bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figures 1-7 from Host miR155 Promotes Tumor Growth through a Myeloid-Derived Suppressor Cell–Dependent Mechanism
Authors: Chen Siqi , Wang Long , Fan Jie , Ye Cong , Dominguez Donye , Zhang Yi , Curiel Tyler J. , Fang Deyu , Kuzel Timothy M. , Zhang Bin
Published: March 2023

Supplemental Figure 1. Tumor growth in miR-155-deficient mice. Supplemental Figure 2. Host miR-155 deficiency enhanced antigen-specific antitumor T cell immunity. Supplemental Figure 3. miR-155 is required for optimal function of DCs and T cells from tumor-bearing mice. Supplemental Figure 4. miR-155 is required for splenic MDSC accumulation in different tumor models. Supplemental Figure 5. miR-155 regulates BM-derived MDSC. Supplemental Figure 6. Decreased accumulation of Tregs in miR-155- deficient tumor-bearing mice. Supplemental Figure 7. Suppressive activity and tumor-promoting role of miR-155-deficient Tregs.
Supplemental Figure Legends from PD-1/SHP-2 Inhibits Tc1/Th1 Phenotypic Responses and the Activation of T Cells in the Tumor Microenvironment
Authors: Li Jing , Jie Hyun-Bae , Lei Yu , Gildener-Leapman Neil , Trivedi Sumita , Green Tony , Kane Lawrence P. , Ferris Robert L.
Published: March 2023

Supplemental Figure Legends. Legends for Supplemental Figures S1-S3.
Supplemental Figures S1-S6 from Imaging Active Urokinase Plasminogen Activator in Prostate Cancer
Authors: LeBeau Aaron M. , Sevillano Natalia , Markham Kate , Winter Michael B. , Murphy Stephanie T. , Hostetter Daniel R. , West James , Lowman Henry , Craik Charles S. , VanBrocklin Henry F.
Published: March 2023

Supplemental Figures S1-S6. U33 Fab Sequence (S1); Inhibition constant calculation of U33 Fab (S2); U33 does not bind to the uPA-PAI1 complex (S3); Selectivity of U33 IgG for active uPA versus inactive uPA (S4); Dependence of U33 IgG binding on an accessible uPA active site (S5); Selectivity of U33 IgG for human uPA compared to highly related serine proteases (S6).
Supplementary Figure 2 from Genetic Mutation of p53 and Suppression of the miR-17∼92 Cluster Are Synthetic Lethal in Non–Small Cell Lung Cancer due to Upregulation of Vitamin D Signaling
Authors: Borkowski Robert , Du Liqin , Zhao Zhenze , McMillan Elizabeth , Kosti Adam , Yang Chin-Rang , Suraokar Milind , Wistuba Ignacio I. , Gazdar Adi F. , Minna John D. , White Michael A. , Pertsemlidis Alexander
Published: March 2023

Supplementary Figure 2. Expression and response in cells derived from a mouse model of adenocarcinoma.
Supplementary figure 5 from Ceacam1L Modulates STAT3 Signaling to Control the Proliferation of Glioblastoma-Initiating Cells
Authors: Kaneko Sadahiro , Nakatani Yuka , Takezaki Tatsuya , Hide Takuichiro , Yamashita Daisuke , Ohtsu Naoki , Ohnishi Takanori , Terasaka Shunsuke , Houkin Kiyohiro , Kondo Toru
Published: March 2023

Supplementary figure 5. Overexpression of ceacam1L made hGICs to be TMZ-resistance
Supplementary figure 2 from Ceacam1L Modulates STAT3 Signaling to Control the Proliferation of Glioblastoma-Initiating Cells
Authors: Kaneko Sadahiro , Nakatani Yuka , Takezaki Tatsuya , Hide Takuichiro , Yamashita Daisuke , Ohtsu Naoki , Ohnishi Takanori , Terasaka Shunsuke , Houkin Kiyohiro , Kondo Toru
Published: March 2023

