvati Mark , Bailis Julie M. , Feng Felix Y. , Flavell Robert R. , Aggarwal Rahul
Published: March 2023

Supplemental Movies 2a-2c: 22Rv1-NuclightGreen and SHP-77-NuclightRed mixed population co-cultures. Time-lapse movies of 22Rv1 cells (labeled with NuclightGreen) and SHP-77 cells (labeled with NuclightRed) co-cultured with T cells. Both the 22Rv1 and SHP-77 cells were plated at equal densities and treated with either NT control BiTE®, AMG 757, or the PSMA-targeting HLE BiTE, AMG 160. T cells were added to each well at an E:T ratio of 10:1. Images were captured every 4 hours at 4x magnification for 5 days.
a. 22Rv1, SHP-77, and T cells co-cultured with NT control BiTE®.
b. 22Rv1, SHP-77, and T cells co-cultured with AMG 757.
c. 22Rv1, SHP-77, and T cells co-cultured with AMG 160.
Supplementary MovieS1b from Immunotherapeutic Targeting and PET Imaging of DLL3 in Small-Cell Neuroendocrine Prostate Cancer
Authors: Chou Jonathan , Egusa Emily A. , Wang Sinan , Badura Michelle L. , Lee Fei , Bidkar Anil P. , Zhu Jun , Shenoy Tanushree , Trepka Kai , Robinson Troy M. , Steri Veronica , Huang Jiaoti , Wang Yuzhuo , Small Eric J. , Chan Emily , Stohr Bradley A. , Ashworth Alan , Delafontaine Brant , Rottey Sylvie , Cooke Keegan S. , Hashemi Sadraei Nooshin , Yu Brian , Salvati Mark , Bailis Julie M. , Feng Felix Y. , Flavell Robert R. , Aggarwal Rahul
Published: March 2023

Supplemental Movies 1a-1d: 22Rv1-LacZ and 22Rv1-DLL3 cells co-cultures. Time-lapse movies of 22Rv1-LacZ and 22Rv1-DLL3 cells (labeled with NuclightRed) co-cultured with T cells and either NT control BiTE® or AMG 757. T cells were plated at an E:T ratio of 5:1. Images were captured every 6 hours at 10x magnification.
a. 22Rv1-LacZ cells and T cells treated with NT control BiTE®.
b. 22Rv1-DLL3 cells and T cells treated with NT control BiTE®.
c. 22Rv1-LacZ cells and T cells treated with AMG 757.
d. 22Rv1-DLL3 cells and T cells treated with AMG 757.
Supplementary Data Figures and Legends from Immunotherapeutic Targeting and PET Imaging of DLL3 in Small-Cell Neuroendocrine Prostate Cancer
Authors: Chou Jonathan , Egusa Emily A. , Wang Sinan , Badura Michelle L. , Lee Fei , Bidkar Anil P. , Zhu Jun , Shenoy Tanushree , Trepka Kai , Robinson Troy M. , Steri Veronica , Huang Jiaoti , Wang Yuzhuo , Small Eric J. , Chan Emily , Stohr Bradley A. , Ashworth Alan , Delafontaine Brant , Rottey Sylvie , Cooke Keegan S. , Hashemi Sadraei Nooshin , Yu Brian , Salvati Mark , Bailis Julie M. , Feng Felix Y. , Flavell Robert R. , Aggarwal Rahul
Published: March 2023

Supplementary Data: Figures and Legends combined
Figure S7 from Stromal Reprogramming through Dual PDGFRα/β Blockade Boosts the Efficacy of Anti–PD-1 Immunotherapy in Fibrotic Tumors
Authors: Akiyama Takahiko , Yasuda Tadahito , Uchihara Tomoyuki , Yasuda-Yoshihara Noriko , Tan Benjy J.Y. , Yonemura Atsuko , Semba Takashi , Yamasaki Juntaro , Komohara Yoshihiro , Ohnishi Koji , Wei Feng , Fu Lingfeng , Zhang Jun , Kitamura Fumimasa , Yamashita Kohei , Eto Kojiro , Iwagami Shiro , Tsukamoto Hirotake , Umemoto Terumasa , Masuda Mari , Nagano Osamu , Satou Yorifumi , Saya Hideyuki , Tan Patrick , Baba Hideo , Ishimoto Takatsugu
Published: March 2023

Supplementary Figure7
Figure S3 from Stromal Reprogramming through Dual PDGFRα/β Blockade Boosts the Efficacy of Anti–PD-1 Immunotherapy in Fibrotic Tumors
Authors: Akiyama Takahiko , Yasuda Tadahito , Uchihara Tomoyuki , Yasuda-Yoshihara Noriko , Tan Benjy J.Y. , Yonemura Atsuko , Semba Takashi , Yamasaki Juntaro , Komohara Yoshihiro , Ohnishi Koji , Wei Feng , Fu Lingfeng , Zhang Jun , Kitamura Fumimasa , Yamashita Kohei , Eto Kojiro , Iwagami Shiro , Tsukamoto Hirotake , Umemoto Terumasa , Masuda Mari , Nagano Osamu , Satou Yorifumi , Saya Hideyuki , Tan Patrick , Baba Hideo , Ishimoto Takatsugu
Published: March 2023

Supplementary Figure3
Supplementary Table S3 from Dormant SOX9-Positive Cells Facilitate MYC-Driven Recurrence of Medulloblastoma
Authors: Borgenvik Anna , Holmberg Karl O. , Bolin Sara , Zhao Miao , Savov Vasil , Rosén Gabriela , Hutter Sonja , Garancher Alexandra , Rahmanto Aldwin Suryo , Bergström Tobias , Olsen Thale Kristin , Mainwaring Oliver J. , Sattanino Damiana , Verbaan Annemieke D. , Rusert Jessica M. , Sundström Anders , Bravo Mar Ballester , Dang Yonglong , Wenz Amelie S. , Richardson Stacey , Fotaki Grammatiki , Hill Rebecca M. , Dubuc Adrian M. , Kalushkova Antonia , Remke Marc , Čančer Matko , Jernberg-Wiklund Helena , Giraud Géraldine , Chen Xingqi , Taylor Michael D. , Sangfelt Olle , Clifford Steven C. , Schüller Ulrich , Wechsler-Reya Robert J. , Weishaupt Holger , Swartling Fredrik J.
Published: March 2023

