bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figure S5 from YAP Orchestrates Heterotypic Endothelial Cell Communication via HGF/c-MET Signaling in Liver Tumorigenesis
Authors: Thomann Stefan , Weiler Sofia M.E. , Marquard Simone , Rose Fabian , Ball Claudia R. , Tóth Marcell , Wei Teng , Sticht Carsten , Fritzsche Sarah , Roessler Stephanie , De La Torre Carolina , Ryschich Eduard , Ermakova Olga , Mogler Carolin , Kazdal Daniel , Gretz Norbert , Glimm Hanno , Rempel Eugen , Schirmacher Peter , Breuhahn Kai
Published: April 2023

Molecular characterization of LSECs and CECs in YAP-induced tumorigenesis
Supplementary Data from Newly Identified Members of FGFR1 Splice Variants Engage in Cross-talk with AXL/AKT Axis in Salivary Adenoid Cystic Carcinoma
Authors: Humtsoe Joseph O. , Kim Hyun-Su , Leonard Brandon , Ling Shizhang , Keam Bhumsuk , Marchionni Luigi , Afsari Bahman , Considine Michael , Favorov Alexander V. , Fertig Elana J. , Kang Hyunseok , Ha Patrick K.
Published: April 2023

Supplemental Data S1 provides description on the ACC-01-XP xenograft development using ACC-01 cell line and shows list of PCR primers and other reagents used in the study. Supplemental Data S2 shows list of alternative splicing events identified in ACC compared to normal salivary gland tissue. Supplemental Data S3 shows nucleotides and corresponding amino acid composition of the three novel FGFR1 splice variants. Figure S1 shows ASE genes in PI3K-AKT signaling pathway enrichment using the Enrichr web tool. Figure S2 shows characterization of FGFR1v and impact on cell growth following siRNA-mediated knockdown. Figure S3 shows FGFR1v stability analysis and its effect on signaling and resistance to FGFR1 inhibitor. Figure S4 shows FGFR1v-mediated AKT signaling is independent on EGFR but supports the involvement of AXL. Figure S5 shows supportive expression and activities of FGFR1v in HACC-2A cells.
Supplementary Figure S2 from YAP Orchestrates Heterotypic Endothelial Cell Communication via HGF/c-MET Signaling in Liver Tumorigenesis
Authors: Thomann Stefan , Weiler Sofia M.E. , Marquard Simone , Rose Fabian , Ball Claudia R. , Tóth Marcell , Wei Teng , Sticht Carsten , Fritzsche Sarah , Roessler Stephanie , De La Torre Carolina , Ryschich Eduard , Ermakova Olga , Mogler Carolin , Kazdal Daniel , Gretz Norbert , Glimm Hanno , Rempel Eugen , Schirmacher Peter , Breuhahn Kai
Published: April 2023

Isolation and characterization of CECs and LSECs
Table S2 from Genomic and Epigenomic Landscaping Defines New Therapeutic Targets for Adenosquamous Carcinoma of the Pancreas
Authors: Lenkiewicz Elizabeth , Malasi Smriti , Hogenson Tara L. , Flores Luis F. , Barham Whitney , Phillips William J. , Roesler Alexander S. , Chambers Kendall R. , Rajbhandari Nirakar , Hayashi Akimasa , Antal Corina E. , Downes Michael , Grandgenett Paul M. , Hollingsworth Michael A. , Cridebring Derek , Xiong Yuning , Lee Jeong-Heon , Ye Zhenqing , Yan Huihuang , Hernandez Matthew C. , Leiting Jennifer L. , Evans Ronald M. , Ordog Tamas , Truty Mark J. , Borad Mitesh J. , Reya Tannishtha , Von Hoff Daniel D. , Fernandez-Zapico Martin E. , Barrett Michael T.
Published: April 2023

Evidence-based variant categorization
Supplementary Figure S10 from YAP Orchestrates Heterotypic Endothelial Cell Communication via HGF/c-MET Signaling in Liver Tumorigenesis
Authors: Thomann Stefan , Weiler Sofia M.E. , Marquard Simone , Rose Fabian , Ball Claudia R. , Tóth Marcell , Wei Teng , Sticht Carsten , Fritzsche Sarah , Roessler Stephanie , De La Torre Carolina , Ryschich Eduard , Ermakova Olga , Mogler Carolin , Kazdal Daniel , Gretz Norbert , Glimm Hanno , Rempel Eugen , Schirmacher Peter , Breuhahn Kai
Published: April 2023

Molecular mechanisms of transcriptional OPN regulation and its effector mechanisms.
Table S1 from Genomic and Epigenomic Landscaping Defines New Therapeutic Targets for Adenosquamous Carcinoma of the Pancreas
Authors: Lenkiewicz Elizabeth , Malasi Smriti , Hogenson Tara L. , Flores Luis F. , Barham Whitney , Phillips William J. , Roesler Alexander S. , Chambers Kendall R. , Rajbhandari Nirakar , Hayashi Akimasa , Antal Corina E. , Downes Michael , Grandgenett Paul M. , Hollingsworth Michael A. , Cridebring Derek , Xiong Yuning , Lee Jeong-Heon , Ye Zhenqing , Yan Huihuang , Hernandez Matthew C. , Leiting Jennifer L. , Evans Ronald M. , Ordog Tamas , Truty Mark J. , Borad Mitesh J. , Reya Tannishtha , Von Hoff Daniel D. , Fernandez-Zapico Martin E. , Barrett Michael T.
Published: April 2023

Types of ASCP Specimen
Supplementary Figure Legends from YAP Orchestrates Heterotypic Endothelial Cell Communication via HGF/c-MET Signaling in Liver Tumorigenesis
Authors: Thomann Stefan , Weiler Sofia M.E. , Marquard Simone , Rose Fabian , Ball Claudia R. , Tóth Marcell , Wei Teng , Sticht Carsten , Fritzsche Sarah , Roessler Stephanie , De La Torre Carolina , Ryschich Eduard , Ermakova Olga , Mogler Carolin , Kazdal Daniel , Gretz Norbert , Glimm Hanno , Rempel Eugen , Schirmacher Peter , Breuhahn Kai
Published: April 2023

Supplementary Figure Legends
Figure S6 from Genomic and Epigenomic Landscaping Defines New Therapeutic Targets for Adenosquamous Carcinoma of the Pancreas
Authors: Lenkiewicz Elizabeth , Malasi Smriti , Hogenson Tara L. , Flores Luis F. , Barham Whitney , Phillips William J. , Roesler Alexander S. , Chambers Kendall R. , Rajbhandari Nirakar , Hayashi Akimasa , Antal Corina E. , Downes Michael , Grandgenett Paul M. , Hollingsworth Michael A. , Cridebring Derek , Xiong Yuning , Lee Jeong-Heon , Ye Zhenqing , Yan Huihuang , Hernandez Matthew C. , Leiting Jennifer L. , Evans Ronald M. , Ordog Tamas , Truty Mark J. , Borad Mitesh J. , Reya Tannishtha , Von Hoff Daniel D. , Fernandez-Zapico Martin E. , Barrett Michael T.
Published: April 2023

High level amplicons in ASCP genomes. The CNV profiles of A) A90 and B) PENN 040 included focal high level (log2 ratio >2.0) amplicons that targeted the MPL and the FRS2 loci respectively. The X and Y axes in the CGH plots represent chromosome and log2 ratios for each genome. Red shaded areas denote homozygous deletions.
Supplementary Materials and Methods from Dynamic Regulation of Expression of KRAS and Its Effectors Determines the Ability to Initiate Tumorigenesis in Pancreatic Acinar Cells
Authors: Assi Mohamad , Achouri Younes , Loriot Axelle , Dauguet Nicolas , Dahou Hajar , Baldan Jonathan , Libert Maxime , Fain Jean S. , Guerra Carmen , Bouwens Luc , Barbacid Mariano , Lemaigre Frédéric P. , Jacquemin Patrick
Published: April 2023

