bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Table S1 from Lurbinectedin Inactivates the Ewing Sarcoma Oncoprotein EWS-FLI1 by Redistributing It within the Nucleus
Authors: Harlow Matt L. , Maloney Nichole , Roland Joseph , Guillen Navarro Maria Jose , Easton Matthew K. , Kitchen-Goosen Susan M. , Boguslawski Elissa A. , Madaj Zachary B. , Johnson Ben K. , Bowman Megan J. , D'Incalci Maurizio , Winn Mary E. , Turner Lisa , Hostetter Galen , Galmarini Carlos María , Aviles Pablo M. , Grohar Patrick J.
Published: April 2023

Supplementary Table S1 Sequences of primers used in the study.
Supplementary Figure S6 from Lurbinectedin Inactivates the Ewing Sarcoma Oncoprotein EWS-FLI1 by Redistributing It within the Nucleus
Authors: Harlow Matt L. , Maloney Nichole , Roland Joseph , Guillen Navarro Maria Jose , Easton Matthew K. , Kitchen-Goosen Susan M. , Boguslawski Elissa A. , Madaj Zachary B. , Johnson Ben K. , Bowman Megan J. , D'Incalci Maurizio , Winn Mary E. , Turner Lisa , Hostetter Galen , Galmarini Carlos María , Aviles Pablo M. , Grohar Patrick J.
Published: April 2023

Supplementary Figure S6 A) In vitro validation of NR0B1 immunofluorescent assay. Data shows images and quantitation of TC32 control cells or TC32 cells following siRNA silencing of NR0B1. B) ki67 and cleaved caspase 3 staining of Ewing sarcoma xenograft tissue. C) Histology from tumor xenograft showing zone of differentiation of Ewing sarcoma cells into benign fat cells. Alu-ish staining (blue) marks human cells.
Supplementary Figure S4 from Lurbinectedin Inactivates the Ewing Sarcoma Oncoprotein EWS-FLI1 by Redistributing It within the Nucleus
Authors: Harlow Matt L. , Maloney Nichole , Roland Joseph , Guillen Navarro Maria Jose , Easton Matthew K. , Kitchen-Goosen Susan M. , Boguslawski Elissa A. , Madaj Zachary B. , Johnson Ben K. , Bowman Megan J. , D'Incalci Maurizio , Winn Mary E. , Turner Lisa , Hostetter Galen , Galmarini Carlos María , Aviles Pablo M. , Grohar Patrick J.
Published: April 2023

Supplementary Figure S4 A) Effect of treatment with 5 nmol/L lurbinectedin for 12 hours on expression of the EWS-FLI1 target genes, BCL11B, LOX, PRKCB and STEAP1. B) Effect of treatment with 10 nmol/L lurbinectedin for 6 or 12 hours on the EWS-FLI1 gene signature of repressed targets. C) GI50 for lurbinectedin and trabectedin.
Supplementary Figure S2 from Lurbinectedin Inactivates the Ewing Sarcoma Oncoprotein EWS-FLI1 by Redistributing It within the Nucleus
Authors: Harlow Matt L. , Maloney Nichole , Roland Joseph , Guillen Navarro Maria Jose , Easton Matthew K. , Kitchen-Goosen Susan M. , Boguslawski Elissa A. , Madaj Zachary B. , Johnson Ben K. , Bowman Megan J. , D'Incalci Maurizio , Winn Mary E. , Turner Lisa , Hostetter Galen , Galmarini Carlos María , Aviles Pablo M. , Grohar Patrick J.
Published: April 2023

Supplementary Figure S2 Confocal imaging of TC32 cells treated with 5 nM lurbinectedin for 6 h shows EWS-FLI1 (green) localization. DAPI (blue) staining of the nucleus. C-Terminal FLI1 antibody was used at a concentration of 1:100.
Supplemental Legends from Lurbinectedin Inactivates the Ewing Sarcoma Oncoprotein EWS-FLI1 by Redistributing It within the Nucleus
Authors: Harlow Matt L. , Maloney Nichole , Roland Joseph , Guillen Navarro Maria Jose , Easton Matthew K. , Kitchen-Goosen Susan M. , Boguslawski Elissa A. , Madaj Zachary B. , Johnson Ben K. , Bowman Megan J. , D'Incalci Maurizio , Winn Mary E. , Turner Lisa , Hostetter Galen , Galmarini Carlos María , Aviles Pablo M. , Grohar Patrick J.
Published: April 2023

Legends for supplementary figures and tables.
Suppl Table S3 from Identification of RNA-Binding Protein LARP4B as a Tumor Suppressor in Glioma
Authors: Koso Hideto , Yi Hungtsung , Sheridan Paul , Miyano Satoru , Ino Yasushi , Todo Tomoki , Watanabe Sumiko
Published: April 2023

Primers used in this study
Suppl Table S1 from Identification of RNA-Binding Protein LARP4B as a Tumor Suppressor in Glioma
Authors: Koso Hideto , Yi Hungtsung , Sheridan Paul , Miyano Satoru , Ino Yasushi , Todo Tomoki , Watanabe Sumiko
Published: April 2023

Information regarding the patient-derived glioma stem cells
Supplementary figure legends from A Novel Chemotherapeutic Agent to Treat Tumors with DNA Mismatch Repair Deficiencies
Authors: Zhang Yongliang , Fox Jennifer T. , Park Young-Un , Elliott Gene , Rai Ganesha , Cai Mengli , Sakamuru Srilatha , Huang Ruili , Xia Menghang , Lee Kyeryoung , Jeon Min Ho , Mathew Bijoy P. , Park Hee Dong , Edelmann Winfried , Park Chan Young , Hong Sung You , Maloney David , Myung Kyungjae
Published: April 2023

This file has detail figure legends for supplementary figures.
Supplemental Figure S3 from STING Promotes the Growth of Tumors Characterized by Low Antigenicity via IDO Activation
Authors: Lemos Henrique , Mohamed Eslam , Huang Lei , Ou Rong , Pacholczyk Gabriela , Arbab Ali S. , Munn David , Mellor Andrew L.
Published: April 2023

STING ablation modifies inflammatory responses to LLC tumor growth.
Supplemental Figure S2 from STING Promotes the Growth of Tumors Characterized by Low Antigenicity via IDO Activation
Authors: Lemos Henrique , Mohamed Eslam , Huang Lei , Ou Rong , Pacholczyk Gabriela , Arbab Ali S. , Munn David , Mellor Andrew L.
Published: April 2023

LLC-RFP tumorigenesis and strategies to detect TILs and cells that ingested tumor cells.
Suppl Figure S1 from Identification of RNA-Binding Protein LARP4B as a Tumor Suppressor in Glioma
Authors: Koso Hideto , Yi Hungtsung , Sheridan Paul , Miyano Satoru , Ino Yasushi , Todo Tomoki , Watanabe Sumiko
Published: April 2023

Analysis of LARP family genes in glioblastoma
Suppl Figure Legends from Identification of RNA-Binding Protein LARP4B as a Tumor Suppressor in Glioma
Authors: Koso Hideto , Yi Hungtsung , Sheridan Paul , Miyano Satoru , Ino Yasushi , Todo Tomoki , Watanabe Sumiko
Published: April 2023