Results of differential gene expression analysis between GTML3 tumor cells treated for 48 hours with DMSO or Dox.
Supplementary video 2 from Depletion of Conventional Type-1 Dendritic Cells in Established Tumors Suppresses Immunotherapy Efficacy
Authors: Teijeira Alvaro , Garasa Saray , Luri-Rey Carlos , de Andrea Carlos , Gato Maria , Molina Carmen , Kaisho Tsuneyasu , Cirella Assunta , Azpilikueta Arantza , Wculek Steffanie K. , Egea Josune , Olivera Irene , Rodriguez Inmaculada , Rouzaut Ana , Verkhusha Vladislav , Valencia Karmele , Sancho David , Berraondo Pedro , Melero Ignacio
Published: March 2023

Video S2
Supplementary video 1 from Depletion of Conventional Type-1 Dendritic Cells in Established Tumors Suppresses Immunotherapy Efficacy
Authors: Teijeira Alvaro , Garasa Saray , Luri-Rey Carlos , de Andrea Carlos , Gato Maria , Molina Carmen , Kaisho Tsuneyasu , Cirella Assunta , Azpilikueta Arantza , Wculek Steffanie K. , Egea Josune , Olivera Irene , Rodriguez Inmaculada , Rouzaut Ana , Verkhusha Vladislav , Valencia Karmele , Sancho David , Berraondo Pedro , Melero Ignacio
Published: March 2023

video S1
Supplementary Data from Spatially Resolved Single-Cell Assessment of Pancreatic Cancer Expression Subtypes Reveals Co-expressor Phenotypes and Extensive Intratumoral Heterogeneity
Authors: Williams Hannah L. , Dias Costa Andressa , Zhang Jinming , Raghavan Srivatsan , Winter Peter S. , Kapner Kevin S. , Ginebaugh Scott P. , Väyrynen Sara A. , Väyrynen Juha P. , Yuan Chen , Navia Andrew W. , Wang Junning , Yang Annan , Bosse Timothy L. , Kalekar Radha L. , Lowder Kristen E. , Lau Mai Chan , Elganainy Dalia , Morales-Oyarvide Vicente , Rubinson Douglas A. , Singh Harshabad , Perez Kimberly , Cleary James M. , Clancy Thomas E. , Wang Jiping , Mancias Joseph D. , Brais Lauren K. , Hill Emma R. , Kozak Margaret M. , Linehan David C. , Dunne Richard F. , Chang Daniel T. , Koong Albert C. , Hezel Aram F. , Hahn William C. , Shalek Alex K. , Aguirre Andrew J. , Nowak Jonathan A. , Wolpin Brian M.
Published: March 2023

Supplementary Figures
Supplementary Data from Dormant SOX9-Positive Cells Facilitate MYC-Driven Recurrence of Medulloblastoma
Authors: Borgenvik Anna , Holmberg Karl O. , Bolin Sara , Zhao Miao , Savov Vasil , Rosén Gabriela , Hutter Sonja , Garancher Alexandra , Rahmanto Aldwin Suryo , Bergström Tobias , Olsen Thale Kristin , Mainwaring Oliver J. , Sattanino Damiana , Verbaan Annemieke D. , Rusert Jessica M. , Sundström Anders , Bravo Mar Ballester , Dang Yonglong , Wenz Amelie S. , Richardson Stacey , Fotaki Grammatiki , Hill Rebecca M. , Dubuc Adrian M. , Kalushkova Antonia , Remke Marc , Čančer Matko , Jernberg-Wiklund Helena , Giraud Géraldine , Chen Xingqi , Taylor Michael D. , Sangfelt Olle , Clifford Steven C. , Schüller Ulrich , Wechsler-Reya Robert J. , Weishaupt Holger , Swartling Fredrik J.
Published: March 2023

Supplementary figure 3
Supplementary Data from Dormant SOX9-Positive Cells Facilitate MYC-Driven Recurrence of Medulloblastoma
Authors: Borgenvik Anna , Holmberg Karl O. , Bolin Sara , Zhao Miao , Savov Vasil , Rosén Gabriela , Hutter Sonja , Garancher Alexandra , Rahmanto Aldwin Suryo , Bergström Tobias , Olsen Thale Kristin , Mainwaring Oliver J. , Sattanino Damiana , Verbaan Annemieke D. , Rusert Jessica M. , Sundström Anders , Bravo Mar Ballester , Dang Yonglong , Wenz Amelie S. , Richardson Stacey , Fotaki Grammatiki , Hill Rebecca M. , Dubuc Adrian M. , Kalushkova Antonia , Remke Marc , Čančer Matko , Jernberg-Wiklund Helena , Giraud Géraldine , Chen Xingqi , Taylor Michael D. , Sangfelt Olle , Clifford Steven C. , Schüller Ulrich , Wechsler-Reya Robert J. , Weishaupt Holger , Swartling Fredrik J.
Published: March 2023

Supplementary figure 5
Supplementary Data from A Genetically Encoded Magnetic Resonance Imaging Reporter Enables Sensitive Detection and Tracking of Spontaneous Metastases in Deep Tissues
Authors: Nyström Nivin N. , McRae Sean W. , Martinez Francisco M. , Kelly John J. , Scholl Timothy J. , Ronald John A.
Published: March 2023