Document describing important mouse lines, treatment protocols, antibodies and primers used in the present study.
Figure S3 from Genomic and Epigenomic Landscaping Defines New Therapeutic Targets for Adenosquamous Carcinoma of the Pancreas
Authors: Lenkiewicz Elizabeth , Malasi Smriti , Hogenson Tara L. , Flores Luis F. , Barham Whitney , Phillips William J. , Roesler Alexander S. , Chambers Kendall R. , Rajbhandari Nirakar , Hayashi Akimasa , Antal Corina E. , Downes Michael , Grandgenett Paul M. , Hollingsworth Michael A. , Cridebring Derek , Xiong Yuning , Lee Jeong-Heon , Ye Zhenqing , Yan Huihuang , Hernandez Matthew C. , Leiting Jennifer L. , Evans Ronald M. , Ordog Tamas , Truty Mark J. , Borad Mitesh J. , Reya Tannishtha , Von Hoff Daniel D. , Fernandez-Zapico Martin E. , Barrett Michael T.
Published: April 2023

Supplemental Figure 3: Somatic lesions targeting chromatin regulators in ASCP genomes. CNV profiles of flow sorted aneuploid populations from: A) A129 with homozygous deletion of CDKN2A and SMARCA4. The X and Y axes in the CGH plots represent chromosome and log2 ratios for each TNBC. Red shaded areas denote homozygous deletions. B) Somatic mutations KRASG12V and TET1V128F detected in flow sorted 3.6N population from MR02. The sorted 2.0N fraction was used as a patient matched normal control.
Figure S1 from Genomic and Epigenomic Landscaping Defines New Therapeutic Targets for Adenosquamous Carcinoma of the Pancreas
Authors: Lenkiewicz Elizabeth , Malasi Smriti , Hogenson Tara L. , Flores Luis F. , Barham Whitney , Phillips William J. , Roesler Alexander S. , Chambers Kendall R. , Rajbhandari Nirakar , Hayashi Akimasa , Antal Corina E. , Downes Michael , Grandgenett Paul M. , Hollingsworth Michael A. , Cridebring Derek , Xiong Yuning , Lee Jeong-Heon , Ye Zhenqing , Yan Huihuang , Hernandez Matthew C. , Leiting Jennifer L. , Evans Ronald M. , Ordog Tamas , Truty Mark J. , Borad Mitesh J. , Reya Tannishtha , Von Hoff Daniel D. , Fernandez-Zapico Martin E. , Barrett Michael T.
Published: April 2023

Histology and IHC analyses of ASCP tissues. Hematoxylin and Eosin (H&E) staining and IHC expression of cytokeratins 5 and 6 (CK5/6), and of TP63 for five ASCP cases. Adenosquamous content is consistent with WHO histology and diagnosis.
Table S2 from Breast Cancer Cell Detection and Characterization from Breast Milk–Derived Cells
Authors: Bhat-Nakshatri Poornima , Kumar Brijesh , Simpson Ed , Ludwig Kandice K. , Cox Mary L. , Gao Hongyu , Liu Yunlong , Nakshatri Harikrishna
Published: April 2023

Raw values of CNV analysis
Table S1 from Breast Cancer Cell Detection and Characterization from Breast Milk–Derived Cells
Authors: Bhat-Nakshatri Poornima , Kumar Brijesh , Simpson Ed , Ludwig Kandice K. , Cox Mary L. , Gao Hongyu , Liu Yunlong , Nakshatri Harikrishna
Published: April 2023

Table S1: RNA-seq analyses of milk-derived cells. Raw RNA-seq counts for individual genes in breast milk-derived cells are shown.
Table S3 from SCIRT lncRNA Restrains Tumorigenesis by Opposing Transcriptional Programs of Tumor-Initiating Cells
Authors: Zagorac Sladjana , de Giorgio Alex , Dabrowska Aleksandra , Kalisz Mark , Casas-Vila Nuria , Cathcart Paul , Yiu Angela , Ottaviani Silvia , Degani Neta , Lombardo Ylenia , Tweedie Alistair , Nissan Tracy , Vance Keith W. , Ulitsky Igor , Stebbing Justin , Castellano Leandro
Published: April 2023

Differential gene expression DESeq2 analysis for siSCIRT vs siNC using two independent siRNAs against SCIRT (Sheet #1 contains siSCIRT #1 data; Sheet #2 contains siSCIRT #2 data).
Table S2 from SCIRT lncRNA Restrains Tumorigenesis by Opposing Transcriptional Programs of Tumor-Initiating Cells
Authors: Zagorac Sladjana , de Giorgio Alex , Dabrowska Aleksandra , Kalisz Mark , Casas-Vila Nuria , Cathcart Paul , Yiu Angela , Ottaviani Silvia , Degani Neta , Lombardo Ylenia , Tweedie Alistair , Nissan Tracy , Vance Keith W. , Ulitsky Igor , Stebbing Justin , Castellano Leandro
Published: April 2023

Table S2. Pathway enrichment analyses for genes up- and down-regulated after growing 16h or 5d in spheres
Supplementary tables from Nanoengineered Disruption of Heat Shock Protein 90 Targets Drug-Induced Resistance and Relieves Natural Killer Cell Suppression in Breast Cancer
Authors: Smalley Munisha , Natarajan Siva Kumar , Mondal Jayanta , Best Douglas , Goldman David , Shanthappa Basavaraja , Pellowe Moriah , Dash Chinmayee , Saha Tanmoy , Khiste Sachin , Ramadurai Nithya , Eton Elliot O. , Smalley Joshua L. , Brown Andrew , Thayakumar Allen , Rahman Mamunur , Arai Kazuya , Kohandel Mohammad , Sengupta Shiladitya , Goldman Aaron
Published: April 2023

supplemental tables 1-3
Supplementary Information from Nanoengineered Disruption of Heat Shock Protein 90 Targets Drug-Induced Resistance and Relieves Natural Killer Cell Suppression in Breast Cancer
Authors: Smalley Munisha , Natarajan Siva Kumar , Mondal Jayanta , Best Douglas , Goldman David , Shanthappa Basavaraja , Pellowe Moriah , Dash Chinmayee , Saha Tanmoy , Khiste Sachin , Ramadurai Nithya , Eton Elliot O. , Smalley Joshua L. , Brown Andrew , Thayakumar Allen , Rahman Mamunur , Arai Kazuya , Kohandel Mohammad , Sengupta Shiladitya , Goldman Aaron
Published: April 2023

detailed methods
Supplementary Data from SCIRT lncRNA Restrains Tumorigenesis by Opposing Transcriptional Programs of Tumor-Initiating Cells
Authors: Zagorac Sladjana , de Giorgio Alex , Dabrowska Aleksandra , Kalisz Mark , Casas-Vila Nuria , Cathcart Paul , Yiu Angela , Ottaviani Silvia , Degani Neta , Lombardo Ylenia , Tweedie Alistair , Nissan Tracy , Vance Keith W. , Ulitsky Igor , Stebbing Justin , Castellano Leandro
Published: April 2023

Supplementary material and methods
Supplementary Table 2 from The Microbiome and Cancer: Creating Friendly Neighborhoods and Removing the Foes Within
Authors: Parida Sheetal , Sharma Dipali
Published: April 2023

Supplementary Table 2
Supplementary Table 1 from The Microbiome and Cancer: Creating Friendly Neighborhoods and Removing the Foes Within
Authors: Parida Sheetal , Sharma Dipali
Published: April 2023