Supplementary Figure Legends
Supplemental Tables S1-S4 from Polysome Profiling Links Translational Control to the Radioresponse of Glioblastoma Stem-like Cells
Authors: Wahba Amy , Rath Barbara H. , Bisht Kheem , Camphausen Kevin , Tofilon Philip J.
Published: April 2023

Genes upregulated in IR-induced translatome;Genes down-regulated in the radiation-induced translatome; Top IPA networks of genes down-regulated in the common IR-induced translatome; GSEA enrichment of Mitochondrial GO terms in the radiation-induced translatome
Supplemental Figure S3 from Polysome Profiling Links Translational Control to the Radioresponse of Glioblastoma Stem-like Cells
Authors: Wahba Amy , Rath Barbara H. , Bisht Kheem , Camphausen Kevin , Tofilon Philip J.
Published: April 2023

Immunoblot analyses of proteins predicted by polysome-bound RNA gene expression profiling to be increased after irradiation of NSC11 cells
Figure S1 from Clonotypic Diversification of Intratumoral T Cells Following Sipuleucel-T Treatment in Prostate Cancer Subjects
Authors: Sheikh Nadeem , Cham Jason , Zhang Li , DeVries Todd , Letarte Simon , Pufnock Jeff , Hamm David , Trager James , Fong Lawrence
Published: April 2023

Supplementary Figure S1 - Study schema
Supplementary Material and Methods from Multiple Myeloma Impairs Bone Marrow Localization of Effector Natural Killer Cells by Altering the Chemokine Microenvironment
Authors: Ponzetta Andrea , Benigni Giorgia , Antonangeli Fabrizio , Sciumè Giuseppe , Sanseviero Emilio , Zingoni Alessandra , Ricciardi Maria Rosaria , Petrucci Maria Teresa , Santoni Angela , Bernardini Giovanni
Published: April 2023

Supplementary materials and methods include information related to reagents, cell preparation and NK cell enrichment, FACS analysis, ELISA, functional assays, mixed bone marrow chimera, isolation of BM cell populations and Real-Time PCR
Supplementary Figure S4 from Multiple Myeloma Impairs Bone Marrow Localization of Effector Natural Killer Cells by Altering the Chemokine Microenvironment
Authors: Ponzetta Andrea , Benigni Giorgia , Antonangeli Fabrizio , Sciumè Giuseppe , Sanseviero Emilio , Zingoni Alessandra , Ricciardi Maria Rosaria , Petrucci Maria Teresa , Santoni Angela , Bernardini Giovanni
Published: April 2023

Supplementary Figure S4. CXCR4 expression on BM or PB NK cells from patients with MGUS, Smoldering (SMO), Onset and Relapse
Supplemental Tables 1 through 3 from Lysyl Oxidase Is a Strong Determinant of Tumor Cell Colonization in Bone
Authors: Reynaud Caroline , Ferreras Laura , Di Mauro Paola , Kan Casina , Croset Martine , Bonnelye Edith , Pez Floriane , Thomas Clémence , Aimond Géraldine , Karnoub Antoine E. , Brevet Marie , Clézardin Philippe
Published: April 2023

Supplementary Table S1. Primer pairs used for quantitative real-time PCR analysis. Supplementary Table S2. Summary of the gene expression datasets used for meta-analysis. Supplementary Table S3. Expression levels of LOX-like mRNAs in Hct116 cells transduced for LOX overexpression (LOX+) or silencing (LOX-), compared to mock-transduced Hct116 cells (Ctrl).
Table S2 from Upregulated Glucose Metabolism Correlates Inversely with CD8+ T-cell Infiltration and Survival in Squamous Cell Carcinoma
Authors: Ottensmeier Christian H. , Perry Kate L. , Harden Elena L. , Stasakova Jana , Jenei Veronika , Fleming Jason , Wood Oliver , Woo Jeongmin , Woelk Christopher H. , Thomas Gareth J. , Thirdborough Stephen M.
Published: April 2023

Table S2. Excel spreadsheet of enriched GO terms (Bonferoni adj.P< 0.05) and top 20 negatively enriched MSigDB hallmark gene sets.
Figure S3 from Upregulated Glucose Metabolism Correlates Inversely with CD8+ T-cell Infiltration and Survival in Squamous Cell Carcinoma
Authors: Ottensmeier Christian H. , Perry Kate L. , Harden Elena L. , Stasakova Jana , Jenei Veronika , Fleming Jason , Wood Oliver , Woo Jeongmin , Woelk Christopher H. , Thomas Gareth J. , Thirdborough Stephen M.
Published: April 2023

Figure S3. Increased expression of the CD8+ T-cell signature has a prognostic value for overall survival. (A and B) Kaplan-Meier estimates of overall survival among patients grouped according to expression of genes with the strongest membership (kME{greater than or equal to} 0.80) for M1 and M8. (C) Univariate and multivariate overall survival analysis in HNSC patients by the Cox PH model.
Figure S2 from Upregulated Glucose Metabolism Correlates Inversely with CD8+ T-cell Infiltration and Survival in Squamous Cell Carcinoma
Authors: Ottensmeier Christian H. , Perry Kate L. , Harden Elena L. , Stasakova Jana , Jenei Veronika , Fleming Jason , Wood Oliver , Woo Jeongmin , Woelk Christopher H. , Thomas Gareth J. , Thirdborough Stephen M.
Published: April 2023

Figure S2. Analysis of gene coexpression and eigengene relationships with overall survival. (A) Box-and-whisker plots of the Pearson correlation between a module gene's expression profile and the deviance residual, a measure of observed minus expected hazard from a univariate Cox PH model. Horizontal lines represent the median and interquartile ranges. The p-values were calculated using a two-tailed Wilcoxon signed-rank test (p<0.001 versus corDeviance= 0). A positive corDeviance value indicates a shorter than expected survival time whereas a negative value indicates that the observed death came after the model prediction. (B) Network graph where each node is labelled by color according to Pearson correlation between the expected hazard (deviance residual) with each gene's expression profile. Red and blue colors show genes associated with shorter and longer survival times, respectively.
Supplemental Methods and Legends from TGFβ Signaling in the Pancreatic Tumor Microenvironment Promotes Fibrosis and Immune Evasion to Facilitate Tumorigenesis
Authors: Principe Daniel R. , DeCant Brian , Mascariñas Emman , Wayne Elizabeth A. , Diaz Andrew M. , Akagi Naomi , Hwang Rosa , Pasche Boris , Dawson David W. , Fang Deyu , Bentrem David J. , Munshi Hidayatullah G. , Jung Barbara , Grippo Paul J.
Published: April 2023

Supplemental Methods and Legend
Supplementary Tables S1-S2 and Figures S1-S7 from p27 Is a Candidate Prognostic Biomarker and Metastatic Promoter in Osteosarcoma
Authors: Li Yiting , Nakka Manjula , Kelly Aaron J. , Lau Ching C. , Krailo Mark , Barkauskas Donald A. , Hicks John M. , Man Tsz-Kwong
Published: April 2023