Supporting Information for Manuscript
Supplementary Data from Protein Phosphatase 1 Subunit PPP1R14B Stabilizes STMN1 to Promote Progression and Paclitaxel Resistance in Triple-Negative Breast Cancer
Authors: Liao Li , Zhang Yin-Ling , Deng Ling , Chen Chao , Ma Xiao-Yan , Andriani Lisa , Yang Shao-Ying , Hu Shu-Yuan , Zhang Fang-Lin , Shao Zhi-Min , Li Da-Qiang
Published: March 2023

Supplementary figures and tables
Supplementary Movie S6 from Plk1 Inhibitors and Abiraterone Synergistically Disrupt Mitosis and Kill Cancer Cells of Disparate Origin Independently of Androgen Receptor Signaling
Authors: Patterson Jesse C. , Varkaris Andreas , Croucher Peter J.P. , Ridinger Maya , Dalrymple Susan , Nouri Mannan , Xie Fang , Varmeh Shohreh , Jonas Oliver , Whitman Matthew A. , Chen Sen , Rashed Saleh , Makusha Lovemore , Luo Jun , Isaacs John T. , Erlander Mark G. , Einstein David J. , Balk Steven P. , Yaffe Michael B.
Published: March 2023

Normal mitotic cell division
Supplementary Data from CSN6 Mediates Nucleotide Metabolism to Promote Tumor Development and Chemoresistance in Colorectal Cancer
Authors: Zou Shaomin , Qin Baifu , Yang Ziqing , Wang Wencong , Zhang Jieping , Zhang Yijing , Meng Manqi , Feng Junyan , Xie Yunling , Fang Ling , Xiao Lishi , Zhang Peng , Meng Xiangqi , Choi Hyun Ho , Wen Weijie , Pan Qihao , Ghesquière Bart , Lan Ping , Lee Mong-Hong , Fang Lekun
Published: March 2023

Supplementary Materials and Methods; Supplementary Figure S1-S11
Supplementary Data from CSN6 Mediates Nucleotide Metabolism to Promote Tumor Development and Chemoresistance in Colorectal Cancer
Authors: Zou Shaomin , Qin Baifu , Yang Ziqing , Wang Wencong , Zhang Jieping , Zhang Yijing , Meng Manqi , Feng Junyan , Xie Yunling , Fang Ling , Xiao Lishi , Zhang Peng , Meng Xiangqi , Choi Hyun Ho , Wen Weijie , Pan Qihao , Ghesquière Bart , Lan Ping , Lee Mong-Hong , Fang Lekun
Published: March 2023

Table S3
Supplementary Movie S3 from Plk1 Inhibitors and Abiraterone Synergistically Disrupt Mitosis and Kill Cancer Cells of Disparate Origin Independently of Androgen Receptor Signaling
Authors: Patterson Jesse C. , Varkaris Andreas , Croucher Peter J.P. , Ridinger Maya , Dalrymple Susan , Nouri Mannan , Xie Fang , Varmeh Shohreh , Jonas Oliver , Whitman Matthew A. , Chen Sen , Rashed Saleh , Makusha Lovemore , Luo Jun , Isaacs John T. , Erlander Mark G. , Einstein David J. , Balk Steven P. , Yaffe Michael B.
Published: March 2023

Chromatin structure in enzalutamide treated C4-2 cells
Supplementary Movie S2 from Plk1 Inhibitors and Abiraterone Synergistically Disrupt Mitosis and Kill Cancer Cells of Disparate Origin Independently of Androgen Receptor Signaling
Authors: Patterson Jesse C. , Varkaris Andreas , Croucher Peter J.P. , Ridinger Maya , Dalrymple Susan , Nouri Mannan , Xie Fang , Varmeh Shohreh , Jonas Oliver , Whitman Matthew A. , Chen Sen , Rashed Saleh , Makusha Lovemore , Luo Jun , Isaacs John T. , Erlander Mark G. , Einstein David J. , Balk Steven P. , Yaffe Michael B.
Published: March 2023

Chromatin structure in abiraterone treated C4-2 cells
Supplementary Movie S1 from Plk1 Inhibitors and Abiraterone Synergistically Disrupt Mitosis and Kill Cancer Cells of Disparate Origin Independently of Androgen Receptor Signaling
Authors: Patterson Jesse C. , Varkaris Andreas , Croucher Peter J.P. , Ridinger Maya , Dalrymple Susan , Nouri Mannan , Xie Fang , Varmeh Shohreh , Jonas Oliver , Whitman Matthew A. , Chen Sen , Rashed Saleh , Makusha Lovemore , Luo Jun , Isaacs John T. , Erlander Mark G. , Einstein David J. , Balk Steven P. , Yaffe Michael B.
Published: March 2023

Chromatin structure in vehicle treated C4-2 cells
Supplementary Figures S1-S7 from Plk1 Inhibitors and Abiraterone Synergistically Disrupt Mitosis and Kill Cancer Cells of Disparate Origin Independently of Androgen Receptor Signaling
Authors: Patterson Jesse C. , Varkaris Andreas , Croucher Peter J.P. , Ridinger Maya , Dalrymple Susan , Nouri Mannan , Xie Fang , Varmeh Shohreh , Jonas Oliver , Whitman Matthew A. , Chen Sen , Rashed Saleh , Makusha Lovemore , Luo Jun , Isaacs John T. , Erlander Mark G. , Einstein David J. , Balk Steven P. , Yaffe Michael B.
Published: March 2023

Seven Supplementary Figures and Legends
Table S2 from Hydrogen Sulfide Creates a Favorable Immune Microenvironment for Colon Cancer
Authors: Yue Taohua , Li Jichang , Zhu Jing , Zuo Shuai , Wang Xin , Liu Yucun , Liu Jia , Liu Xiaoyun , Wang Pengyuan , Chen Shanwen
Published: March 2023