Supplementary Table 1
Supplementary Data Tables S7 and S8 from Altered Mitochondria Functionality Defines a Metastatic Cell State in Lung Cancer and Creates an Exploitable Vulnerability
Authors: Chuang Chen-Hua , Dorsch Madeleine , Dujardin Philip , Silas Sukrit , Ueffing Kristina , Hölken Johanna M. , Yang Dian , Winslow Monte M. , Grüner Barbara M.
Published: April 2023

Supplementary Data Table S7 and S8
Supplementary Figure 4 from “3G” Trial: An RNA Editing Signature to Guide Gastric Cancer Chemotherapy
Authors: An Omer , Song Yangyang , Ke Xinyu , So Jimmy Bok-Yan , Sundar Raghav , Yang Henry , Rha Sun Young , Lee Ming Hui , Tay Su Ting , Ong Xuewen , Tan Angie Lay Keng , Ng Matthew Chau Hsien , Tantoso Erwin , Chen Leilei , Tan Patrick , Yong Wei Peng
Published: April 2023

Supplementary Figure 4
Supplementary Figure 3 from “3G” Trial: An RNA Editing Signature to Guide Gastric Cancer Chemotherapy
Authors: An Omer , Song Yangyang , Ke Xinyu , So Jimmy Bok-Yan , Sundar Raghav , Yang Henry , Rha Sun Young , Lee Ming Hui , Tay Su Ting , Ong Xuewen , Tan Angie Lay Keng , Ng Matthew Chau Hsien , Tantoso Erwin , Chen Leilei , Tan Patrick , Yong Wei Peng
Published: April 2023

Supplementary Figure 3
Supplementary Data Table S2 from Altered Mitochondria Functionality Defines a Metastatic Cell State in Lung Cancer and Creates an Exploitable Vulnerability
Authors: Chuang Chen-Hua , Dorsch Madeleine , Dujardin Philip , Silas Sukrit , Ueffing Kristina , Hölken Johanna M. , Yang Dian , Winslow Monte M. , Grüner Barbara M.
Published: April 2023

Supplementary Data Table S2
Supplementary Data from Tumor Mutational Burden Is Polygenic and Genetically Associated with Complex Traits and Diseases
Authors: Sun Xiwei , Xue Angli , Qi Ting , Chen Dan , Shi Dandan , Wu Yang , Zheng Zhili , Zeng Jian , Yang Jian
Published: April 2023

Supplementary Figures and Tables
Supplementary Data from Cisplatin-Mediated Upregulation of APE2 Binding to MYH9 Provokes Mitochondrial Fragmentation and Acute Kidney Injury
Authors: Hu Yi , Yang Chun , Amorim Tania , Maqbool Mohsin , Lin Jenny , Li Chen , Fang Chuanfeng , Xue Li , Kwart Ariel , Fang Hua , Yin Mei , Janocha Allison J. , Tsuchimoto Daisuke , Nakabeppu Yusaku , Jiang Xiaofeng , Mejia-Garcia Alex , Anwer Faiz , Khouri Jack , Qi Xin , Zheng Qing Y. , Yu Jennifer S. , Yan Shan , LaFramboise Thomas , Anderson Kenneth C. , Herlitz Leal C. , Munshi Nikhil C. , Lin Jianhong , Zhao Jianjun
Published: April 2023

Table S1: MS/MS analyses of APE2 pull-down proteins in 293T cells
Fig S2 from Cisplatin-Mediated Upregulation of APE2 Binding to MYH9 Provokes Mitochondrial Fragmentation and Acute Kidney Injury
Authors: Hu Yi , Yang Chun , Amorim Tania , Maqbool Mohsin , Lin Jenny , Li Chen , Fang Chuanfeng , Xue Li , Kwart Ariel , Fang Hua , Yin Mei , Janocha Allison J. , Tsuchimoto Daisuke , Nakabeppu Yusaku , Jiang Xiaofeng , Mejia-Garcia Alex , Anwer Faiz , Khouri Jack , Qi Xin , Zheng Qing Y. , Yu Jennifer S. , Yan Shan , LaFramboise Thomas , Anderson Kenneth C. , Herlitz Leal C. , Munshi Nikhil C. , Lin Jianhong , Zhao Jianjun
Published: April 2023

Normal morphology in other organs.
Supplementary Data from DMDRMR-Mediated Regulation of m6A-Modified CDK4 by m6A Reader IGF2BP3 Drives ccRCC Progression
Authors: Gu Yinmin , Niu Shaoxi , Wang Yang , Duan Liqiang , Pan Yongbo , Tong Zhou , Zhang Xu , Yang Zhenyu , Peng Bo , Wang Xiaodong , Han Xiaoqi , Li Yuxin , Cheng Tianyou , Liu Yajuan , Shang Lina , Liu Tongfeng , Yang Xiwang , Sun Minxuan , Jiang Siyuan , Zhang Chang , Zhang Ning , Ye Qinong , Gao Shan
Published: April 2023

Dataset S3
Supplementary Data from DMDRMR-Mediated Regulation of m6A-Modified CDK4 by m6A Reader IGF2BP3 Drives ccRCC Progression
Authors: Gu Yinmin , Niu Shaoxi , Wang Yang , Duan Liqiang , Pan Yongbo , Tong Zhou , Zhang Xu , Yang Zhenyu , Peng Bo , Wang Xiaodong , Han Xiaoqi , Li Yuxin , Cheng Tianyou , Liu Yajuan , Shang Lina , Liu Tongfeng , Yang Xiwang , Sun Minxuan , Jiang Siyuan , Zhang Chang , Zhang Ning , Ye Qinong , Gao Shan
Published: April 2023

Dataset S4
Supplementary Data from DMDRMR-Mediated Regulation of m6A-Modified CDK4 by m6A Reader IGF2BP3 Drives ccRCC Progression
Authors: Gu Yinmin , Niu Shaoxi , Wang Yang , Duan Liqiang , Pan Yongbo , Tong Zhou , Zhang Xu , Yang Zhenyu , Peng Bo , Wang Xiaodong , Han Xiaoqi , Li Yuxin , Cheng Tianyou , Liu Yajuan , Shang Lina , Liu Tongfeng , Yang Xiwang , Sun Minxuan , Jiang Siyuan , Zhang Chang , Zhang Ning , Ye Qinong , Gao Shan
Published: April 2023

Dataset S5
Table S1 from A GRN Autocrine-Dependent FAM135B/AKT/mTOR Feedforward Loop Promotes Esophageal Squamous Cell Carcinoma Progression
Authors: Dong Dezuo , Zhang Weimin , Xiao Wenchang , Wu Qingnan , Cao Yiren , Gao Xiaohan , Huang Lijie , Wang Yan , Chen Jie , Wang Weihu , Zhan Qimin
Published: April 2023

Associations between the cytoplasmic expression of FAM135B and the clinicopathological characteristics.
Supplementary Methods from Folate Receptor Beta Designates Immunosuppressive Tumor-Associated Myeloid Cells That Can Be Reprogrammed with Folate-Targeted Drugs
Authors: Cresswell Gregory M. , Wang Bingbing , Kischuk Erin M. , Broman Meaghan M. , Alfar Rami A. , Vickman Renee E. , Dimitrov Dimiter S. , Kularatne Sumith A. , Sundaram Chandru P. , Singhal Sunil , Eruslanov Evgeniy B. , Crist Scott A. , Elzey Bennett D. , Ratliff Timothy L. , Low Philip S.
Published: April 2023