Supplementary figure 2. Knockdown efficiency of ceacam1 shRNAs
Supplementary Table S9 from Identification of P450 Oxidoreductase as a Major Determinant of Sensitivity to Hypoxia-Activated Prodrugs
Authors: Hunter Francis W. , Young Richard J. , Shalev Zvi , Vellanki Ravi N. , Wang Jingli , Gu Yongchuan , Joshi Naveen , Sreebhavan Sreevalsan , Weinreb Ilan , Goldstein David P. , Moffat Jason , Ketela Troy , Brown Kevin R. , Koritzinsky Marianne , Solomon Benjamin , Rischin Danny , Wilson William R. , Wouters Bradly G.
Published: March 2023

Output of genome-scale shRNA screen in HKO2.
Supplementary Figures S1-S5 from TGFβ Treatment Enhances Glioblastoma Virotherapy by Inhibiting the Innate Immune Response
Authors: Han Jianfeng , Chen Xilin , Chu Jianhong , Xu Bo , Meisen Walter H. , Chen Lichao , Zhang Lingling , Zhang Jianying , He Xiaoming , Wang Qi-En , Chiocca E. Antonio , Kaur Balveen , Caligiuri Michael A. , Yu Jianhua
Published: March 2023

TGFβ pretreatment decreases NK cell cytotoxicity against o-HSV infected glioblastoma cell lines and patient-derived glioblastoma stem-like cells (S1); TGFβ mediated inhibition of NK cell and macrophages/microglia intracranial infiltration persists 2 days after oHSV infection (S2); TGFβ pretreatment decreases spleen NK cell activity in 4C8 B6D2F1 mouse model in the presence of oHSV (S3); Virus titer, macrophages/microglia infiltration levels remain similar after NK cell depletion with an asialo-GM1 antibody (S4); A single dose TGFβ treatment in the absence of oHSV is not oncogenic (S5).
Supplementary Table S3 from Identification of P450 Oxidoreductase as a Major Determinant of Sensitivity to Hypoxia-Activated Prodrugs
Authors: Hunter Francis W. , Young Richard J. , Shalev Zvi , Vellanki Ravi N. , Wang Jingli , Gu Yongchuan , Joshi Naveen , Sreebhavan Sreevalsan , Weinreb Ilan , Goldstein David P. , Moffat Jason , Ketela Troy , Brown Kevin R. , Koritzinsky Marianne , Solomon Benjamin , Rischin Danny , Wilson William R. , Wouters Bradly G.
Published: March 2023

Primer sequences for evaluating shRNA-mediated knockdown of POR by quantitative real-time PCR.
Supplemental Figure 3 from BH3 Inhibitor Sensitivity and Bcl-2 Dependence in Primary Acute Lymphoblastic Leukemia Cells
Authors: Alford Sarah E. , Kothari Anisha , Loeff Floris C. , Eichhorn Joshua M. , Sakurikar Nandini , Goselink Henriette M. , Saylors Robert L. , Jedema Inge , Falkenburg J.H. Frederik , Chambers Timothy C.
Published: March 2023

Supplemental Figure 3: BH3 mimetics induce rapid apoptotic death in primary ALL cells.
Supplemental Methods from miR-339-3p Is a Tumor Suppressor in Melanoma
Authors: Weber Claudia E.M. , Luo Chonglin , Hotz-Wagenblatt Agnes , Gardyan Adriane , Kordaß Theresa , Holland-Letz Tim , Osen Wolfram , Eichmüller Stefan B.
Published: March 2023

Transfection of melanoma cells with small nucleotides; isolation of total RNA; reverse transcription and qPCR; luciferase reporter assay; Western blot analysis; bioinformatics; statistics.
Supplementary Figure 2 from Disrupting Hypoxia-Induced Bicarbonate Transport Acidifies Tumor Cells and Suppresses Tumor Growth
Authors: McIntyre Alan , Hulikova Alzbeta , Ledaki Ioanna , Snell Cameron , Singleton Dean , Steers Graham , Seden Peter , Jones Dylan , Bridges Esther , Wigfield Simon , Li Ji-Liang , Russell Angela , Swietach Pawel , Harris Adrian L.
Published: March 2023