Supplementary Table 2
Figure S2 from Hydrogen Sulfide Creates a Favorable Immune Microenvironment for Colon Cancer
Authors: Yue Taohua , Li Jichang , Zhu Jing , Zuo Shuai , Wang Xin , Liu Yucun , Liu Jia , Liu Xiaoyun , Wang Pengyuan , Chen Shanwen
Published: March 2023

Supplementary Figure 2
Supplementary Table S1 from KDM6A Loss Triggers an Epigenetic Switch That Disrupts Urothelial Differentiation and Drives Cell Proliferation in Bladder Cancer
Authors: Qiu Hong , Makarov Vladimir , Bolzenius Jennifer K. , Halstead Angela , Parker Yvonne , Wang Allen , Iyer Gopakumar V. , Wise Hannah , Kim Daniel , Thayaparan Varna , Lindner Daniel J. , Haber Georges-Pascal , Ting Angela H. , Ren Bing , Chan Timothy A. , Arora Vivek , Solit David B. , Lee Byron H.
Published: March 2023

Supplementary Table S1
Primers from A Pro-Regenerative Environment Triggers Premalignant to Malignant Transformation of Senescent Hepatocytes
Authors: Wuestefeld Anna , Iakovleva Viktoriia , Yap Shirlyn Xue Ling , Ong Agnes Bee Leng , Huang Daniel Q. , Shuen Timothy Wai Ho , Toh Han Chong , Dan Yock Young , Zender Lars , Wuestefeld Torsten
Published: March 2023

Table of primers
44d_RNAseq_data from A Pro-Regenerative Environment Triggers Premalignant to Malignant Transformation of Senescent Hepatocytes
Authors: Wuestefeld Anna , Iakovleva Viktoriia , Yap Shirlyn Xue Ling , Ong Agnes Bee Leng , Huang Daniel Q. , Shuen Timothy Wai Ho , Toh Han Chong , Dan Yock Young , Zender Lars , Wuestefeld Torsten
Published: March 2023

44d post hepatectomy RNAseq count and metadata files
Supplementary Figure 8 from KDM6A Loss Triggers an Epigenetic Switch That Disrupts Urothelial Differentiation and Drives Cell Proliferation in Bladder Cancer
Authors: Qiu Hong , Makarov Vladimir , Bolzenius Jennifer K. , Halstead Angela , Parker Yvonne , Wang Allen , Iyer Gopakumar V. , Wise Hannah , Kim Daniel , Thayaparan Varna , Lindner Daniel J. , Haber Georges-Pascal , Ting Angela H. , Ren Bing , Chan Timothy A. , Arora Vivek , Solit David B. , Lee Byron H.
Published: March 2023

Supplementary Figure 8
Supplementary Figure 7 from KDM6A Loss Triggers an Epigenetic Switch That Disrupts Urothelial Differentiation and Drives Cell Proliferation in Bladder Cancer
Authors: Qiu Hong , Makarov Vladimir , Bolzenius Jennifer K. , Halstead Angela , Parker Yvonne , Wang Allen , Iyer Gopakumar V. , Wise Hannah , Kim Daniel , Thayaparan Varna , Lindner Daniel J. , Haber Georges-Pascal , Ting Angela H. , Ren Bing , Chan Timothy A. , Arora Vivek , Solit David B. , Lee Byron H.
Published: March 2023

Supplementary Figure 7
Supplementary File 2 from Spatial Transcriptomic Analysis of a Diverse Patient Cohort Reveals a Conserved Architecture in Triple-Negative Breast Cancer
Authors: Bassiouni Rania , Idowu Michael O. , Gibbs Lee D. , Robila Valentina , Grizzard Pamela J. , Webb Michelle G. , Song Jiarong , Noriega Ashley , Craig David W. , Carpten John D.
Published: March 2023

List of Expression Datasets used for Survival Analysis
Supplementary Figure 6 from KDM6A Loss Triggers an Epigenetic Switch That Disrupts Urothelial Differentiation and Drives Cell Proliferation in Bladder Cancer
Authors: Qiu Hong , Makarov Vladimir , Bolzenius Jennifer K. , Halstead Angela , Parker Yvonne , Wang Allen , Iyer Gopakumar V. , Wise Hannah , Kim Daniel , Thayaparan Varna , Lindner Daniel J. , Haber Georges-Pascal , Ting Angela H. , Ren Bing , Chan Timothy A. , Arora Vivek , Solit David B. , Lee Byron H.
Published: March 2023

Supplementary Figure 6
Supplementary Figure 5 from KDM6A Loss Triggers an Epigenetic Switch That Disrupts Urothelial Differentiation and Drives Cell Proliferation in Bladder Cancer
Authors: Qiu Hong , Makarov Vladimir , Bolzenius Jennifer K. , Halstead Angela , Parker Yvonne , Wang Allen , Iyer Gopakumar V. , Wise Hannah , Kim Daniel , Thayaparan Varna , Lindner Daniel J. , Haber Georges-Pascal , Ting Angela H. , Ren Bing , Chan Timothy A. , Arora Vivek , Solit David B. , Lee Byron H.
Published: March 2023

Supplementary Figure 5
Supplementary Figure 3 from KDM6A Loss Triggers an Epigenetic Switch That Disrupts Urothelial Differentiation and Drives Cell Proliferation in Bladder Cancer
Authors: Qiu Hong , Makarov Vladimir , Bolzenius Jennifer K. , Halstead Angela , Parker Yvonne , Wang Allen , Iyer Gopakumar V. , Wise Hannah , Kim Daniel , Thayaparan Varna , Lindner Daniel J. , Haber Georges-Pascal , Ting Angela H. , Ren Bing , Chan Timothy A. , Arora Vivek , Solit David B. , Lee Byron H.
Published: March 2023