Supplemental Methods
Figure S2 from A GRN Autocrine-Dependent FAM135B/AKT/mTOR Feedforward Loop Promotes Esophageal Squamous Cell Carcinoma Progression
Authors: Dong Dezuo , Zhang Weimin , Xiao Wenchang , Wu Qingnan , Cao Yiren , Gao Xiaohan , Huang Lijie , Wang Yan , Chen Jie , Wang Weihu , Zhan Qimin
Published: April 2023

Effect of rapamycin and simTORs on expression of GRN.
Figure S1 from A GRN Autocrine-Dependent FAM135B/AKT/mTOR Feedforward Loop Promotes Esophageal Squamous Cell Carcinoma Progression
Authors: Dong Dezuo , Zhang Weimin , Xiao Wenchang , Wu Qingnan , Cao Yiren , Gao Xiaohan , Huang Lijie , Wang Yan , Chen Jie , Wang Weihu , Zhan Qimin
Published: April 2023

FAM135B promotes ESCC cell lines proliferation
Figure S5 from Folate Receptor Beta Designates Immunosuppressive Tumor-Associated Myeloid Cells That Can Be Reprogrammed with Folate-Targeted Drugs
Authors: Cresswell Gregory M. , Wang Bingbing , Kischuk Erin M. , Broman Meaghan M. , Alfar Rami A. , Vickman Renee E. , Dimitrov Dimiter S. , Kularatne Sumith A. , Sundaram Chandru P. , Singhal Sunil , Eruslanov Evgeniy B. , Crist Scott A. , Elzey Bennett D. , Ratliff Timothy L. , Low Philip S.
Published: April 2023

supplemental figure 5
Supplementary Methods from Protein Arginine Methyltransferase 5 Promotes pICln-Dependent Androgen Receptor Transcription in Castration-Resistant Prostate Cancer
Authors: Beketova Elena , Fang Shuyi , Owens Jake L. , Liu Sheng , Chen Xufeng , Zhang Qingfu , Asberry Andrew M. , Deng Xuehong , Malola Jonathan , Huang Jiaoti , Li Chenglong , Pili Roberto , Elzey Bennett D. , Ratliff Timothy L. , Wan Jun , Hu Chang-Deng
Published: April 2023

Details for methods not included in the article file
Figure S2 from Folate Receptor Beta Designates Immunosuppressive Tumor-Associated Myeloid Cells That Can Be Reprogrammed with Folate-Targeted Drugs
Authors: Cresswell Gregory M. , Wang Bingbing , Kischuk Erin M. , Broman Meaghan M. , Alfar Rami A. , Vickman Renee E. , Dimitrov Dimiter S. , Kularatne Sumith A. , Sundaram Chandru P. , Singhal Sunil , Eruslanov Evgeniy B. , Crist Scott A. , Elzey Bennett D. , Ratliff Timothy L. , Low Philip S.
Published: April 2023

supplemental figure 2
Supplementary Data from Enhanced Antitumor Immunity via Endocrine Therapy Prevents Mammary Tumor Relapse and Increases Immune Checkpoint Blockade Sensitivity
Authors: Sequeira Gonzalo R. , Sahores Ana , Dalotto-Moreno Tomás , Perrotta Ramiro M. , Pataccini Gabriela , Vanzulli Silvia I. , Polo María L. , Radisky Derek C. , Sartorius Carol A. , Novaro Virginia , Lamb Caroline A. , Rabinovich Gabriel A. , Salatino Mariana , Lanari Claudia
Published: April 2023

Supplementary Materials and methods
Figure S5 from ATG5-Dependent Autophagy Uncouples T-cell Proliferative and Effector Functions and Separates Graft-versus-Host Disease from Graft-versus-Leukemia
Authors: Oravecz-Wilson Katherine , Rossi Corinne , Zajac Cynthia , Sun Yaping , Li Lu , Decoville Thomas , Fujiwara Hideaki , Kim Stephanie , Peltier Daniel , Reddy Pavan
Published: April 2023

Fig S5 shows decreased populations of CD8+ naïve cells
Figure S5 from Enhanced Antitumor Immunity via Endocrine Therapy Prevents Mammary Tumor Relapse and Increases Immune Checkpoint Blockade Sensitivity
Authors: Sequeira Gonzalo R. , Sahores Ana , Dalotto-Moreno Tomás , Perrotta Ramiro M. , Pataccini Gabriela , Vanzulli Silvia I. , Polo María L. , Radisky Derek C. , Sartorius Carol A. , Novaro Virginia , Lamb Caroline A. , Rabinovich Gabriel A. , Salatino Mariana , Lanari Claudia
Published: April 2023

Supplementary Figure 5: MFP treatment boosts antitumor T cell priming and activation
Figure S1 from ATG5-Dependent Autophagy Uncouples T-cell Proliferative and Effector Functions and Separates Graft-versus-Host Disease from Graft-versus-Leukemia
Authors: Oravecz-Wilson Katherine , Rossi Corinne , Zajac Cynthia , Sun Yaping , Li Lu , Decoville Thomas , Fujiwara Hideaki , Kim Stephanie , Peltier Daniel , Reddy Pavan
Published: April 2023

Fig S1 shows schematic of autophagy inhibitors used as well as experiments using CD3/CD28 stimulation
Figure S1 from Enhanced Antitumor Immunity via Endocrine Therapy Prevents Mammary Tumor Relapse and Increases Immune Checkpoint Blockade Sensitivity
Authors: Sequeira Gonzalo R. , Sahores Ana , Dalotto-Moreno Tomás , Perrotta Ramiro M. , Pataccini Gabriela , Vanzulli Silvia I. , Polo María L. , Radisky Derek C. , Sartorius Carol A. , Novaro Virginia , Lamb Caroline A. , Rabinovich Gabriel A. , Salatino Mariana , Lanari Claudia
Published: April 2023

Supplementary Figure 1: The NSG-R mouse model mimics an immunocompetent host.
Supplementary Movie 2 from KRAS Controls Pancreatic Cancer Cell Lipid Metabolism and Invasive Potential through the Lipase HSL
Authors: Rozeveld Cody N. , Johnson Katherine M. , Zhang Lizhi , Razidlo Gina L.
Published: April 2023

Time lapse video showing lipid droplet turnover in less motile cells away from the leading edge
Supplementary Methods from USP24 Is a Cancer-Associated Ubiquitin Hydrolase, Novel Tumor Suppressor, and Chromosome Instability Gene Deleted in Neuroblastoma
Authors: Bedekovics Tibor , Hussain Sajjad , Zhang Ying , Ali Asma , Jeon Young J. , Galardy Paul J.
Published: April 2023

Detailed methods descriptions to accompany the manuscript
Supplementary Figures from USP24 Is a Cancer-Associated Ubiquitin Hydrolase, Novel Tumor Suppressor, and Chromosome Instability Gene Deleted in Neuroblastoma
Authors: Bedekovics Tibor , Hussain Sajjad , Zhang Ying , Ali Asma , Jeon Young J. , Galardy Paul J.
Published: April 2023

Supplementary figures 1-10
Supplementary Data from RNA-Binding RING E3-Ligase DZIP3/hRUL138 Stabilizes Cyclin D1 to Drive Cell-Cycle and Cancer Progression
Authors: Kolapalli Srinivasa P. , Sahu Rinku , Chauhan Nishant R. , Jena Kautilya K. , Mehto Subhash , Das Saroj K. , Jain Ashish , Rout Manaswini , Dash Rupesh , Swain Rajeeb K. , Lee David Y. , Rusten Tor Erik , Chauhan Santosh , Chauhan Swati
Published: April 2023