Hypoxic induction of bicarbonate transporters in Ls174T between 24 and 96 hours.
Supplementary Figure Legends from Epigenetic Silencing of miR-490-3p Reactivates the Chromatin Remodeler SMARCD1 to Promote Helicobacter pylori–Induced Gastric Carcinogenesis
Authors: Shen Jing , Xiao Zhangang , Wu William K.K. , Wang Maggie H. , To Ka F. , Chen Yangchao , Yang Weiqin , Li May S.M. , Shin Vivian Y. , Tong Joanna H. , Kang Wei , Zhang Lin , Li Minxing , Wang Lin , Lu Lan , Chan Ruby L.Y. , Wong Sunny H. , Yu Jun , Chan Matthew T.V. , Chan Francis K.L. , Sung Joseph J.Y. , Cheng Alfred S.L. , Cho Chi H.
Published: March 2023

Supplementary Figure Legends
Supplementary Figure S6 from Reprogramming of the ERRα and ERα Target Gene Landscape Triggers Tamoxifen Resistance in Breast Cancer
Authors: Thewes Verena , Simon Ronald , Schroeter Petra , Schlotter Magdalena , Anzeneder Tobias , Büttner Reinhard , Benes Vladimir , Sauter Guido , Burwinkel Barbara , Nicholson Robert I. , Sinn Hans-Peter , Schneeweiss Andreas , Deuschle Ulrich , Zapatka Marc , Heck Stefanie , Lichter Peter
Published: March 2023

Supplementary Figure S6. Immunohistochemical stainings of ERRalpha in primary ERalpha-positive breast carcinomas on a tissue microarray (n=1041).
Supplementary Figure S5 from Reprogramming of the ERRα and ERα Target Gene Landscape Triggers Tamoxifen Resistance in Breast Cancer
Authors: Thewes Verena , Simon Ronald , Schroeter Petra , Schlotter Magdalena , Anzeneder Tobias , Büttner Reinhard , Benes Vladimir , Sauter Guido , Burwinkel Barbara , Nicholson Robert I. , Sinn Hans-Peter , Schneeweiss Andreas , Deuschle Ulrich , Zapatka Marc , Heck Stefanie , Lichter Peter
Published: March 2023

Supplementary Figure S5. Co-administration of anti-estrogens upon lentiviral-mediated ERRÃŽÂ± knockdown.
Supplementary Figure S3 from Reprogramming of the ERRα and ERα Target Gene Landscape Triggers Tamoxifen Resistance in Breast Cancer
Authors: Thewes Verena , Simon Ronald , Schroeter Petra , Schlotter Magdalena , Anzeneder Tobias , Büttner Reinhard , Benes Vladimir , Sauter Guido , Burwinkel Barbara , Nicholson Robert I. , Sinn Hans-Peter , Schneeweiss Andreas , Deuschle Ulrich , Zapatka Marc , Heck Stefanie , Lichter Peter
Published: March 2023

Supplementary Figure S3. ChIP-Seq validation by qRT-PCR.
Supplementary Figure S1 from Reprogramming of the ERRα and ERα Target Gene Landscape Triggers Tamoxifen Resistance in Breast Cancer
Authors: Thewes Verena , Simon Ronald , Schroeter Petra , Schlotter Magdalena , Anzeneder Tobias , Büttner Reinhard , Benes Vladimir , Sauter Guido , Burwinkel Barbara , Nicholson Robert I. , Sinn Hans-Peter , Schneeweiss Andreas , Deuschle Ulrich , Zapatka Marc , Heck Stefanie , Lichter Peter
Published: March 2023