Supplementary Figure 3
Supplementary Figure 1 from KDM6A Loss Triggers an Epigenetic Switch That Disrupts Urothelial Differentiation and Drives Cell Proliferation in Bladder Cancer
Authors: Qiu Hong , Makarov Vladimir , Bolzenius Jennifer K. , Halstead Angela , Parker Yvonne , Wang Allen , Iyer Gopakumar V. , Wise Hannah , Kim Daniel , Thayaparan Varna , Lindner Daniel J. , Haber Georges-Pascal , Ting Angela H. , Ren Bing , Chan Timothy A. , Arora Vivek , Solit David B. , Lee Byron H.
Published: March 2023

Supplementary Figure 1
Supplementary Data 1 from KDM6A Loss Triggers an Epigenetic Switch That Disrupts Urothelial Differentiation and Drives Cell Proliferation in Bladder Cancer
Authors: Qiu Hong , Makarov Vladimir , Bolzenius Jennifer K. , Halstead Angela , Parker Yvonne , Wang Allen , Iyer Gopakumar V. , Wise Hannah , Kim Daniel , Thayaparan Varna , Lindner Daniel J. , Haber Georges-Pascal , Ting Angela H. , Ren Bing , Chan Timothy A. , Arora Vivek , Solit David B. , Lee Byron H.
Published: March 2023

List of TCGA cases used in ATAC-seq analysis
Supplementary Data from HAND2 Assists MYCN Enhancer Invasion to Regulate a Noradrenergic Neuroblastoma Phenotype
Authors: Xu Man , Sun Ming , Zhang Xiyuan , Nguyen Rosa , Lei Haiyan , Shern Jack F. , Thiele Carol J. , Liu Zhihui
Published: March 2023

Supplementary file contains 6 supplementary figures.
Supplementary Data from HAND2 Assists MYCN Enhancer Invasion to Regulate a Noradrenergic Neuroblastoma Phenotype
Authors: Xu Man , Sun Ming , Zhang Xiyuan , Nguyen Rosa , Lei Haiyan , Shern Jack F. , Thiele Carol J. , Liu Zhihui
Published: March 2023

Table S1 shows primer sequences used for realtime PCR and HAND2 mutant sequence information.
Supplementary Data from HAND2 Assists MYCN Enhancer Invasion to Regulate a Noradrenergic Neuroblastoma Phenotype
Authors: Xu Man , Sun Ming , Zhang Xiyuan , Nguyen Rosa , Lei Haiyan , Shern Jack F. , Thiele Carol J. , Liu Zhihui
Published: March 2023

Table S3 shows list of antibodies used in western blot and ChIP-seq.
Supplemental Figure 7 from NFE2L2 Mutations Enhance Radioresistance in Head and Neck Cancer by Modulating Intratumoral Myeloid Cells
Authors: Guan Li , Nambiar Dhanya K. , Cao Hongbin , Viswanathan Vignesh , Kwok Shirley , Hui Angela B. , Hou Yuan , Hildebrand Rachel , von Eyben Rie , Holmes Brittany J. , Zhao Junfei , Kong Christina S. , Wamsley Nathan , Zhang Weiruo , Major Michael B. , Seol Seung W. , Sunwoo John B. , Hayes D. Neil , Diehn Maximilian , Le Quynh-Thu
Published: March 2023

CB-839 overcomes the Nrf2E79Q-induced radiation resistance through regulating TLR4-mediated cytokine changes.
Supplemental Figure 6 from NFE2L2 Mutations Enhance Radioresistance in Head and Neck Cancer by Modulating Intratumoral Myeloid Cells
Authors: Guan Li , Nambiar Dhanya K. , Cao Hongbin , Viswanathan Vignesh , Kwok Shirley , Hui Angela B. , Hou Yuan , Hildebrand Rachel , von Eyben Rie , Holmes Brittany J. , Zhao Junfei , Kong Christina S. , Wamsley Nathan , Zhang Weiruo , Major Michael B. , Seol Seung W. , Sunwoo John B. , Hayes D. Neil , Diehn Maximilian , Le Quynh-Thu
Published: March 2023

CB-839 overcomes RT resistance in Nrf2E79Q MOC1 cells through regulating the tumor microenvironment.
Supplementary Data from HAND2 Assists MYCN Enhancer Invasion to Regulate a Noradrenergic Neuroblastoma Phenotype
Authors: Xu Man , Sun Ming , Zhang Xiyuan , Nguyen Rosa , Lei Haiyan , Shern Jack F. , Thiele Carol J. , Liu Zhihui
Published: March 2023

Table S6 shows super-enhancers associated genes identified in siCtrl cells and siHAND2 cells.
Supplemental Figure 4 from NFE2L2 Mutations Enhance Radioresistance in Head and Neck Cancer by Modulating Intratumoral Myeloid Cells
Authors: Guan Li , Nambiar Dhanya K. , Cao Hongbin , Viswanathan Vignesh , Kwok Shirley , Hui Angela B. , Hou Yuan , Hildebrand Rachel , von Eyben Rie , Holmes Brittany J. , Zhao Junfei , Kong Christina S. , Wamsley Nathan , Zhang Weiruo , Major Michael B. , Seol Seung W. , Sunwoo John B. , Hayes D. Neil , Diehn Maximilian , Le Quynh-Thu
Published: March 2023

NFE2L2 mutation leads to extrinsic radiation resistance.
Supplementary Data from HAND2 Assists MYCN Enhancer Invasion to Regulate a Noradrenergic Neuroblastoma Phenotype
Authors: Xu Man , Sun Ming , Zhang Xiyuan , Nguyen Rosa , Lei Haiyan , Shern Jack F. , Thiele Carol J. , Liu Zhihui
Published: March 2023