Supplementary Figures 1-6 and Methods. Supplementary Fig. S1: DZIP3 controls growth, migration, and invasion of cancer cells. Supplementary Fig. S2: DZIP3 promotes tumor growth and metastasis in Zebrafi¬sh model. Supplementary Fig. S3: DZIP3 controls cell cycle progression. Supplementary Fig. S4: DZIP3 interacts with Cyclin D1 mRNA and stabilizes it. Supplementary Fig. S5: DZIP3 interacts, co-localizes, and stabilizes Cyclin D1 protein. Supplementary Fig. S6: DZIP3 controls Cyclin D1-E2F target genes.
Supplementary Figure Legends from Replication Gaps Underlie BRCA Deficiency and Therapy Response
Authors: Panzarino Nicholas J. , Krais John J. , Cong Ke , Peng Min , Mosqueda Michelle , Nayak Sumeet U. , Bond Samuel M. , Calvo Jennifer A. , Doshi Mihir B. , Bere Matt , Ou Jianhong , Deng Bin , Zhu Lihua J. , Johnson Neil , Cantor Sharon B.
Published: April 2023

Supplemental Figure Legends
Supplementary Data from Replication Gaps Underlie BRCA Deficiency and Therapy Response
Authors: Panzarino Nicholas J. , Krais John J. , Cong Ke , Peng Min , Mosqueda Michelle , Nayak Sumeet U. , Bond Samuel M. , Calvo Jennifer A. , Doshi Mihir B. , Bere Matt , Ou Jianhong , Deng Bin , Zhu Lihua J. , Johnson Neil , Cantor Sharon B.
Published: April 2023

Methods and references
Supplementary Data from Identifying Clear Cell Renal Cell Carcinoma Coexpression Networks Associated with Opioid Signaling and Survival
Authors: Scarpa Joseph R. , DiNatale Renzo G. , Mano Roy , Silagy Andrew W. , Kuo Fengshen , Irie Takeshi , McCormick Patrick J. , Fischer Gregory W. , Hakimi A. Ari , Mincer Joshua S.
Published: April 2023

Supplementary Methods, Figures, and Table legends
Supplementary Data from MEK Inhibition Reverses Aberrant Signaling in Melanoma Cells through Reorganization of NRas and BRAF in Self Nanoclusters
Authors: Yakovian Oren , Sajman Julia , Arafeh Rand , Neve-Oz Yair , Alon Michal , Samuels Yardena , Sherman Eilon
Published: April 2023

All supp. figures and Supp. materials and methods
Figure S2 from Identifying Clear Cell Renal Cell Carcinoma Coexpression Networks Associated with Opioid Signaling and Survival
Authors: Scarpa Joseph R. , DiNatale Renzo G. , Mano Roy , Silagy Andrew W. , Kuo Fengshen , Irie Takeshi , McCormick Patrick J. , Fischer Gregory W. , Hakimi A. Ari , Mincer Joshua S.
Published: April 2023

Figure S2. Comparing OPRM1, OPRK1, and OPRD1 gene expression between cases and controls.
Figure S1 from Identifying Clear Cell Renal Cell Carcinoma Coexpression Networks Associated with Opioid Signaling and Survival
Authors: Scarpa Joseph R. , DiNatale Renzo G. , Mano Roy , Silagy Andrew W. , Kuo Fengshen , Irie Takeshi , McCormick Patrick J. , Fischer Gregory W. , Hakimi A. Ari , Mincer Joshua S.
Published: April 2023

Figure S1. Top gene ontology pathways enriched for differentially expressed genes in ccRCC.
Supplementary Table S4 from Estrogen Receptor Alpha Mutations in Breast Cancer Cells Cause Gene Expression Changes through Constant Activity and Secondary Effects
Authors: Arnesen Spencer , Blanchard Zannel , Williams Michelle M. , Berrett Kristofer C. , Li Zheqi , Oesterreich Steffi , Richer Jennifer K. , Gertz Jason
Published: April 2023

Table S4. Multi-study ER mutation associated gene expression changes.
Supplementary Table 4 from Enhanced Efficacy of Simultaneous PD-1 and PD-L1 Immune Checkpoint Blockade in High-Grade Serous Ovarian Cancer
Authors: Wan Changxin , Keany Matthew P. , Dong Han , Al-Alem Linah F. , Pandya Unnati M. , Lazo Suzan , Boehnke Karsten , Lynch Katherine N. , Xu Rui , Zarrella Dominique T. , Gu Shengqing , Cejas Paloma , Lim Klothilda , Long Henry W. , Elias Kevin M. , Horowitz Neil S. , Feltmate Colleen M. , Muto Michael G. , Worley Michael J. , Berkowitz Ross S. , Matulonis Ursula A. , Nucci Marisa R. , Crum Christopher P. , Rueda Bo R. , Brown Myles , Liu Xiaole Shirley , Hill Sarah J.
Published: April 2023

Table S4. Differential expression analysis for NK cells.
Supplementary Table 3 from Enhanced Efficacy of Simultaneous PD-1 and PD-L1 Immune Checkpoint Blockade in High-Grade Serous Ovarian Cancer
Authors: Wan Changxin , Keany Matthew P. , Dong Han , Al-Alem Linah F. , Pandya Unnati M. , Lazo Suzan , Boehnke Karsten , Lynch Katherine N. , Xu Rui , Zarrella Dominique T. , Gu Shengqing , Cejas Paloma , Lim Klothilda , Long Henry W. , Elias Kevin M. , Horowitz Neil S. , Feltmate Colleen M. , Muto Michael G. , Worley Michael J. , Berkowitz Ross S. , Matulonis Ursula A. , Nucci Marisa R. , Crum Christopher P. , Rueda Bo R. , Brown Myles , Liu Xiaole Shirley , Hill Sarah J.
Published: April 2023

Table S3. Differential expression analysis for non-Treg CD4 T cells.
Supplementary Figures, Experimental Details, and Tables S1, S3, S5 and S6 from Estrogen Receptor Alpha Mutations in Breast Cancer Cells Cause Gene Expression Changes through Constant Activity and Secondary Effects
Authors: Arnesen Spencer , Blanchard Zannel , Williams Michelle M. , Berrett Kristofer C. , Li Zheqi , Oesterreich Steffi , Richer Jennifer K. , Gertz Jason
Published: April 2023

Supplementary Figures, Experimental Details, and Tables S1, S3, S5 and S6
Supplementary file 5 from circIGHG-Induced Epithelial-to-Mesenchymal Transition Promotes Oral Squamous Cell Carcinoma Progression via miR-142-5p/IGF2BP3 Signaling
Authors: Liu Jingpeng , Jiang Xiao , Zou Ailing , Mai Zhaoyi , Huang Zhijie , Sun Liying , Zhao Jianjiang
Published: April 2023

OSCC patients info
Supplementary Materials and Methods from ERK1/2 Signaling Induces Upregulation of ANGPT2 and CXCR4 to Mediate Liver Metastasis in Colon Cancer
Authors: Urosevic Jelena , Blasco María Teresa , Llorente Alicia , Bellmunt Anna , Berenguer-Llergo Antoni , Guiu Marc , Cañellas Adrià , Fernandez Esther , Burkov Ivan , Clapés Maria , Cartanà Mireia , Figueras-Puig Cristina , Batlle Eduard , Nebreda Angel R. , Gomis Roger R.
Published: April 2023

Supplementary Materials and Methods
Supplementary file 4 from circIGHG-Induced Epithelial-to-Mesenchymal Transition Promotes Oral Squamous Cell Carcinoma Progression via miR-142-5p/IGF2BP3 Signaling
Authors: Liu Jingpeng , Jiang Xiao , Zou Ailing , Mai Zhaoyi , Huang Zhijie , Sun Liying , Zhao Jianjiang
Published: April 2023