Supplementary Figure S1. Effects of anti-estrogens on cell proliferation in MCF-7 #Wt, #TamR and #FulvR cells.
Supplementary Figure 5 from Suppression of Intratumoral CCL22 by Type I Interferon Inhibits Migration of Regulatory T Cells and Blocks Cancer Progression
Authors: Anz David , Rapp Moritz , Eiber Stephan , Koelzer Viktor H. , Thaler Raffael , Haubner Sascha , Knott Max , Nagel Sarah , Golic Michaela , Wiedemann Gabriela M. , Bauernfeind Franz , Wurzenberger Cornelia , Hornung Veit , Scholz Christoph , Mayr Doris , Rothenfusser Simon , Endres Stefan , Bourquin Carole
Published: March 2023

Supplementary Figure 5-CCL22 secretion of human tumor cell lines upon IFN-γ stimulation.
Supplementary Figure 1 from Suppression of Intratumoral CCL22 by Type I Interferon Inhibits Migration of Regulatory T Cells and Blocks Cancer Progression
Authors: Anz David , Rapp Moritz , Eiber Stephan , Koelzer Viktor H. , Thaler Raffael , Haubner Sascha , Knott Max , Nagel Sarah , Golic Michaela , Wiedemann Gabriela M. , Bauernfeind Franz , Wurzenberger Cornelia , Hornung Veit , Scholz Christoph , Mayr Doris , Rothenfusser Simon , Endres Stefan , Bourquin Carole
Published: March 2023

Supplementary Figure 1-Treatment with CpG causes a reduction of Treg within the CD4 T cell population and an increase of CD8+ tumor-infiltrating cells.
Legends for Supplementary Figures from Suppression of Intratumoral CCL22 by Type I Interferon Inhibits Migration of Regulatory T Cells and Blocks Cancer Progression
Authors: Anz David , Rapp Moritz , Eiber Stephan , Koelzer Viktor H. , Thaler Raffael , Haubner Sascha , Knott Max , Nagel Sarah , Golic Michaela , Wiedemann Gabriela M. , Bauernfeind Franz , Wurzenberger Cornelia , Hornung Veit , Scholz Christoph , Mayr Doris , Rothenfusser Simon , Endres Stefan , Bourquin Carole
Published: March 2023

Legends for Supplementary Figures
Supplementary Methods, Figure Legends from eIF4E Threshold Levels Differ in Governing Normal and Neoplastic Expansion of Mammary Stem and Luminal Progenitor Cells
Authors: Avdulov Svetlana , Herrera Jeremy , Smith Karen , Peterson Mark , Gomez-Garcia Jose R. , Beadnell Thomas C. , Schwertfeger Kathryn L. , Benyumov Alexey O. , Manivel J. Carlos , Li Shunan , Bielinsky Anja-Katrin , Yee Douglas , Bitterman Peter B. , Polunovsky Vitaly A.
Published: March 2023

Supplementary Methods, Figure Legends from eIF4E Threshold Levels Differ in Governing Normal and Neoplastic Expansion of Mammary Stem and Luminal Progenitor Cells
Supplementary Figure S1 from eIF4E Threshold Levels Differ in Governing Normal and Neoplastic Expansion of Mammary Stem and Luminal Progenitor Cells
Authors: Avdulov Svetlana , Herrera Jeremy , Smith Karen , Peterson Mark , Gomez-Garcia Jose R. , Beadnell Thomas C. , Schwertfeger Kathryn L. , Benyumov Alexey O. , Manivel J. Carlos , Li Shunan , Bielinsky Anja-Katrin , Yee Douglas , Bitterman Peter B. , Polunovsky Vitaly A.
Published: March 2023