Table S7 shows HAND2 directly activated and repressed genes.
Supplemental Figure 3 from NFE2L2 Mutations Enhance Radioresistance in Head and Neck Cancer by Modulating Intratumoral Myeloid Cells
Authors: Guan Li , Nambiar Dhanya K. , Cao Hongbin , Viswanathan Vignesh , Kwok Shirley , Hui Angela B. , Hou Yuan , Hildebrand Rachel , von Eyben Rie , Holmes Brittany J. , Zhao Junfei , Kong Christina S. , Wamsley Nathan , Zhang Weiruo , Major Michael B. , Seol Seung W. , Sunwoo John B. , Hayes D. Neil , Diehn Maximilian , Le Quynh-Thu
Published: March 2023

Somatic mutation of NFE2L2 leads to Nrf2 activation and promotes intrinsic radiation resistance in human head and neck squamous cell carcinoma (HNSCC).
Supplementary Video from The Cytidine Deaminase APOBEC3G Contributes to Cancer Mutagenesis and Clonal Evolution in Bladder Cancer
Authors: Liu Weisi , Newhall Kevin P. , Khani Francesca , Barlow LaMont , Nguyen Duy , Gu Lilly , Eng Ken , Bhinder Bhavneet , Uppal Manik , Récapet Charlotte , Sboner Andrea , Ross Susan R. , Elemento Olivier , Chelico Linda , Faltas Bishoy M.
Published: March 2023

Supplementary Video
Supplementary Data from Sphingosine Kinase 2 in Stromal Fibroblasts Creates a Hospitable Tumor Microenvironment in Breast Cancer
Authors: Weigel Cynthia , Maczis Melissa A. , Palladino Elisa N.D. , Green Christopher D. , Maceyka Michael , Guo Chunqing , Wang Xiang-Yang , Dozmorov Mikhail G. , Milstien Sheldon , Spiegel Sarah
Published: March 2023

Supplementary Figures 1-8
Supplementary Tables from The Cytidine Deaminase APOBEC3G Contributes to Cancer Mutagenesis and Clonal Evolution in Bladder Cancer
Authors: Liu Weisi , Newhall Kevin P. , Khani Francesca , Barlow LaMont , Nguyen Duy , Gu Lilly , Eng Ken , Bhinder Bhavneet , Uppal Manik , Récapet Charlotte , Sboner Andrea , Ross Susan R. , Elemento Olivier , Chelico Linda , Faltas Bishoy M.
Published: March 2023

Supplementary Tables
Supplementary Data from Sphingosine Kinase 2 in Stromal Fibroblasts Creates a Hospitable Tumor Microenvironment in Breast Cancer
Authors: Weigel Cynthia , Maczis Melissa A. , Palladino Elisa N.D. , Green Christopher D. , Maceyka Michael , Guo Chunqing , Wang Xiang-Yang , Dozmorov Mikhail G. , Milstien Sheldon , Spiegel Sarah
Published: March 2023

Supplementary Dataset Table 1
Supplementary Figures from The Cytidine Deaminase APOBEC3G Contributes to Cancer Mutagenesis and Clonal Evolution in Bladder Cancer
Authors: Liu Weisi , Newhall Kevin P. , Khani Francesca , Barlow LaMont , Nguyen Duy , Gu Lilly , Eng Ken , Bhinder Bhavneet , Uppal Manik , Récapet Charlotte , Sboner Andrea , Ross Susan R. , Elemento Olivier , Chelico Linda , Faltas Bishoy M.
Published: March 2023

Supplementary Figures
Supplementary Data from Sphingosine Kinase 2 in Stromal Fibroblasts Creates a Hospitable Tumor Microenvironment in Breast Cancer
Authors: Weigel Cynthia , Maczis Melissa A. , Palladino Elisa N.D. , Green Christopher D. , Maceyka Michael , Guo Chunqing , Wang Xiang-Yang , Dozmorov Mikhail G. , Milstien Sheldon , Spiegel Sarah
Published: March 2023

Table 4
Table S5 from Systematic Interrogation of Tumor Cell Resistance to Chimeric Antigen Receptor T-cell Therapy in Pancreatic Cancer
Authors: Hagel Kimberly R. , Arafeh Rand , Gang Sydney , Arnoff Taylor E. , Larson Rebecca C. , Doench John G. , Mathewson Nathan D. , Wucherpfennig Kai W. , Maus Marcela V. , Hahn William C.
Published: March 2023

Catalog of qRT-PCR primers, CRISPR guide sequences, and antibodies used in this study
Supplementary Materials from METTL1-Mediated m7G tRNA Modification Promotes Lenvatinib Resistance in Hepatocellular Carcinoma
Authors: Huang Manling , Long Jianting , Yao Zhijia , Zhao Yi , Zhao Yutong , Liao Junbin , Lei Kai , Xiao Han , Dai Zihao , Peng Sui , Lin Shuibin , Xu Lixia , Kuang Ming
Published: March 2023

This file describes supplementary methods and materials.
Supplemental Figures and Figure legends from Sequential Targeting of Retinoblastoma and DNA Synthesis Pathways Is a Therapeutic Strategy for Sarcomas That Can Be Monitored in Real Time
Authors: Nguyen Tuyen Duong Thanh , Wang Yan , Bui Tuyen N. , Lazcano Rossana , Ingram Davis R. , Yi Min , Vakulabharanam Varshini , Luo Linjie , Pina Marc A. , Karakas Cansu , Li Mi , Kettner Nicole M. , Somaiah Neeta , Hougton Peter J. , Mawlawi Osama , Lazar Alexander J. , Hunt Kelly K. , Keyomarsi Khandan
Published: March 2023