This file contains Supplementary Table S1. The clinical information of the cohort collected from Texas Children's Hospital and the cohort collected from the Children's Oncology Group Supplementary Table S2. Autoantibody candidates showed higher intensities in the high-risk samples (HR) relative to the low-risk samples (LR) and the control samples (CTL) in the ProtoArray Analysis. Supplementary Figure S1. The site-directed mutations in the p27 sequence of the S10, T157 and T198 phosphosites confirmed by Sanger sequencing. Supplementary Figure S2. The repeated migration and invasion assays of p27 mutants and the control. Supplementary Figure S3. The migration and invasion assays of the SaOS-2 cells transfected with NES-p27 wild-type (wt), NES-p27CK-, and other controls. Supplementary Figure S4. The growth curves of the SaOS-2 cells alone, with the empty vector, and with various NES-p27 mutants. Supplementary Figure S5. The repeated migration and invasion assays of the p27-silenced mutants and controls. Supplementary Figure S6. The 2-D migration assay of p27-silenced mutants and controls. Supplementary Figure S7. The additional images of H&E staining of lung metastases derived from the mice injected with metastatic LM7 (top) and SaOS-2 cells stably transfected with NES-p27CK- (bottom).
Supplementary Figure S6 from Heparanase 2 Attenuates Head and Neck Tumor Vascularity and Growth
Authors: Gross-Cohen Miriam , Feld Sari , Doweck Ilana , Neufeld Gera , Hasson Peleg , Arvatz Gil , Barash Uri , Naroditsky Inna , Ilan Neta , Vlodavsky Israel
Published: April 2023

Cytokeratin expression is reduced following Id1 over expression.
Figure S2 from TGFβ Signaling in the Pancreatic Tumor Microenvironment Promotes Fibrosis and Immune Evasion to Facilitate Tumorigenesis
Authors: Principe Daniel R. , DeCant Brian , Mascariñas Emman , Wayne Elizabeth A. , Diaz Andrew M. , Akagi Naomi , Hwang Rosa , Pasche Boris , Dawson David W. , Fang Deyu , Bentrem David J. , Munshi Hidayatullah G. , Jung Barbara , Grippo Paul J.
Published: April 2023

Figure S2. TGFBR-Deficiency Alone Does Not Alter Pancreas Phenotype
Figure S10 from TGFβ Signaling in the Pancreatic Tumor Microenvironment Promotes Fibrosis and Immune Evasion to Facilitate Tumorigenesis
Authors: Principe Daniel R. , DeCant Brian , Mascariñas Emman , Wayne Elizabeth A. , Diaz Andrew M. , Akagi Naomi , Hwang Rosa , Pasche Boris , Dawson David W. , Fang Deyu , Bentrem David J. , Munshi Hidayatullah G. , Jung Barbara , Grippo Paul J.
Published: April 2023

Figure S10. Stromal-Derived TGFbeta Facilitates Pancreatic Tumorigenesis via Evasion of Immune Surveillance
Figure S1 from TGFβ Signaling in the Pancreatic Tumor Microenvironment Promotes Fibrosis and Immune Evasion to Facilitate Tumorigenesis
Authors: Principe Daniel R. , DeCant Brian , Mascariñas Emman , Wayne Elizabeth A. , Diaz Andrew M. , Akagi Naomi , Hwang Rosa , Pasche Boris , Dawson David W. , Fang Deyu , Bentrem David J. , Munshi Hidayatullah G. , Jung Barbara , Grippo Paul J.
Published: April 2023

Figure S1. Early Pancreatic Tumor Models of Epithelial and Systemic TGFbeta Signaling Deficiency
Supplementary Figure S3 from Heparanase 2 Attenuates Head and Neck Tumor Vascularity and Growth
Authors: Gross-Cohen Miriam , Feld Sari , Doweck Ilana , Neufeld Gera , Hasson Peleg , Arvatz Gil , Barash Uri , Naroditsky Inna , Ilan Neta , Vlodavsky Israel
Published: April 2023

Over expression of Hpa2 results in increased tumor fibrosis.
Supplementary Figure S1 from Heparanase 2 Attenuates Head and Neck Tumor Vascularity and Growth
Authors: Gross-Cohen Miriam , Feld Sari , Doweck Ilana , Neufeld Gera , Hasson Peleg , Arvatz Gil , Barash Uri , Naroditsky Inna , Ilan Neta , Vlodavsky Israel
Published: April 2023

Reduced tumorigenesis of FaDu cell clones over expressing Hpa2A is associated with decreased VEGF levels.
Supplemental Figure Legends from Rab11-FIP1C Is a Critical Negative Regulator in ErbB2-Mediated Mammary Tumor Progression
Authors: Boulay Pierre-Luc , Mitchell Louise , Turpin Jason , Huot-Marchand Julie-Émilie , Lavoie Cynthia , Sanguin-Gendreau Virginie , Jones Laura , Mitra Shreya , Livingstone Julie M. , Campbell Shirley , Hallett Michael , Mills Gordon B. , Park Morag , Chodosh Lewis , Strathdee Douglas , Norman Jim C. , Muller William J.
Published: April 2023

This file contains the supplemental figure legends
Supplementary Table 2 from Novel ß-HPV49 Transgenic Mouse Model of Upper Digestive Tract Cancer
Authors: Viarisio Daniele , Müller-Decker Karin , Zanna Paola , Kloz Ulrich , Aengeneyndt Birgit , Accardi Rosita , Flechtenmacher Christa , Gissmann Lutz , Tommasino Massimo
Published: April 2023

Analysis of enriched pathways
Supplementary Figure 3 from Novel ß-HPV49 Transgenic Mouse Model of Upper Digestive Tract Cancer
Authors: Viarisio Daniele , Müller-Decker Karin , Zanna Paola , Kloz Ulrich , Aengeneyndt Birgit , Accardi Rosita , Flechtenmacher Christa , Gissmann Lutz , Tommasino Massimo
Published: April 2023

Alignment of E6 sequences from HPV16, HPV49, and HPV38 types.
Supplementary Table S1 from Long Noncoding RNA pancEts-1 Promotes Neuroblastoma Progression through hnRNPK-Mediated β-Catenin Stabilization
Authors: Li Dan , Wang Xiaojing , Mei Hong , Fang Erhu , Ye Lin , Song Huajie , Yang Feng , Li Huanhuan , Huang Kai , Zheng Liduan , Tong Qiangsong
Published: April 2023

Table S1 shows primer sets used for RACE, qRT-PCR, RIP, probe, and ChIP
Supplementary Figure S1-S5 from Long Noncoding RNA pancEts-1 Promotes Neuroblastoma Progression through hnRNPK-Mediated β-Catenin Stabilization
Authors: Li Dan , Wang Xiaojing , Mei Hong , Fang Erhu , Ye Lin , Song Huajie , Yang Feng , Li Huanhuan , Huang Kai , Zheng Liduan , Tong Qiangsong
Published: April 2023

Figure S1 shows the schematic positions for primers; Figure S2 shows the characterization of a novel lncRNA pancEts-1; Figure S3 shows the expression and Kaplan-Meier survival curves of pancEts-1 downstream genes; Figure S4 shows the expression of β-catenin and hnRNPK in NB cells; Figure S5 shows the roles of pancEts-1 in facilitating the β-catenin activity and downstream gene expression in NB cells.
Supplementary Figure Legends from Long Noncoding RNA pancEts-1 Promotes Neuroblastoma Progression through hnRNPK-Mediated β-Catenin Stabilization
Authors: Li Dan , Wang Xiaojing , Mei Hong , Fang Erhu , Ye Lin , Song Huajie , Yang Feng , Li Huanhuan , Huang Kai , Zheng Liduan , Tong Qiangsong
Published: April 2023