Supplementary Fig. S1. Generation of WAP-4E transgenic mice.
Legends to Supplementary Figure from Accelerated Tumor Progression in Mice Lacking the ATP Receptor P2X7
Authors: Adinolfi Elena , Capece Marina , Franceschini Alessia , Falzoni Simonetta , Giuliani Anna L. , Rotondo Alessandra , Sarti Alba C. , Bonora Massimo , Syberg Susanne , Corigliano Domenica , Pinton Paolo , Jorgensen Niklas R. , Abelli Luigi , Emionite Laura , Raffaghello Lizzia , Pistoia Vito , Di Virgilio Francesco
Published: March 2023

Legends to Supplementary Figures
Supplemental Figure S1 from Akt Inhibition Enhances Expansion of Potent Tumor-Specific Lymphocytes with Memory Cell Characteristics
Authors: Crompton Joseph G. , Sukumar Madhusudhanan , Roychoudhuri Rahul , Clever David , Gros Alena , Eil Robert L. , Tran Eric , Hanada Ken-ichi , Yu Zhiya , Palmer Douglas C. , Kerkar Sid P. , Michalek Ryan D. , Upham Trevor , Leonardi Anthony , Acquavella Nicolas , Wang Ena , Marincola Francesco M. , Gattinoni Luca , Muranski Pawel , Sundrud Mark S. , Klebanoff Christopher A. , Rosenberg Steven A. , Fearon Douglas T. , Restifo Nicholas P.
Published: March 2023

Supplemental Figure S1. Clinical strategy to pharmacologically inhibit Akt during ex vivo expansion of tumor-infiltrating lymphocytes (TIL).
Supplementary Figure S2 from UV-Associated Mutations Underlie the Etiology of MCV-Negative Merkel Cell Carcinomas
Authors: Wong Stephen Q. , Waldeck Kelly , Vergara Ismael A. , Schröder Jan , Madore Jason , Wilmott James S. , Colebatch Andrew J. , De Paoli-Iseppi Ricardo , Li Jason , Lupat Richard , Semple Timothy , Arnau Gisela Mir , Fellowes Andrew , Leonard J. Helen , Hruby George , Mann Graham J. , Thompson John F. , Cullinane Carleen , Johnston Meredith , Shackleton Mark , Sandhu Shahneen , Bowtell David D.L. , Johnstone Ricky W. , Fox Stephen B. , McArthur Grant A. , Papenfuss Anthony T. , Scolyer Richard A. , Gill Anthony J. , Hicks Rodney J. , Tothill Richard W.
Published: March 2023

Western blot analysis of ERK and phosphorylated ERK in the MCC 14, MCC 13 and MCC26 Merkel cell carcinoma lines.
Supplementary Figure S4 from Immuno-PET Imaging of Engineered Human T Cells in Tumors
Authors: Mall Sabine , Yusufi Nahid , Wagner Ricarda , Klar Richard , Bianchi Henrique , Steiger Katja , Straub Melanie , Audehm Stefan , Laitinen Iina , Aichler Michaela , Peschel Christian , Ziegler Sibylle , Mustafa Mona , Schwaiger Markus , D'Alessandria Calogero , Krackhardt Angela M.
Published: March 2023

Investigation of uptake by biodistribution and autoradiography as well as stability of 89Zr-aTCRmu-F(ab')2 within a clinically relevant ML2-based myeloid sarcoma model of adoptive T-cell transfer
Supplementary Figure S5 from Targeting a Plk1-Controlled Polarity Checkpoint in Therapy-Resistant Glioblastoma-Propagating Cells
Authors: Lerner Robin G. , Grossauer Stefan , Kadkhodaei Banafsheh , Meyers Ian , Sidorov Maxim , Koeck Katharina , Hashizume Rintaro , Ozawa Tomoko , Phillips Joanna J. , Berger Mitchel S. , Nicolaides Theodore , James C. David , Petritsch Claudia K.
Published: March 2023