Sanger sequencings
Supplementary Figures and Tables from ERK1/2 Signaling Induces Upregulation of ANGPT2 and CXCR4 to Mediate Liver Metastasis in Colon Cancer
Authors: Urosevic Jelena , Blasco María Teresa , Llorente Alicia , Bellmunt Anna , Berenguer-Llergo Antoni , Guiu Marc , Cañellas Adrià , Fernandez Esther , Burkov Ivan , Clapés Maria , Cartanà Mireia , Figueras-Puig Cristina , Batlle Eduard , Nebreda Angel R. , Gomis Roger R.
Published: April 2023

SF1: The expression of ANGPT2 and CXCR4 in CRC; SF2: Expression levels of ANGPT2, CXCR4, CXCL12, TEK and VEGFA in SW620_P and SW620_LiM2 cells; SF3: Expression levels of ANGPT2 and CXCR4 upon downregulation and upregulation.; SF4: CXCL1 and IL10 expression is controlled by RAS-ERK signaling pathway; SF5: Correlation of various genes expression and BRAF-signature or CRIS subtypes across CRC tumors; ST1: mRNA expression comparisons; ST2: Hypergeometric test for Signature FC-1.75.up ( 15 genes) - KEGG.
Supplementary file 3 from circIGHG-Induced Epithelial-to-Mesenchymal Transition Promotes Oral Squamous Cell Carcinoma Progression via miR-142-5p/IGF2BP3 Signaling
Authors: Liu Jingpeng , Jiang Xiao , Zou Ailing , Mai Zhaoyi , Huang Zhijie , Sun Liying , Zhao Jianjiang
Published: April 2023

Fig. S1-S6
Supplementary file 1 from circIGHG-Induced Epithelial-to-Mesenchymal Transition Promotes Oral Squamous Cell Carcinoma Progression via miR-142-5p/IGF2BP3 Signaling
Authors: Liu Jingpeng , Jiang Xiao , Zou Ailing , Mai Zhaoyi , Huang Zhijie , Sun Liying , Zhao Jianjiang
Published: April 2023

Table S1-S4. Table S1. Sequences of RT-qPCR primers used in this study. Table S2. Sequences of siRNA oligos and RNA FISH and Northern Blot probes. Table S3. Antibodies used in Western blotting, immunohistochemistry and immunofluorescence. Table S4. Univariate and multivariate analyses of clinicopathologic parameters in association with overall survival rate in patients with OSCC. (* P<0.01).
Supplementary Data from NSD3-Induced Methylation of H3K36 Activates NOTCH Signaling to Drive Breast Tumor Initiation and Metastatic Progression
Authors: Jeong Ga-Young , Park Mi Kyung , Choi Hee-Joo , An Hee Woon , Park Young-Un , Choi Hyung-Jun , Park Jin , Kim Hyung-Yong , Son Taekwon , Lee Ho , Min Kyueng-Whan , Oh Young-Ha , Lee Jeong-Yeon , Kong Gu
Published: April 2023

Supplementary Data
Supplementary Data from Activatable Zymography Probes Enable In Situ Localization of Protease Dysregulation in Cancer
Authors: Soleimany Ava P. , Kirkpatrick Jesse D. , Su Susan , Dudani Jaideep S. , Zhong Qian , Bekdemir Ahmet , Bhatia Sangeeta N.
Published: April 2023

Complete Supplementary Information for the manuscript, including Supplemental Figures 1-16 and tables 1-4.
Supplementary Table 8 from EZH2 Regulates Pancreatic Cancer Subtype Identity and Tumor Progression via Transcriptional Repression of GATA6
Authors: Patil Shilpa , Steuber Benjamin , Kopp Waltraut , Kari Vijayalakshmi , Urbach Laura , Wang Xin , Küffer Stefan , Bohnenberger Hanibal , Spyropoulou Dimitra , Zhang Zhe , Versemann Lennart , Bösherz Mark Sebastian , Brunner Marius , Gaedcke Jochen , Ströbel Philipp , Zhang Jin-San , Neesse Albrecht , Ellenrieder Volker , Singh Shiv K. , Johnsen Steven A. , Hessmann Elisabeth
Published: April 2023

TMA associated clinical data
Supplementary Figure 5 from EZH2 Regulates Pancreatic Cancer Subtype Identity and Tumor Progression via Transcriptional Repression of GATA6
Authors: Patil Shilpa , Steuber Benjamin , Kopp Waltraut , Kari Vijayalakshmi , Urbach Laura , Wang Xin , Küffer Stefan , Bohnenberger Hanibal , Spyropoulou Dimitra , Zhang Zhe , Versemann Lennart , Bösherz Mark Sebastian , Brunner Marius , Gaedcke Jochen , Ströbel Philipp , Zhang Jin-San , Neesse Albrecht , Ellenrieder Volker , Singh Shiv K. , Johnsen Steven A. , Hessmann Elisabeth
Published: April 2023

Supplementary Figure 5: Gata6 represents a transcriptional target of EZH2
Supplementary Figure 4 from EZH2 Regulates Pancreatic Cancer Subtype Identity and Tumor Progression via Transcriptional Repression of GATA6
Authors: Patil Shilpa , Steuber Benjamin , Kopp Waltraut , Kari Vijayalakshmi , Urbach Laura , Wang Xin , Küffer Stefan , Bohnenberger Hanibal , Spyropoulou Dimitra , Zhang Zhe , Versemann Lennart , Bösherz Mark Sebastian , Brunner Marius , Gaedcke Jochen , Ströbel Philipp , Zhang Jin-San , Neesse Albrecht , Ellenrieder Volker , Singh Shiv K. , Johnsen Steven A. , Hessmann Elisabeth
Published: April 2023

Supplementary Figure 4: EZH2 transcriptionally represses differentiation associated genes
Supplementary Figure 7 from Oncogenic TRIM37 Links Chemoresistance and Metastatic Fate in Triple-Negative Breast Cancer
Authors: Przanowski Piotr , Lou Song , Tihagam Rachisan Djiake , Mondal Tanmoy , Conlan Caroline , Shivange Gururaj , Saltani Ilyas , Singh Chandrajeet , Xing Kun , Morris Benjamin B. , Mayo Marty W. , Teixeira Luis , Lehmann-Che Jacqueline , Tushir-Singh Jogender , Bhatnagar Sanchita
Published: April 2023

Supplementary Figure 7. Targeting of TRIM37 suppresses TNBC metastasis.
Supplementary Data from EZH2 Regulates Pancreatic Cancer Subtype Identity and Tumor Progression via Transcriptional Repression of GATA6
Authors: Patil Shilpa , Steuber Benjamin , Kopp Waltraut , Kari Vijayalakshmi , Urbach Laura , Wang Xin , Küffer Stefan , Bohnenberger Hanibal , Spyropoulou Dimitra , Zhang Zhe , Versemann Lennart , Bösherz Mark Sebastian , Brunner Marius , Gaedcke Jochen , Ströbel Philipp , Zhang Jin-San , Neesse Albrecht , Ellenrieder Volker , Singh Shiv K. , Johnsen Steven A. , Hessmann Elisabeth
Published: April 2023

Supplementary Material and Methods and Figure legends
Supplemental Video 1 from Visualization of Activated T Cells by OX40-ImmunoPET as a Strategy for Diagnosis of Acute Graft-versus-Host Disease
Authors: Alam Israt S. , Simonetta Federico , Scheller Lukas , Mayer Aaron T. , Murty Surya , Vermesh Ophir , Nobashi Tomomi W. , Lohmeyer Juliane K. , Hirai Toshihito , Baker Jeanette , Lau Kenneth H. , Negrin Robert , Gambhir Sanjiv S.
Published: April 2023