Supplementary Figure Legends for Figures S1-S5.
Supplemental Figure S4 from Histone Deacetylase HDAC8 Promotes Insulin Resistance and β-Catenin Activation in NAFLD-Associated Hepatocellular Carcinoma
Authors: Tian Yuan , Wong Vincent W.S. , Wong Grace L.H. , Yang Weiqin , Sun Hanyong , Shen Jiayun , Tong Joanna H.M. , Go Minnie Y.Y. , Cheung Yue S. , Lai Paul B.S. , Zhou Mingyan , Xu Gang , Huang Tim H.M. , Yu Jun , To Ka F. , Cheng Alfred S.L. , Chan Henry L.Y.
Published: April 2023

Down-regulation of HDAC8 inhibits NAFLD-HCC tumorigenicity in vivo.
Video S3 from In Vivo Visualization and Characterization of Epithelial–Mesenchymal Transition in Breast Tumors
Authors: Zhao Zhen , Zhu Xiaoping , Cui Kemi , Mancuso James , Federley Richard , Fischer Kari , Teng Gao-jun , Mittal Vivek , Gao Dingcheng , Zhao Hong , Wong Stephen T.C.
Published: April 2023

A representative video showing the Zâ€�stack IVM images of a 8mmâ€�diameter pure RFP+ cellinjected tumor in the wild type mouse. Clusters of fibroblastâ€�like GFP+ cells were examined in the tumor.
Video S1 from In Vivo Visualization and Characterization of Epithelial–Mesenchymal Transition in Breast Tumors
Authors: Zhao Zhen , Zhu Xiaoping , Cui Kemi , Mancuso James , Federley Richard , Fischer Kari , Teng Gao-jun , Mittal Vivek , Gao Dingcheng , Zhao Hong , Wong Stephen T.C.
Published: April 2023

A representative video showing the Zâ€�stack IVM images of a 2cmâ€�diameter primary tumor of the triple transgenic mouse. Fibroblastâ€�like GFP+ and cuboidal GFP+ cells were examined in the tumor.
Figure S6 from GADD45β Loss Ablates Innate Immunosuppression in Cancer
Authors: Verzella Daniela , Bennett Jason , Fischietti Mariafausta , Thotakura Anil K. , Recordati Camilla , Pasqualini Fabio , Capece Daria , Vecchiotti Davide , D'Andrea Daniel , Di Francesco Barbara , De Maglie Marcella , Begalli Federica , Tornatore Laura , Papa Salvatore , Lawrence Toby , Forbes Stuart J. , Sica Antonio , Alesse Edoardo , Zazzeroni Francesca , Franzoso Guido
Published: April 2023

Gadd45b Loss Enhances Proinflammatory Macrophage Activation by Upregulating p38 Signalling
Figure S4 from GADD45β Loss Ablates Innate Immunosuppression in Cancer
Authors: Verzella Daniela , Bennett Jason , Fischietti Mariafausta , Thotakura Anil K. , Recordati Camilla , Pasqualini Fabio , Capece Daria , Vecchiotti Davide , D'Andrea Daniel , Di Francesco Barbara , De Maglie Marcella , Begalli Federica , Tornatore Laura , Papa Salvatore , Lawrence Toby , Forbes Stuart J. , Sica Antonio , Alesse Edoardo , Zazzeroni Francesca , Franzoso Guido
Published: April 2023

Host Reconstitution with BM-Derived Cells of Donor Origin
Differentiation stain using immunofluorescence from Inducing Differentiation of Premalignant Hepatic Cells as a Novel Therapeutic Strategy in Hepatocarcinoma
Authors: Wolf Benita , Krieg Kathrin , Falk Christine , Breuhahn Kai , Keppeler Hildegard , Biedermann Tilo , Schmid Evi , Warmann Steven , Fuchs Joerg , Vetter Silvia , Thiele Dennis , Nieser Maike , Avci-Adali Meltem , Skokowa Yulia , Schöls Ludger , Hauser Stefan , Ringelhan Marc , Yevsa Tetyana , Heikenwalder Mathias , Kossatz-Boehlert Uta
Published: April 2023

Supplemental Figure 2 data file
SUPPLEMENTARY METHODS from The Role of Cholesterol in Cancer
Authors: Kuzu Omer F. , Noory Mohammad A. , Robertson Gavin P.
Published: April 2023

DETAILS OF VARIOUS ANALYZES USED IN THE STUDY.
Supplementary Methods and References from Oncogenic Functions of Gli1 in Pancreatic Adenocarcinoma Are Supported by Its PRMT1-Mediated Methylation
Authors: Wang Yan , Hsu Jung-Mao , Kang Ya'an , Wei Yongkun , Lee Pei-Chih , Chang Shing-Jyh , Hsu Yi-Hsin , Hsu Jennifer L. , Wang Hung-Ling , Chang Wei-Chao , Li Chia-Wei , Liao Hsin-Wei , Chang Shih-Shin , Xia Weiya , Ko How-Wen , Chou Chao-Kai , Fleming Jason B. , Wang Huamin , Hwang Rosa F. , Chen Yue , Qin Jun , Hung Mien-Chie
Published: April 2023

Description of additional methods and procedures used in the study. Also includes Supplementary References.
Figure S1 from UGT2B17 Expedites Progression of Castration-Resistant Prostate Cancers by Promoting Ligand-Independent AR Signaling
Authors: Li Haolong , Xie Ning , Chen Ruiqi , Verreault Mélanie , Fazli Ladan , Gleave Martin E. , Barbier Olivier , Dong Xuesen
Published: April 2023

Figure S1: Construction of PCa cell lines using the lentiviral approach
Supplemental Materials and Methods from Acute Sensitivity of Ph-like Acute Lymphoblastic Leukemia to the SMAC-Mimetic Birinapant
Authors: Richmond Jennifer , Robbins Alissa , Evans Kathryn , Beck Dominik , Kurmasheva Raushan T. , Billups Catherine A. , Carol Hernan , Heatley Sue , Sutton Rosemary , Marshall Glenn M. , White Deborah , Pimanda John , Houghton Peter J. , Smith Malcolm A. , Lock Richard B.
Published: April 2023

This file contains supplemental methods on the PPTP scoring method.
Supplemental Figures and Tables from Acute Sensitivity of Ph-like Acute Lymphoblastic Leukemia to the SMAC-Mimetic Birinapant
Authors: Richmond Jennifer , Robbins Alissa , Evans Kathryn , Beck Dominik , Kurmasheva Raushan T. , Billups Catherine A. , Carol Hernan , Heatley Sue , Sutton Rosemary , Marshall Glenn M. , White Deborah , Pimanda John , Houghton Peter J. , Smith Malcolm A. , Lock Richard B.
Published: April 2023