Sensitivity of CD133+ subpopulations to MAPK pathway inhibition.
Supplementary Figures S1-S10 from MicroRNA-22 Suppresses DNA Repair and Promotes Genomic Instability through Targeting of MDC1
Authors: Lee Jung-Hee , Park Seon-Joo , Jeong Seo-Yeon , Kim Min-Ji , Jun Semo , Lee Hyun-Seo , Chang In-Youb , Lim Sung-Chul , Yoon Sang Pil , Yong Jeongsik , You Ho Jin
Published: March 2023

Supplementary Figures S1-S10. Supplementary Figure S1. miR-22 negatively regulates MDC1 expression. Supplementary Figure S2. The effect of miR-22 on the IR-induced nuclear foci of MDC1, 53BP1, and BRCA1 in U2OS cells. Supplementary Figure S3. Reintroduction of MDC1 rescues miR-22-mediated inhibition of DSB repair in U2OS cells. Supplementary Figure S4. Genome-wide DNA copy number variation in the miR-22-overexpressing GM00637 cells. Supplementary Figure S5. miR-22 levels frequently increased in prostate cancer tissues with high pAkt and low MDC1 expression. Supplementary Figure S6. Busufan-induced premature senescence leads to suppression of MDC1 expression. Supplementary Figure S7. Impairment of IR-induced MDC1 foci formation in senescent cells. Supplementary Figure S8. Decline of DNA double-strand break (DSB) repair efficiency in senescent cells. Supplementary Figure S9. Rescue of MDC1 expression in senescent MRC-5 and IMR-90 cells by transfection of miR-22-insensitive MDC1. Supplementary Figure S10. Overexpression of miR-22 induces senescent-like phenotypes in human cancer cells.
Supplemental Figure 2 from Membrane IL1α Inhibits the Development of Hepatocellular Carcinoma via Promoting T- and NK-cell Activation
Authors: Lin Dandan , Lei Lei , Liu Yonghao , Zhang Yinsheng , Hu Bo , Bao Guangming , Song Yuan , Jin Ziqi , Liu Chunliang , Mei Yu , Sandikin Dedy , Wu Yan , Zhao Lixiang , Yu Xiao , Liu Haiyan
Published: March 2023

Supplemental Figure 2 IL-1α expression in human HCC tumor and the adjacent tissues.
Supplemental Figure S3 from Generation of a Mouse Model of Atypical Teratoid/Rhabdoid Tumor of the Central Nervous System through Combined Deletion of Snf5 and p53
Authors: Ng Jessica M.Y. , Martinez Daniel , Marsh Eric D. , Zhang Zhe , Rappaport Eric , Santi Mariarita , Curran Tom
Published: March 2023

NG2 expression in Snf5F/F p53L/L GFAP-Cre mutant brain tissue.
Supplemental Figures S1-S11 from PBX3 and MEIS1 Cooperate in Hematopoietic Cells to Drive Acute Myeloid Leukemias Characterized by a Core Transcriptome of the MLL-Rearranged Disease
Authors: Li Zejuan , Chen Ping , Su Rui , Hu Chao , Li Yuanyuan , Elkahloun Abdel G. , Zuo Zhixiang , Gurbuxani Sandeep , Arnovitz Stephen , Weng Hengyou , Wang Yungui , Li Shenglai , Huang Hao , Neilly Mary Beth , Wang Gang Greg , Jiang Xi , Liu Paul P. , Jin Jie , Chen Jianjun
Published: March 2023