This File contains all the supplemental figures and figure legends referred to in the main text.
Supplementary Data from Long-Chain Acylcarnitines Induce Senescence of Invariant Natural Killer T Cells in Hepatocellular Carcinoma
Authors: Cheng Xue , Tan Xiaosheng , Wang Wei , Zhang Ziyao , Zhu Rongfei , Wu Mi , Li Mingyu , Chen Yiqing , Liang Zhihui , Zhu Peng , Wu Xiongwen , Weng Xiufang
Published: March 2023

supplementary figures and figure legends
Supplementary Information from A Cell-Fate Reprogramming Strategy Reverses Epithelial-to-Mesenchymal Transition of Lung Cancer Cells While Avoiding Hybrid States
Authors: Kim Namhee , Hwang Chae Young , Kim Taeyoung , Kim Hyunjin , Cho Kwang-Hyun
Published: March 2023

Supplementary Methods S1 to S12, Supplementary Texts S1 to S5, Supplementary References, Supplementary Tables S1 to S5, Supplementary Figs. S1 to S7, and Supplementary Data S1 to S2 (separate files)
Supplementary Data from Mitochondrial Uncoupling Induces Epigenome Remodeling and Promotes Differentiation in Neuroblastoma
Authors: Jiang Haowen , Greathouse Rachel L. , Tiche Sarah Jane , Zhao Man , He Bo , Li Yang , Li Albert M. , Forgo Balint , Yip Michaela , Li Allison , Shih Moriah , Banuelos Selene , Zhou Meng-Ning , Gruber Joshua J. , Rankin Erinn B. , Hu Zhen , Shimada Hiroyuki , Chiu Bill , Ye Jiangbin
Published: March 2023

Supplementary Data
Supplemental Table 3 from Mitochondrial Uncoupling Induces Epigenome Remodeling and Promotes Differentiation in Neuroblastoma
Authors: Jiang Haowen , Greathouse Rachel L. , Tiche Sarah Jane , Zhao Man , He Bo , Li Yang , Li Albert M. , Forgo Balint , Yip Michaela , Li Allison , Shih Moriah , Banuelos Selene , Zhou Meng-Ning , Gruber Joshua J. , Rankin Erinn B. , Hu Zhen , Shimada Hiroyuki , Chiu Bill , Ye Jiangbin
Published: March 2023

Favorable and (B) unfavorable gene list (p-value<0.05) from 11 available
neuroblastoma databases from R2 (https://hgserver1.amc.nl/cgi-bin/r2/main.cgi) (C)
Overlapped the favorable prognosis gene sets (p-value<0.05, gene number >1000) from 7
available neuroblastoma databases from R2 (https://hgserver1.amc.nl/cgi-bin/r2/main.cgi).
(D) (E) Go analysis of overlapped favorable and unfavorable prognosis gene sets. (F) (G)
GSEA analysis of Favorable and unfavorable gene list genes from RNA-seq experiments in
Figure (1D).
Supplemental Table 2 from Mitochondrial Uncoupling Induces Epigenome Remodeling and Promotes Differentiation in Neuroblastoma
Authors: Jiang Haowen , Greathouse Rachel L. , Tiche Sarah Jane , Zhao Man , He Bo , Li Yang , Li Albert M. , Forgo Balint , Yip Michaela , Li Allison , Shih Moriah , Banuelos Selene , Zhou Meng-Ning , Gruber Joshua J. , Rankin Erinn B. , Hu Zhen , Shimada Hiroyuki , Chiu Bill , Ye Jiangbin
Published: March 2023

Regional counting of differential methylated probes in SK-N-BE(2) cells
treated with NEN for 24hrs under nomoxia. Go enrichment pathways of the differential
methylated probes of the CpG Island in the promoter (B) (C) and gene body (D) (E)
Supplemental Table 1 from Mitochondrial Uncoupling Induces Epigenome Remodeling and Promotes Differentiation in Neuroblastoma
Authors: Jiang Haowen , Greathouse Rachel L. , Tiche Sarah Jane , Zhao Man , He Bo , Li Yang , Li Albert M. , Forgo Balint , Yip Michaela , Li Allison , Shih Moriah , Banuelos Selene , Zhou Meng-Ning , Gruber Joshua J. , Rankin Erinn B. , Hu Zhen , Shimada Hiroyuki , Chiu Bill , Ye Jiangbin
Published: March 2023

SK-N-BE(2) cells were treated with NEN for 16hrs. (A) Upregulated and (B)
downregulated genes from RNA-seq data (n=3) (sleuth q-value < 0.05 and fold change
estimate b > abs(ln(2))). (C) The top 10 gene ontology (GO) pathways enriched from
upregulated genes by using DAVID analysis. (D) The top 10 gene ontology (GO) pathways
enriched from downregulated genes by using DAVID analysis.
Figure S1 from YAP-Activated SATB2 Is a Coactivator of NRF2 That Amplifies Antioxidative Capacity and Promotes Tumor Progression in Renal Cell Carcinoma
Authors: Jin Juan , Chen Fen , He Wenfang , Zhao Li , Lin Bo , Zheng Danna , Chen Li , He Hongchao , He Qiang
Published: March 2023

Figure S1
Supplementary Data from HBx-Induced HSPA8 Stimulates HBV Replication and Suppresses Ferroptosis to Support Liver Cancer Progression
Authors: Wang Yufei , Zhao Man , Zhao Lina , Geng Yu , Li Guanghao , Chen Lin , Yu Jingxuan , Yuan Hongfeng , Zhang Huihui , Yun Haolin , Yuan Ying , Wang Guowen , Feng Jinyan , Xu Liang , Wang Shuai , Hou Chunyu , Yang Guang , Zhang Ningning , Lu Wei , Zhang Xiaodong
Published: March 2023

Supplementary materials and methods, Supplementary figures, Supplementary figure legends, Supplementary tables
Supplementary Table 5 from Androgen Signaling Contributes to Sex Differences in Cancer by Inhibiting NF-κB Activation in T Cells and Suppressing Antitumor Immunity
Authors: Zhang Xiaomin , Cheng Limin , Gao Chengqi , Chen Jing , Liao Shuangye , Zheng Yongqiang , Xu Liping , He Jingjing , Wang Danyang , Fang Ziqian , Zhang Jianeng , Yan Min , Luan Yi , Chen Siyu , Chen Likun , Xia Xiaojun , Deng Chunhao , Chen Guokai , Li Wende , Liu Zexian , Zhou Penghui
Published: March 2023