This file contains supplemental figures on in vivo xenograft responses to birinapant, a supplemental figure on mouse tolerability to birinapant, and a supplemental figure on gene expression networks. It also contains a supplemental table on patient demographics, a supplemental table on in vivo xenograft responses to birinapant, a supplemental table on individual mouse responses to birinapant, a supplemental table on in vivo birinapant efficacy in drug combinations, and a supplemental table on differentially expressed genes.
Supplementary Figure S1 from In Vivo Imaging of Tumor Metabolism and Acidosis by Combining PET and MRI-CEST pH Imaging
Authors: Longo Dario L. , Bartoli Antonietta , Consolino Lorena , Bardini Paola , Arena Francesca , Schwaiger Markus , Aime Silvio
Published: April 2023

Immunofluorescence analysis of CD31expression in murine TS/A tumours.
Suppl Fig. 5 from Inhibiting Mitochondrial DNA Ligase IIIα Activates Caspase 1–Dependent Apoptosis in Cancer Cells
Authors: Sallmyr Annahita , Matsumoto Yoshihiro , Roginskaya Vera , Van Houten Bennett , Tomkinson Alan E.
Published: April 2023

Panel A. Effect of L67 on the cell cycle distribution of synchronized HCA-Ltrt cells. Panel B. Effect of L67 on mitochondrial superoxide level in HCA-Ltrt cells and HCA-Ltrt Rho minus cells
Supplementary Figure 1 from NRF2 Induction Supporting Breast Cancer Cell Survival Is Enabled by Oxidative Stress–Induced DPP3–KEAP1 Interaction
Authors: Lu Kevin , Alcivar Allen L. , Ma Jianglin , Foo Tzeh Keong , Zywea Susan , Mahdi Amar , Huo Yanying , Kensler Thomas W. , Gatza Michael L. , Xia Bing
Published: April 2023

Effect of N-acetylcystein (NAC) on the DPP3-KEAP1 interaction.
Suppl Fig. 2 from Inhibiting Mitochondrial DNA Ligase IIIα Activates Caspase 1–Dependent Apoptosis in Cancer Cells
Authors: Sallmyr Annahita , Matsumoto Yoshihiro , Roginskaya Vera , Van Houten Bennett , Tomkinson Alan E.
Published: April 2023

Panel A. Characterization of HeLA cells expressing mitochondrially-targeted E. coli DNA ligase. DNA encoding the E. coli DNA detected by PCR and expression of GFP-tagged E. coli DNA ligase detected by immunoblotting. Panel B. Effect of L67 on DNA ligation by purified DN Ligase IIIalpha/XRCC1 and E.coli DNA ligase
Suppl Figure legend from Deletion of Lactate Dehydrogenase-A in Myeloid Cells Triggers Antitumor Immunity
Authors: Seth Pankaj , Csizmadia Eva , Hedblom Andreas , Vuerich Marta , Xie Han , Li Mailin , Longhi Maria Serena , Wegiel Barbara
Published: April 2023

Suppl Figure legends
Supplementary Table S3 from High-Order Drug Combinations Are Required to Effectively Kill Colorectal Cancer Cells
Authors: Horn Thomas , Ferretti Stéphane , Ebel Nicolas , Tam Angela , Ho Samuel , Harbinski Fred , Farsidjani Ali , Zubrowski Matthew , Sellers William R. , Schlegel Robert , Porter Dale , Morris Erick , Wuerthner Jens , Jeay Sébastien , Greshock Joel , Halilovic Ensar , Garraway Levi A. , Caponigro Giordano , Lehár Joseph
Published: April 2023

Selective single agents and combinations.
Merged Supplementary Figures and Text from Deletion of Lactate Dehydrogenase-A in Myeloid Cells Triggers Antitumor Immunity
Authors: Seth Pankaj , Csizmadia Eva , Hedblom Andreas , Vuerich Marta , Xie Han , Li Mailin , Longhi Maria Serena , Wegiel Barbara
Published: April 2023

Supplementary Figures 1-7 and Supplementary Figure legends
Supplementary Table S2 from High-Order Drug Combinations Are Required to Effectively Kill Colorectal Cancer Cells
Authors: Horn Thomas , Ferretti Stéphane , Ebel Nicolas , Tam Angela , Ho Samuel , Harbinski Fred , Farsidjani Ali , Zubrowski Matthew , Sellers William R. , Schlegel Robert , Porter Dale , Morris Erick , Wuerthner Jens , Jeay Sébastien , Greshock Joel , Halilovic Ensar , Garraway Levi A. , Caponigro Giordano , Lehár Joseph
Published: April 2023

Compounds used in this study.
Figure S5 from Deletion of Lactate Dehydrogenase-A in Myeloid Cells Triggers Antitumor Immunity
Authors: Seth Pankaj , Csizmadia Eva , Hedblom Andreas , Vuerich Marta , Xie Han , Li Mailin , Longhi Maria Serena , Wegiel Barbara
Published: April 2023

NO-mediated regulation of PDL-1 in cancer cells.
Figure S4 from Deletion of Lactate Dehydrogenase-A in Myeloid Cells Triggers Antitumor Immunity
Authors: Seth Pankaj , Csizmadia Eva , Hedblom Andreas , Vuerich Marta , Xie Han , Li Mailin , Longhi Maria Serena , Wegiel Barbara
Published: April 2023

LDH-A deletion resets tumor microenvironment.
Supplementary Figure S5 from HER2 and EGFR Overexpression Support Metastatic Progression of Prostate Cancer to Bone
Authors: Day Kathleen C. , Hiles Guadalupe Lorenzatti , Kozminsky Molly , Dawsey Scott J. , Paul Alyssa , Broses Luke J. , Shah Rajal , Kunja Lakshmi P. , Hall Christopher , Palanisamy Nallasivam , Daignault-Newton Stephanie , El-Sawy Layla , Wilson Steven James , Chou Andrew , Ignatoski Kathleen Woods , Keller Evan , Thomas Dafydd , Nagrath Sunitha , Morgan Todd , Day Mark L.
Published: April 2023

Tibia xenograft histology of lapatinib, and cetuximab+trastuzumab treated animals.
Figure S1 from Deletion of Lactate Dehydrogenase-A in Myeloid Cells Triggers Antitumor Immunity
Authors: Seth Pankaj , Csizmadia Eva , Hedblom Andreas , Vuerich Marta , Xie Han , Li Mailin , Longhi Maria Serena , Wegiel Barbara
Published: April 2023

Lack of LDH-A results in M1 polarization and suppression of tumor growth.
Supplemental Materials and Methods from Development of a T-cell Receptor Mimic Antibody against Wild-Type p53 for Cancer Immunotherapy
Authors: Li Demin , Bentley Carol , Anderson Amanda , Wiblin Sarah , Cleary Kirstie L.S. , Koustoulidou Sofia , Hassanali Tasneem , Yates Jenna , Greig Jenny , Nordkamp Marloes Olde , Trenevska Iva , Ternette Nicola , Kessler Benedikt M. , Cornelissen Bart , Cragg Mark S. , Banham Alison H.
Published: April 2023

Supplemental Materials and Methods from Development of a T-cell Receptor Mimic Antibody against Wild-Type p53 for Cancer Immunotherapy
Supplemental Data from Development of a T-cell Receptor Mimic Antibody against Wild-Type p53 for Cancer Immunotherapy
Authors: Li Demin , Bentley Carol , Anderson Amanda , Wiblin Sarah , Cleary Kirstie L.S. , Koustoulidou Sofia , Hassanali Tasneem , Yates Jenna , Greig Jenny , Nordkamp Marloes Olde , Trenevska Iva , Ternette Nicola , Kessler Benedikt M. , Cornelissen Bart , Cragg Mark S. , Banham Alison H.
Published: April 2023