Flow cytometry analysis of leukemic bone marrow cells from recipient mice of primary BM transplantation (S1); Comparison of leukemic latency between secondary BMT recipient mice transplanted with primary leukemic BM cells from two donor mice of each group (S2); Gene Set Enrichment Analysis of genes differentially expressed between different groups of samples (S3); Gene Set Enrichment Analysis of gene sets that are significantly differentially enriched between Group 2 samples and the PBX3+MEIS1 samples (S4); Analysis of genes significantly differentially expressed between three hierarchical clustering groups (S5); Heatmap of expression profiles of the 211 genes that are expressed at a significantly lower level in Group 3 than in both Groups 1 and 2 (S6); Heatmap of expression profiles of the 279 genes that are expressed at a significantly higher level in Group 2 than in both Groups 1 and 3 (S7); Heatmap of expression profiles of the 85 genes that are expressed at a significantly lower level in Group 2 than in both Groups 1 and 3 (S8); Heatmap of expression profiles of a set of 166 genes that are expressed at a significantly higher level in Group 1 than in both Groups 2 and 3, and are also associated with cell death/apoptosis and hematopoietic cell differentiation pathways according to DAVID analysis (S9); Heatmap of expression profiles of representative gene sets that are expressed at a significantly lower level in Group 3 samples than in both Groups 1 and 2 samples (S10); The effect of forced expression of HOXA9 on the expression of endogenous Hoxa genes in PBX3+MEIS1 AML cells (S11).
Supplementary Materials and Methods from MFG-E8 Drives Melanoma Growth by Stimulating Mesenchymal Stromal Cell–Induced Angiogenesis and M2 Polarization of Tumor-Associated Macrophages
Authors: Yamada Kazuya , Uchiyama Akihiko , Uehara Akihito , Perera Buddhini , Ogino Sachiko , Yokoyama Yoko , Takeuchi Yuko , Udey Mark C. , Ishikawa Osamu , Motegi Sei-ichiro
Published: March 2023

This file contains Supplementary Materials and Methods
supplementary figure and table legends from Comparative Cistromics Reveals Genomic Cross-talk between FOXA1 and ERα in Tamoxifen-Associated Endometrial Carcinomas
Authors: Droog Marjolein , Nevedomskaya Ekaterina , Kim Yongsoo , Severson Tesa , Flach Koen D. , Opdam Mark , Schuurman Karianne , Gradowska Patrycja , Hauptmann Michael , Dackus Gwen , Hollema Harry , Mourits Marian J. , Nederlof Petra , van Boven Hester , Linn Sabine C. , Wessels Lodewyk , van Leeuwen Flora E. , Zwart Wilbert
Published: March 2023

legends to supplementary tables and figures
Supplemental Figure 3 from SOX4 Is Essential for Prostate Tumorigenesis Initiated by PTEN Ablation
Authors: Bilir Birdal , Osunkoya Adeboye O. , Wiles W. Guy , Sannigrahi Soma , Lefebvre Veronique , Metzger Daniel , Spyropoulos Demetri D. , Martin W. David , Moreno Carlos S.
Published: March 2023

Supplemental Figure 3 Figure S3. Low power H&E images of wild-type, PTEN-/-, and PTEN-/-/SOX4-/- prostates.
Table S3 from Comparative Cistromics Reveals Genomic Cross-talk between FOXA1 and ERα in Tamoxifen-Associated Endometrial Carcinomas
Authors: Droog Marjolein , Nevedomskaya Ekaterina , Kim Yongsoo , Severson Tesa , Flach Koen D. , Opdam Mark , Schuurman Karianne , Gradowska Patrycja , Hauptmann Michael , Dackus Gwen , Hollema Harry , Mourits Marian J. , Nederlof Petra , van Boven Hester , Linn Sabine C. , Wessels Lodewyk , van Leeuwen Flora E. , Zwart Wilbert
Published: March 2023

Primer sequences corresponding with supplemental figure S2, to validate ChIP-seq on qPCR.
Supplemental Figure 1 from SOX4 Is Essential for Prostate Tumorigenesis Initiated by PTEN Ablation
Authors: Bilir Birdal , Osunkoya Adeboye O. , Wiles W. Guy , Sannigrahi Soma , Lefebvre Veronique , Metzger Daniel , Spyropoulos Demetri D. , Martin W. David , Moreno Carlos S.
Published: March 2023