Day4_GVHD
Supplementary Figure 7 from Myeloid-Derived Suppressor Cells Are a Major Source of Wnt5A in the Melanoma Microenvironment and Depend on Wnt5A for Full Suppressive Activity
Authors: Douglass Stephen M. , Fane Mitchell E. , Sanseviero Emilio , Ecker Brett L. , Kugel Curtis H. , Behera Reeti , Kumar Vinit , Tcyganov Evgenii N. , Yin Xiangfan , Liu Qin , Chhabra Yash , Alicea Gretchen M. , Kuruvilla Rejji , Gabrilovich Dmitry I. , Weeraratna Ashani T.
Published: April 2023

Supplementary Figure 7 - Pro- and Anti-Tumor Effects of IFN-g Signalling Within The TME
Supplementary Figure 5 from Myeloid-Derived Suppressor Cells Are a Major Source of Wnt5A in the Melanoma Microenvironment and Depend on Wnt5A for Full Suppressive Activity
Authors: Douglass Stephen M. , Fane Mitchell E. , Sanseviero Emilio , Ecker Brett L. , Kugel Curtis H. , Behera Reeti , Kumar Vinit , Tcyganov Evgenii N. , Yin Xiangfan , Liu Qin , Chhabra Yash , Alicea Gretchen M. , Kuruvilla Rejji , Gabrilovich Dmitry I. , Weeraratna Ashani T.
Published: April 2023

Supplementary Figure 5 - Myeloid Wnt5A Does Not Influence CXCR2 Expression on MDSCs
Supplementary Figure 3 from Myeloid-Derived Suppressor Cells Are a Major Source of Wnt5A in the Melanoma Microenvironment and Depend on Wnt5A for Full Suppressive Activity
Authors: Douglass Stephen M. , Fane Mitchell E. , Sanseviero Emilio , Ecker Brett L. , Kugel Curtis H. , Behera Reeti , Kumar Vinit , Tcyganov Evgenii N. , Yin Xiangfan , Liu Qin , Chhabra Yash , Alicea Gretchen M. , Kuruvilla Rejji , Gabrilovich Dmitry I. , Weeraratna Ashani T.
Published: April 2023

Supplementary Figure 3 - Effects of Myeloid Wnt5A Knockdown on Apoptosis, and Wnt5A Expression in Cell lines and Tumor Lysates
Supplementary Material from MUC1-C Activates the BAF (mSWI/SNF) Complex in Prostate Cancer Stem Cells
Authors: Hagiwara Masayuki , Yasumizu Yota , Yamashita Nami , Rajabi Hasan , Fushimi Atsushi , Long Mark D. , Li Wei , Bhattacharya Atrayee , Ahmad Rehan , Oya Mototsugu , Liu Song , Kufe Donald
Published: April 2023

Supplementary Figures S1-S9 and Tables S1-S3.
Supplementary Table from Frizzled-7 Identifies Platinum-Tolerant Ovarian Cancer Cells Susceptible to Ferroptosis
Authors: Wang Yinu , Zhao Guangyuan , Condello Salvatore , Huang Hao , Cardenas Horacio , Tanner Edward J. , Wei JianJun , Ji Yanrong , Li Junjie , Tan Yuying , Davuluri Ramana V. , Peter Marcus E. , Cheng Ji-Xin , Matei Daniela
Published: April 2023

Supplementary Table S1, S2, S3, and S4
Supplementary Table 5 from Hypoxic Glioma Stem Cell–Derived Exosomes Containing Linc01060 Promote Progression of Glioma by Regulating the MZF1/c-Myc/HIF1α Axis
Authors: Li Junjun , Liao Tingting , Liu Hongya , Yuan Hongliang , Ouyang Taohui , Wang Jiajing , Chai Songshan , Li Jinsong , Chen Jingchao , Li Xiang , Zhao Hongyang , Xiong Nanxiang
Published: April 2023

Table S5. The top 10 upregulated lncRNA in RNA-seq.
Supplementary Figures from Frizzled-7 Identifies Platinum-Tolerant Ovarian Cancer Cells Susceptible to Ferroptosis
Authors: Wang Yinu , Zhao Guangyuan , Condello Salvatore , Huang Hao , Cardenas Horacio , Tanner Edward J. , Wei JianJun , Ji Yanrong , Li Junjie , Tan Yuying , Davuluri Ramana V. , Peter Marcus E. , Cheng Ji-Xin , Matei Daniela
Published: April 2023

Supplementary Figures S1, S2, S3, S4, S5, S6, S7 and S8
Supplementary Data from Myeloma-Modified Adipocytes Exhibit Metabolic Dysfunction and a Senescence-Associated Secretory Phenotype
Authors: Fairfield Heather , Dudakovic Amel , Khatib Casper M. , Farrell Mariah , Costa Samantha , Falank Carolyne , Hinge Maja , Murphy Connor S. , DeMambro Victoria , Pettitt Jessica A. , Lary Christine W. , Driscoll Heather E. , McDonald Michelle M. , Kassem Moustapha , Rosen Clifford , Andersen Thomas L. , van Wijnen Andre J. , Jafari Abbas , Reagan Michaela R.
Published: April 2023

SI Methods and legends
Table S1 from Histone Methyltransferase SETDB1: A Common Denominator of Tumorigenesis with Therapeutic Potential
Authors: Strepkos Dimitrios , Markouli Mariam , Klonou Alexia , Papavassiliou Athanasios G. , Piperi Christina
Published: April 2023

Drugs targeting SETDB1 in different types of cancer
Supplementary Data from Turnover Modulates the Need for a Cost of Resistance in Adaptive Therapy
Authors: Strobl Maximilian A.R. , West Jeffrey , Viossat Yannick , Damaghi Mehdi , Robertson-Tessi Mark , Brown Joel S. , Gatenby Robert A. , Maini Philip K. , Anderson Alexander R.A.
Published: April 2023

Supplementary Material
Supplementary Materials and Methods from E7386, a Selective Inhibitor of the Interaction between β-Catenin and CBP, Exerts Antitumor Activity in Tumor Models with Activated Canonical Wnt Signaling
Authors: Yamada Kazuhiko , Hori Yusaku , Inoue Satoshi , Yamamoto Yuji , Iso Kentaro , Kamiyama Hiroshi , Yamaguchi Atsumi , Kimura Takayuki , Uesugi Mai , Ito Junichi , Matsuki Masahiro , Nakamoto Kazutaka , Harada Hitoshi , Yoneda Naoki , Takemura Atsushi , Kushida Ikuo , Wakayama Naomi , Kubara Kenji , Kato Yu , Semba Taro , Yokoi Akira , Matsukura Masayuki , Odagami Takenao , Iwata Masao , Tsuruoka Akihiko , Uenaka Toshimitsu , Matsui Junji , Matsushima Tomohiro , Nomoto Kenichi , Kouji Hiroyuki , Owa Takashi , Funahashi Yasuhiro , Ozawa Yoichi
Published: April 2023

Supplementary Materials and Methods
Supplementary Table from KDM5B Is Essential for the Hyperactivation of PI3K/AKT Signaling in Prostate Tumorigenesis
Authors: Li Guoliang , Kanagasabai Thanigaivelan , Lu Wenfu , Zou Mike R. , Zhang Shang-Min , Celada Sherly I. , Izban Michael G. , Liu Qi , Lu Tao , Ballard Billy R. , Zhou Xinchun , Adunyah Samuel E. , Matusik Robert J. , Yan Qin , Chen Zhenbang
Published: April 2023

Table S1, S2 and S3
Supplementary Figure from KDM5B Is Essential for the Hyperactivation of PI3K/AKT Signaling in Prostate Tumorigenesis
Authors: Li Guoliang , Kanagasabai Thanigaivelan , Lu Wenfu , Zou Mike R. , Zhang Shang-Min , Celada Sherly I. , Izban Michael G. , Liu Qi , Lu Tao , Ballard Billy R. , Zhou Xinchun , Adunyah Samuel E. , Matusik Robert J. , Yan Qin , Chen Zhenbang
Published: April 2023