Suppl Table 1: Quantitation of T1-116C binding sites per target cell; Suppl Figure 1: Validation of the HLA-A2/p53RMP tetramer; Suppl Figure 2: ELISA screening of HLA-A2/p53RMP tetramer-reactive TCRm hybridoma supernatants; Suppl Figure 3: T1-116C staining of HL-60 cells; Suppl Figure 4: TP53 transcripts levels in cancer cell lines; Suppl Figure 5: The proteasome actively turns over p53 in NCI-H1395 lung cancer cells; Suppl Figure 6: The p53 TCRm T1-116C does not stain normal human peripheral blood mononuclear cells (PBMCs).
Supplementary Figure S8. Dose dependent suppression of T-cell proliferation by breast cancer exosomes. from The Biodistribution and Immune Suppressive Effects of Breast Cancer–Derived Exosomes
Authors: Wen Shu Wen , Sceneay Jaclyn , Lima Luize Goncalves , Wong Christina S.F. , Becker Melanie , Krumeich Sophie , Lobb Richard J. , Castillo Vanessa , Wong Ke Ni , Ellis Sarah , Parker Belinda S. , Möller Andreas
Published: April 2023

(A) Percentage of CD8, and CD4 T-cell death after exposure to EO771 exosomes as assessed by staining with the 7-aminoactinomycin D (7-AAD) viability dye. 1 μg of EO771 exosomes is equivalent to 7.9E9 particles. Representative histogram (flow cytometry profile) (left) and percentage of divided (right) (B) CD8+/CFSE+ T-cells, and (C) CD4+/CFSE+ T-cells following liposome treatment compared to PBS controls. The number of liposome particles is equivalent to 2 µg of EO771 exosomes (1.6E10), which was shown to significantly decrease T-cell proliferation. Results are presented as mean {plus minus} s.e.m. and analyzed by 2-tailed Mann-Whitney U-tests, and Holm-Sidak multiple testing correction method ***: p<0.001.
Supplementary Figure S1 from Preclinical Evidence That 3′-Deoxy-3′-[18F]Fluorothymidine PET Can Visualize Recovery of Hematopoiesis after Gemcitabine Chemotherapy
Authors: Schelhaas Sonja , Held Annelena , Bäumer Nicole , Viel Thomas , Hermann Sven , Müller-Tidow Carsten , Jacobs Andreas H.
Published: April 2023

Outline of the experimental schedule pursued.
Supplementary Figure S5 from The BRCA1-Δ11q Alternative Splice Isoform Bypasses Germline Mutations and Promotes Therapeutic Resistance to PARP Inhibition and Cisplatin
Authors: Wang Yifan , Bernhardy Andrea J. , Cruz Cristina , Krais John J. , Nacson Joseph , Nicolas Emmanuelle , Peri Suraj , van der Gulden Hanneke , van der Heijden Ingrid , O'Brien Shane W. , Zhang Yong , Harrell Maribel I. , Johnson Shawn F. , Candido Dos Reis Francisco J. , Pharoah Paul D. P. , Karlan Beth , Gourley Charlie , Lambrechts Diether , Chenevix-Trench Georgia , Olsson Håkan , Benitez Javier J. , Greene Mark H. , Gore Martin , Nussbaum Robert , Sadetzki Siegal , Gayther Simon A. , Kjaer Susanne K. , D'Andrea Alan D. , Shapiro Geoffrey I. , Wiest David L. , Connolly Denise C. , Daly Mary B. , Swisher Elizabeth M. , Bouwman Peter , Jonkers Jos , Balmaña Judith , Serra Violeta , Johnson Neil
Published: April 2023

Ectopic BRCA1-Deltaq expression promotes resistance in additional cell line backgrounds.
Table S1 from Beta-Blocker Drug Use and Survival among Patients with Pancreatic Adenocarcinoma
Authors: Udumyan Ruzan , Montgomery Scott , Fang Fang , Almroth Henrik , Valdimarsdottir Unnur , Ekbom Anders , Smedby Karin E. , Fall Katja
Published: April 2023

Lists β-blocking agents redeemed by the study cohort and associated ATC codes.
Supplementary Figure S3 from The BRCA1-Δ11q Alternative Splice Isoform Bypasses Germline Mutations and Promotes Therapeutic Resistance to PARP Inhibition and Cisplatin
Authors: Wang Yifan , Bernhardy Andrea J. , Cruz Cristina , Krais John J. , Nacson Joseph , Nicolas Emmanuelle , Peri Suraj , van der Gulden Hanneke , van der Heijden Ingrid , O'Brien Shane W. , Zhang Yong , Harrell Maribel I. , Johnson Shawn F. , Candido Dos Reis Francisco J. , Pharoah Paul D. P. , Karlan Beth , Gourley Charlie , Lambrechts Diether , Chenevix-Trench Georgia , Olsson Håkan , Benitez Javier J. , Greene Mark H. , Gore Martin , Nussbaum Robert , Sadetzki Siegal , Gayther Simon A. , Kjaer Susanne K. , D'Andrea Alan D. , Shapiro Geoffrey I. , Wiest David L. , Connolly Denise C. , Daly Mary B. , Swisher Elizabeth M. , Bouwman Peter , Jonkers Jos , Balmaña Judith , Serra Violeta , Johnson Neil
Published: April 2023

BRCA1-minigene analyses.
Supplementary Figure S2 from The BRCA1-Δ11q Alternative Splice Isoform Bypasses Germline Mutations and Promotes Therapeutic Resistance to PARP Inhibition and Cisplatin
Authors: Wang Yifan , Bernhardy Andrea J. , Cruz Cristina , Krais John J. , Nacson Joseph , Nicolas Emmanuelle , Peri Suraj , van der Gulden Hanneke , van der Heijden Ingrid , O'Brien Shane W. , Zhang Yong , Harrell Maribel I. , Johnson Shawn F. , Candido Dos Reis Francisco J. , Pharoah Paul D. P. , Karlan Beth , Gourley Charlie , Lambrechts Diether , Chenevix-Trench Georgia , Olsson Håkan , Benitez Javier J. , Greene Mark H. , Gore Martin , Nussbaum Robert , Sadetzki Siegal , Gayther Simon A. , Kjaer Susanne K. , D'Andrea Alan D. , Shapiro Geoffrey I. , Wiest David L. , Connolly Denise C. , Daly Mary B. , Swisher Elizabeth M. , Bouwman Peter , Jonkers Jos , Balmaña Judith , Serra Violeta , Johnson Neil
Published: April 2023