Clinical characteristics for melanoma cohort analyzed sex difference of survival in patients treated with anti-PD-1 antibody
Figure S7 from PARP Inhibition Induces Synthetic Lethality and Adaptive Immunity in LKB1-Mutant Lung Cancer
Authors: Long Li-Li , Ma Si-Cong , Guo Ze-Qin , Zhang Yan-Pei , Fan Zhenzhen , Liu Li-Juan , Liu Li , Han Duan-Duan , Leng Meng-Xin , Wang Jian , Guo Xue-Jun , Tan Jia-Le , Cai Xiao-Ting , Lin Yan , Pan Xinghua , Wu De-Hua , Bai Xue , Dong Zhong-Yi
Published: March 2023

Olaparib promoted STING activation in LKB1-mutant/loss NSCLC cells and LLC-derived tumors. (a) Cells were pre-treated with olaparib (5 μM) for 6 hours and then stimulated with IFNγ for 24 hours. The cell lysates were then subjected to western blot analysis for key proteins in the STING signaling pathway. (b) Representative IHC staining of STING and pSTING in LLC-LV-Lkb1 tumors and LLC-LV-Ctrl tumors following different treatments. Scale bar: 200 μm. (c) IHC statistical analysis of STING and pSTING expression in LLC-LV-Ctrl/Lkb1 tumors following indicated treatment. n=5 fields from independent tumors. Data are represented as mean ± SD; Student's t-tests; ***P<0.001; ****P<0.0001; ns, not significant.
Supplementary Table 4 from Androgen Signaling Contributes to Sex Differences in Cancer by Inhibiting NF-κB Activation in T Cells and Suppressing Antitumor Immunity
Authors: Zhang Xiaomin , Cheng Limin , Gao Chengqi , Chen Jing , Liao Shuangye , Zheng Yongqiang , Xu Liping , He Jingjing , Wang Danyang , Fang Ziqian , Zhang Jianeng , Yan Min , Luan Yi , Chen Siyu , Chen Likun , Xia Xiaojun , Deng Chunhao , Chen Guokai , Li Wende , Liu Zexian , Zhou Penghui
Published: March 2023

Clinical characteristics for the NSCLC cohort analyzed sex difference of survival in patients treated with anti-PD-1 antibody
Supplementary Table 2 from Androgen Signaling Contributes to Sex Differences in Cancer by Inhibiting NF-κB Activation in T Cells and Suppressing Antitumor Immunity
Authors: Zhang Xiaomin , Cheng Limin , Gao Chengqi , Chen Jing , Liao Shuangye , Zheng Yongqiang , Xu Liping , He Jingjing , Wang Danyang , Fang Ziqian , Zhang Jianeng , Yan Min , Luan Yi , Chen Siyu , Chen Likun , Xia Xiaojun , Deng Chunhao , Chen Guokai , Li Wende , Liu Zexian , Zhou Penghui
Published: March 2023

RNA-seq Data
Figure S4 from PARP Inhibition Induces Synthetic Lethality and Adaptive Immunity in LKB1-Mutant Lung Cancer
Authors: Long Li-Li , Ma Si-Cong , Guo Ze-Qin , Zhang Yan-Pei , Fan Zhenzhen , Liu Li-Juan , Liu Li , Han Duan-Duan , Leng Meng-Xin , Wang Jian , Guo Xue-Jun , Tan Jia-Le , Cai Xiao-Ting , Lin Yan , Pan Xinghua , Wu De-Hua , Bai Xue , Dong Zhong-Yi
Published: March 2023

PARP1 inhibition restores phosphorylated STAT1 from poly(ADP-ribosyl)ation and triggers synthetic lethality in LKB1-deficient cells. (a) A549 lung cancer cells were transfected with lentivirus expressing the indicated genes (LV-Ctrl, LV-LKB1-WT, and LV-LKB1-Mut) followed by treatment with olaparib (5μM) for 24 hours. The expression of pSTAT1 and PARP1 was analyzed by western blotting. (b-d) LLC1-shLkb1 and LLC1-shCtrl cells were pre-treated with olaparib (5μmol/L) for 6 hours and then stimulated with IFNγ for another 24 hours. Total pSTAT1 and STAT1 were quantified using western blot (b) and cell-surface PD-L1 was measured by flow cytometry (c). Q-PCR analysis was used to detect the expression of CXCL9 and PD-L1 (d). (e, f) The three groups of A549 cells were treated with IFNγ or IFNγ/olaparib and then refreshed the culture medium. The ratio of CD8+ T (effector cells) to A549 cells (target cell) ratio was 5:1. After 6 hours of incubation, QT-PCR analysis was used to detect the expression of indicated molecules of CD8+ T cells. (g) CD8+ T cells were treated with PBS or olaparib (5μmol/L) for 24 hours, and then the cells were collected for quantification of GZMB, PRF1, TNF, and IFNγ. CD8a was selected as the reference gene. (h) LLC-LV-Ctrl cells were treated with IFNγ/anti-PD-1 antibodies (20 μg/mL) in the absence or presence of olaparib (5 µM) or BMDCs (Tumor cells: DCs= 1:1) for 24 hours. Flow cytometry assay was used for apoptosis analysis of tumor cells. The right graph showed the quantification of tumor cell apoptosis. The data are presented as the mean ± SD of triplicate experiments. Statistical significance was determined by Student's t-test; ns, not significant; ****, P < 0.0001; ***, P < 0.001; **, P < 0.01; *, P < 0.05.