Suppl Figs S1-S8
source data from Acute Kidney Injury Instigates Malignant Renal Cell Carcinoma via CXCR2 in Mice with Inactivated Trp53 and Pten in Proximal Tubular Kidney Epithelial Cells
Authors: Zhou Xunian , Xiao Fei , Sugimoto Hikaru , Li Bingrui , McAndrews Kathleen M. , Kalluri Raghu
Published: April 2023

source data of all the figures
Supplementary Data from Acute Kidney Injury Instigates Malignant Renal Cell Carcinoma via CXCR2 in Mice with Inactivated Trp53 and Pten in Proximal Tubular Kidney Epithelial Cells
Authors: Zhou Xunian , Xiao Fei , Sugimoto Hikaru , Li Bingrui , McAndrews Kathleen M. , Kalluri Raghu
Published: April 2023

supplementary file
Table S4 from Chromatin Looping Shapes KLF5-Dependent Transcriptional Programs in Human Epithelial Cancers
Authors: Liu Yanli , Guo Bingqian , Aguilera-Jimenez Estrella , Chu Vivian S. , Zhou Jin , Wu Zhong , Francis Joshua M. , Yang Xiaojun , Choi Peter S. , Bailey Swneke D. , Zhang Xiaoyang
Published: April 2023

Association between gene expression and dependency
Supplementary Data from EZH2-Targeted Therapies in Cancer: Hype or a Reality
Authors: Eich Marie-Lisa , Athar Mohammad , Ferguson James E. , Varambally Sooryanarayana
Published: April 2023

Supplementary figures and tables
Table S2 from Chromatin Looping Shapes KLF5-Dependent Transcriptional Programs in Human Epithelial Cancers
Authors: Liu Yanli , Guo Bingqian , Aguilera-Jimenez Estrella , Chu Vivian S. , Zhou Jin , Wu Zhong , Francis Joshua M. , Yang Xiaojun , Choi Peter S. , Bailey Swneke D. , Zhang Xiaoyang
Published: April 2023

IP-mass spec results
Table S1 from Chromatin Looping Shapes KLF5-Dependent Transcriptional Programs in Human Epithelial Cancers
Authors: Liu Yanli , Guo Bingqian , Aguilera-Jimenez Estrella , Chu Vivian S. , Zhou Jin , Wu Zhong , Francis Joshua M. , Yang Xiaojun , Choi Peter S. , Bailey Swneke D. , Zhang Xiaoyang
Published: April 2023

Primers used in the study
Supplementary Figures and Figure Legends from Chromatin Looping Shapes KLF5-Dependent Transcriptional Programs in Human Epithelial Cancers
Authors: Liu Yanli , Guo Bingqian , Aguilera-Jimenez Estrella , Chu Vivian S. , Zhou Jin , Wu Zhong , Francis Joshua M. , Yang Xiaojun , Choi Peter S. , Bailey Swneke D. , Zhang Xiaoyang
Published: April 2023

Supplementary Figures and Figure Legends
TableS3 from Single-Cell Transcriptomic Heterogeneity in Invasive Ductal and Lobular Breast Cancer Cells
Authors: Chen Fangyuan , Ding Kai , Priedigkeit Nolan , Elangovan Ashuvinee , Levine Kevin M. , Carleton Neil , Savariau Laura , Atkinson Jennifer M. , Oesterreich Steffi , Lee Adrian V.
Published: April 2023

TableS3
TableS2 from Single-Cell Transcriptomic Heterogeneity in Invasive Ductal and Lobular Breast Cancer Cells
Authors: Chen Fangyuan , Ding Kai , Priedigkeit Nolan , Elangovan Ashuvinee , Levine Kevin M. , Carleton Neil , Savariau Laura , Atkinson Jennifer M. , Oesterreich Steffi , Lee Adrian V.
Published: April 2023

TableS2
Supplementary Data from Time-Dependent Effects of Oral Contraceptive Use on Breast, Ovarian, and Endometrial Cancers
Authors: Karlsson Torgny , Johansson Therese , Höglund Julia , Ek Weronica E. , Johansson Åsa
Published: April 2023

Online Data Supplements: â€¢ Online methods. â€¢ Supplementary Table S1. A selection of previous studies aiming to estimate the effect of oral contraceptive use on risk of breast cancer. â€¢ Supplementary Table S2. Identification of cancer cases in the UK biobank database. â€¢ Supplementary Table S3. Identification of covariates in the UK biobank database and their Odds ratio [OR] and 95% confidence interval [CI]) on odds of cancer. â€¢ Supplementary Table S4. Fixed (time-independent) associations of oral contraceptives, during and after use, as analysed by Cox regression modelling. â€¢ Supplementary Table S5. Fixed (time-independent) associations of oral contraceptives during and after use, as analysed by Cox regression modelling with age as primary time scale (sensitivity analyses). â€¢ Supplementary Table S6. Time-dependent associations of oral contraceptives during use, as analysed by Cox regression modelling. â€¢ Supplementary Table S7. Time-dependent hazard ratios of oral contraceptives after last use. â€¢ Supplementary Figure S1. Sensitivity analyses for the associations between oral contraceptive use and cancer in the Cox regression. â€¢ Supplementary Figure S2. Discrepancy between self-reported data and cancer register. â€¢ Supplementary Figure S3. Power calculations. â€¢ Supplementary Figure S4. Distributions for age at menopause. â€¢ Supplementary Figure S5. Sensitivity analyses for different follow-up years after oral contraceptive discontinuation.
Supplementary Material and Methods from The Transcriptomic Landscape of Mismatch Repair-Deficient Intestinal Stem Cells
Authors: Bommi Prashant V. , Bowen Charles M. , Reyes-Uribe Laura , Wu Wenhui , Katayama Hiroyuki , Rocha Pedro , Parra Edwin R. , Francisco-Cruz Alejandro , Ozcan Zuhal , Tosti Elena , Willis Jason A. , Wu Hong , Taggart Melissa W. , Burks Jared K. , Lynch Patrick M. , Edelmann Winfried , Scheet Paul A. , Wistuba Ignacio I. , Sinha Krishna M. , Hanash Samir M. , Vilar Eduardo
Published: April 2023

Supplementary Material and Methods
Supplementary Data from Design and Functional Validation of a Mutant Variant of the LncRNA HOTAIR to Counteract Snail Function in Epithelial-to-Mesenchymal Transition
Authors: Battistelli Cecilia , Garbo Sabrina , Riccioni Veronica , Montaldo Claudia , Santangelo Laura , Vandelli Andrea , Strippoli Raffaele , Tartaglia Gian Gaetano , Tripodi Marco , Cicchini Carla
Published: April 2023

Supplementary figures S1-S8 and Supplementary Tables S1 and S2. Supplementary Figure S1: Structure conservation between human and mouse HOTAIR. Supplementary Figure S2: HOTAIR-sbid retains a nuclear localization. Supplementary Figure S3: Hep3B grown at low density express HOTAIR and Snail and repress epithelial markers. Supplementary Figure S4: Densitometric analysis of protein levels. Supplementary Figure S5: HOTAIR-sbid interferes with the SNAIL/HOTAIR/EZH2-mediated functions. Supplementary Figure S6: Quantification of migration and invasion abilities. Supplementary Figure S7: Proliferation assays. Supplementary Figure S8: HOTAIR-sbid interferes with the SNAIL/HOTAIR/EZH2-mediated functions in EMT. Table S1: List of primers, sequence, primer pairs efficiency and r^2 values. Table S2: List of primers, sequence, primer pairs efficiency and r^2 values.