Genetic analyses of BRCA1 mutant cell lines and PDX models.
Supplementary Figure S1 from The BRCA1-Δ11q Alternative Splice Isoform Bypasses Germline Mutations and Promotes Therapeutic Resistance to PARP Inhibition and Cisplatin
Authors: Wang Yifan , Bernhardy Andrea J. , Cruz Cristina , Krais John J. , Nacson Joseph , Nicolas Emmanuelle , Peri Suraj , van der Gulden Hanneke , van der Heijden Ingrid , O'Brien Shane W. , Zhang Yong , Harrell Maribel I. , Johnson Shawn F. , Candido Dos Reis Francisco J. , Pharoah Paul D. P. , Karlan Beth , Gourley Charlie , Lambrechts Diether , Chenevix-Trench Georgia , Olsson Håkan , Benitez Javier J. , Greene Mark H. , Gore Martin , Nussbaum Robert , Sadetzki Siegal , Gayther Simon A. , Kjaer Susanne K. , D'Andrea Alan D. , Shapiro Geoffrey I. , Wiest David L. , Connolly Denise C. , Daly Mary B. , Swisher Elizabeth M. , Bouwman Peter , Jonkers Jos , Balmaña Judith , Serra Violeta , Johnson Neil
Published: April 2023

BRCA1-Delta11q mRNA and protein isoform.
Supplementary figure legends from Epigenetic Switch between SOX2 and SOX9 Regulates Cancer Cell Plasticity
Authors: Lin Sheng-Chieh , Chou Yu-Ting , Jiang Shih Sheng , Chang Junn-Liang , Chung Chih-Hung , Kao Yu-Rung , Chang I-Shou , Wu Cheng-Wen
Published: April 2023

This file contains figure legends.
Supplementary Methods, FiguresS1-S6, Tables 1-5 from miR-34a and miR-34b/c Suppress Intestinal Tumorigenesis
Authors: Jiang Longchang , Hermeking Heiko
Published: April 2023

'Supplementary Methods Scoring of immunohistochemical detections Supplementary Figure S1 Related to Figure 1 Supplementary Figure S2 Related to Figure 3 Supplementary Figure S3 Gene Ontology and KEGG pathway analysis of up-regulated mRNAs Supplementary Figure S4 Gene Ontology and KEGG pathway analysis of down-regulated mRNAs Supplementary Figure S5 Effects of miR-34a/b/c deletion on barrier protein expression in adenomas of ApcMin/+ mice Supplementary Figure S6 Related to Figure 7 Supplementary Table 1 List of antibodies and reagents Supplementary Table 2 Primers used for cloning and sequencing of the 3''-UTR of murine Wasf1 Supplementary Table 3 List of primers used for qPCR Supplementary Table 4 Subset of selected, up-regulated mRNAs with miR-34 seed-matching sequences Supplementary Table 5 Univariate and age/gender/tumor grade-adjusted Cox proportional hazard analysis of selected up-regulated mRNAs with miR-34 seed-matching sequences and overall survival in the TCGA COAD cohort Supplementary Reference Reference in Supplementary Methods'
Supplementary Methods and References from Snail1-Dependent Activation of Cancer-Associated Fibroblast Controls Epithelial Tumor Cell Invasion and Metastasis
Authors: Alba-Castellón Lorena , Olivera-Salguero Rubén , Mestre-Farrera Aida , Peña Raúl , Herrera Mercedes , Bonilla Félix , Casal J. Ignacio , Baulida Josep , Peña Cristina , García de Herreros Antonio
Published: April 2023

Description of additional methods and procedures used in the study. Also includes Supplementary References.
Supplementary Figure Legend from Snail1-Dependent Activation of Cancer-Associated Fibroblast Controls Epithelial Tumor Cell Invasion and Metastasis
Authors: Alba-Castellón Lorena , Olivera-Salguero Rubén , Mestre-Farrera Aida , Peña Raúl , Herrera Mercedes , Bonilla Félix , Casal J. Ignacio , Baulida Josep , Peña Cristina , García de Herreros Antonio
Published: April 2023

Legend for Supplementary Figures S1-S14.
Supplementary Figure legends from MNX1 Is Oncogenically Upregulated in African-American Prostate Cancer
Authors: Zhang Li , Wang Jianghua , Wang Yongquan , Zhang Yiqun , Castro Patricia , Shao Longjiang , Sreekumar Arun , Putluri Nagireddy , Guha Nilanjan , Deepak Saligrama , Padmanaban Arunkumar , Creighton Chad J. , Ittmann Michael
Published: April 2023

Legends for Supplementary Figures 1 and 2
Figures S1-S4 from Engineering and Functional Characterization of Fusion Genes Identifies Novel Oncogenic Drivers of Cancer
Authors: Lu Hengyu , Villafane Nicole , Dogruluk Turgut , Grzeskowiak Caitlin L. , Kong Kathleen , Tsang Yiu Huen , Zagorodna Oksana , Pantazi Angeliki , Yang Lixing , Neill Nicholas J. , Kim Young Won , Creighton Chad J. , Verhaak Roel G. , Mills Gordon B. , Park Peter J. , Kucherlapati Raju , Scott Kenneth L.
Published: April 2023

Fusion expression detection by PCR (S1); MET fusion expression and signaling activation by immunoblot and N-terminal partner control assay (S2); NTRK2 fusion expression and signaling activation by immunoblot and N-terminal partner control assay (S3); Expression of BRAF fusion N-terminal partner controls and BRAF structure-function studies by immunoblot and qPCR (S4)
Supplementary Table S2 from p62/SQSTM1 Cooperates with Hyperactive mTORC1 to Regulate Glutathione Production, Maintain Mitochondrial Integrity, and Promote Tumorigenesis
Authors: Lam Hilaire C. , Baglini Christian V. , Lope Alicia Llorente , Parkhitko Andrey A. , Liu Heng-Jia , Alesi Nicola , Malinowska Izabela A. , Ebrahimi-Fakhari Darius , Saffari Afshin , Yu Jane J. , Pereira Ana , Khabibullin Damir , Ogorek Barbara , Nijmeh Julie , Kavanagh Taylor , Handen Adam , Chan Stephen Y. , Asara John M. , Oldham William M. , Diaz-Meco Maria T. , Moscat Jorge , Sahin Mustafa , Priolo Carmen , Henske Elizabeth P.
Published: April 2023

Oxidative stress genes regulated by p62
Supplementary Table 1 from A Transcriptional Signature Identifies LKB1 Functional Status as a Novel Determinant of MEK Sensitivity in Lung Adenocarcinoma
Authors: Kaufman Jacob M. , Yamada Tadaaki , Park Kyungho , Timmers Cynthia D. , Amann Joseph M. , Carbone David P.
Published: April 2023

LKB1 loss signature in cell lines
Supplementary Figure S5 from IL4 Primes the Dynamics of Breast Cancer Progression via DUSP4 Inhibition
Authors: Gaggianesi Miriam , Turdo Alice , Chinnici Aurora , Lipari Elisa , Apuzzo Tiziana , Benfante Antonina , Sperduti Isabella , Di Franco Simone , Meraviglia Serena , Lo Presti Elena , Dieli Francesco , Caputo Valentina , Militello Gabriella , Vieni Salvatore , Stassi Giorgio , Todaro Matilde
Published: April 2023

IL-4 contributes to the pro-tumorigenic breast cancer milieu
Supplementary Figure S1 from IL4 Primes the Dynamics of Breast Cancer Progression via DUSP4 Inhibition
Authors: Gaggianesi Miriam , Turdo Alice , Chinnici Aurora , Lipari Elisa , Apuzzo Tiziana , Benfante Antonina , Sperduti Isabella , Di Franco Simone , Meraviglia Serena , Lo Presti Elena , Dieli Francesco , Caputo Valentina , Militello Gabriella , Vieni Salvatore , Stassi Giorgio , Todaro Matilde
Published: April 2023

IL-4 promotes the proliferation of breast cancer cells
Supplementary Materials and Methods, Supplementary Table 1, and Supplementary Figures 1 through 14 from An In Vivo Reporter to Quantitatively and Temporally Analyze the Effects of CDK4/6 Inhibitor-Based Therapies in Melanoma
Authors: Teh Jessica L.F. , Purwin Timothy J. , Greenawalt Evan J. , Chervoneva Inna , Goldberg Allison , Davies Michael A. , Aplin Andrew E.
Published: April 2023

Supplementary Materials and Methods. Supplemental Table 1. Summary of melanoma cell lines grouped for mutations in CDKN2A, CDK4, BRAF and NRAS. Supplemental Figure 1. Low concentrations of palbociclib inhibited phosphorylation of RB1 and cyclin A2 expression in sensitive cell lines but not in less sensitive lines. Supplemental Figure 2. Mean plasma concentration for palbociclib. Mice were treated with control chow or palbociclib for 8 or 15 days. Supplemental Figure 3. Sensitivity of melanoma cells to trametinib. GI50 values were generated from dose-dependent curves from MTT cell viability assays. Supplemental Figure 4. Enhanced PARP cleavage in BRAF and NRAS mutant cells treated with trametinib or trametinib plus palbociclib. Supplemental Figure 5. Clustergram and scatter plot generated from apoptosis PCR Array. Supplemental Figure 6. Endogenous levels of survivin in a panel of melanoma cell lines. Supplemental Figure 7. Representative tumor size of 1205Lu xenografts measured by tdTomato fluorescence activity. Supplemental Figure 8. Average weight (g) of mice bearing 1205Lu xenografts treated in each cohort. Supplemental Figure 9. Average weight (g) of mice bearing WM1366 xenografts treated in each cohort. Supplemental Figure 10. Modulation of E2F activity in combination treated mice bearing WM1366 xenografts that did not show complete response. Supplemental Figure 11. E2F reactivation in WM1366 xenografts precedes resistance to MEK inhibitor or CDK4/6 inhibitor as measured by tdTomato activity. Supplemental Figure 12. Residual tdTomato signal in 1205Lu tumors of mice showing complete response by lack of palpable tumor. Supplemental Figure 13. Two heat maps of the most significantly up (A) and down (B) regulated pathways for CDK-R vs MEK-R, Combo-R vs MEK-R and Combo-R vs CDKR. Supplemental Figure 14. Validation of proteins from the RPPA analysis heatmap in Figure 6.
Supplementary Figure S1 from Targeting of PYK2 Synergizes with EGFR Antagonists in Basal-like TNBC and Circumvents HER3-Associated Resistance via the NEDD4–NDRG1 Axis
Authors: Verma Nandini , Müller Anna-Katharina , Kothari Charu , Panayotopoulou Effrosini , Kedan Amir , Selitrennik Michael , Mills Gordon B. , Nguyen Lan K. , Shin Sungyoung , Karn Thomas , Holtrich Uwe , Lev Sima
Published: April 2023

Supplementary Figure 1. Effects of EGFR antagonists, FAK or PYK2/FAK inhibition/depletion on basal-like TNBC growth either alone or in combination.
Supplementary Materials and Methods and Supplementary Figures 1 through 5 from Multinuclear NMR and MRI Reveal an Early Metabolic Response to mTOR Inhibition in Sarcoma
Authors: Di Gialleonardo Valentina , Aldeborgh Hannah N. , Miloushev Vesselin , Folkers Kelly M. , Granlund Kristin , Tap William D. , Lewis Jason S. , Weber Wolfgang A. , Keshari Kayvan R.
Published: April 2023

Supplementary Materials and Methods. Figure S1. Major genetic alterations in of PI3K/AKT/mTOR pathway in 265 sarcoma tumors as summarized by TCGA using cBioPortal. Figure S2. Protein expression level detected with Western blot. Lactate Dehydrogenase (LDH), phosphorylated-LDH (p-LDH) and beta actin as a loading control. Figure S3. A) Metabolic profile of total and labeled intracellular B) and extracellular pool size of vehicle vs. rapamycin treated GIST-T1, DDLS, JJ012 and CS1. Last column on both panels shows the fractional enrichment of each metabolite analyzed. Figure S4. Bar plots represent the ratio of A) HP alanine/(HP total carbon) and B) HP bicarbonate/(HP total carbon) in CS1 tumor treated for 24 hours with 6% DMSO (black) and 15mg/kg of rapamycin (red). Figure S5. A) Intracellular concentration of ATP and B) NADPH of DMSO control (black) vs. rapamycin (red) treated GIST-T1, DDLS, JJ012 and CS1.
Supplementary Material from Modulation of Immune Checkpoints and Graft-versus-Leukemia in Allogeneic Transplants by Antagonizing Vasoactive Intestinal Peptide Signaling
Authors: Li Jian-Ming , Petersen Christopher T. , Li Jing-Xia , Panjwani Reema , Chandra Daniel J. , Giver Cynthia R. , Blazar Bruce R. , Waller Edmund K.
Published: April 2023

Supplementary Methods, Supplementary Figure S1, Transplantation of VIP-KO cells or treatment with VIPhyb did not increase GVHD; Supplementary Figure S2, VIPhyb did not suppress lymphoblastic leukemia growth in vitro; Supplementary Figure S3, VIPhyb-treatment reprogramed homing patterns of donor T-cells in allo-BMT recipients; Supplementary Figure S4, VIPhyb-treatment enhanced expression of co-stimulatory and effector molecules after allo-BMT; Supplementary Figure S5, VIPhyb treated allo-BMT recipients were resistant to leukemia re-challenge; Supplementary Figure S6, VIPhyb-treatment led to increased expression of effector molecules and reduced expression of co-inhibitory molecules after leukemia re-challenge; Supplementary Figure S7, VIPhyb treatment increased levels of donor TCM in allo-BMT recipients; Supplementary Table S1. Mice with GvL had distinct oligoclonal TCR-ÃŽÂ² sequences versus GvHD mice.
Supplementary Figure 7 from αvβ6 Integrin Promotes Castrate-Resistant Prostate Cancer through JNK1-Mediated Activation of Androgen Receptor
Authors: Lu Huimin , Wang Tao , Li Jing , Fedele Carmine , Liu Qin , Zhang Jianzhong , Jiang Zhong , Jain Dhanpat , Iozzo Renato V. , Violette Shelia M. , Weinreb Paul H. , Davis Roger J. , Gioeli Daniel , FitzGerald Thomas J. , Altieri Dario C. , Languino Lucia R.
Published: April 2023

Full-size scans of PSA immunoblots shown in Figure 5.
Supplementary Table 1 from Improving the Performance of Somatic Mutation Identification by Recovering Circulating Tumor DNA Mutations
Authors: Fu Yu , Jovelet Cécile , Filleron Thomas , Pedrero Marion , Motté Nelly , Boursin Yannick , Luo Yufei , Massard Christophe , Campone Mario , Levy Christelle , Diéras Véronique , Bachelot Thomas , Garrabey Julie , Soria Jean-Charles , Lacroix Ludovic , André Fabrice , Lefebvre Celine
Published: April 2023

Summary of normal control sample type in a set of whole exome sequencing data in TCGA