Supplemental Figure 1 Figure S1. Breeding scheme for generation of prostate epithelium-specific Sox4 and Pten conditional double-knockout mice. Male PSA-CRE-ER/PTENfl/fl mice (1) were crossed with female Sox4fl/fl mice (2) and bred to homozygosity.
Figure S9 from Comparative Cistromics Reveals Genomic Cross-talk between FOXA1 and ERα in Tamoxifen-Associated Endometrial Carcinomas
Authors: Droog Marjolein , Nevedomskaya Ekaterina , Kim Yongsoo , Severson Tesa , Flach Koen D. , Opdam Mark , Schuurman Karianne , Gradowska Patrycja , Hauptmann Michael , Dackus Gwen , Hollema Harry , Mourits Marian J. , Nederlof Petra , van Boven Hester , Linn Sabine C. , Wessels Lodewyk , van Leeuwen Flora E. , Zwart Wilbert
Published: March 2023

Box plot, depicting interval time (years) between breast cancer diagnosis and endometrial cancer diagnosis and endometrial cancer diagnosis for patients who did not receive tamoxifen.
Figure S7 from Comparative Cistromics Reveals Genomic Cross-talk between FOXA1 and ERα in Tamoxifen-Associated Endometrial Carcinomas
Authors: Droog Marjolein , Nevedomskaya Ekaterina , Kim Yongsoo , Severson Tesa , Flach Koen D. , Opdam Mark , Schuurman Karianne , Gradowska Patrycja , Hauptmann Michael , Dackus Gwen , Hollema Harry , Mourits Marian J. , Nederlof Petra , van Boven Hester , Linn Sabine C. , Wessels Lodewyk , van Leeuwen Flora E. , Zwart Wilbert
Published: March 2023

Scatter plot showing the relationship between ERalpha (X-axis) and FOXA1 (Y-axis) staining
Figure S4 from Comparative Cistromics Reveals Genomic Cross-talk between FOXA1 and ERα in Tamoxifen-Associated Endometrial Carcinomas
Authors: Droog Marjolein , Nevedomskaya Ekaterina , Kim Yongsoo , Severson Tesa , Flach Koen D. , Opdam Mark , Schuurman Karianne , Gradowska Patrycja , Hauptmann Michael , Dackus Gwen , Hollema Harry , Mourits Marian J. , Nederlof Petra , van Boven Hester , Linn Sabine C. , Wessels Lodewyk , van Leeuwen Flora E. , Zwart Wilbert
Published: March 2023

Average normalized ERalpha ChIP-seq signal of endometrial and breast cancer specimens.
Figure S2 from Comparative Cistromics Reveals Genomic Cross-talk between FOXA1 and ERα in Tamoxifen-Associated Endometrial Carcinomas
Authors: Droog Marjolein , Nevedomskaya Ekaterina , Kim Yongsoo , Severson Tesa , Flach Koen D. , Opdam Mark , Schuurman Karianne , Gradowska Patrycja , Hauptmann Michael , Dackus Gwen , Hollema Harry , Mourits Marian J. , Nederlof Petra , van Boven Hester , Linn Sabine C. , Wessels Lodewyk , van Leeuwen Flora E. , Zwart Wilbert
Published: March 2023

ChIP-QPCR validation of ChIP-seq peaks found in endometrial cancer specimens.
Supplementary Tables 1 through 3 from p53 Loss in MYC-Driven Neuroblastoma Leads to Metabolic Adaptations Supporting Radioresistance
Authors: Yogev Orli , Barker Karen , Sikka Arti , Almeida Gilberto S. , Hallsworth Albert , Smith Laura M. , Jamin Yann , Ruddle Ruth , Koers Alexander , Webber Hannah T. , Raynaud Florence I. , Popov Sergey , Jones Chris , Petrie Kevin , Robinson Simon P. , Keun Hector C. , Chesler Louis
Published: March 2023

Supplementary Table 1. Median latency, penetration, tumor characteristics for Th-MYCN/Trp53WT/WT, Th-MYCN/Trp53KI/WT and Th-MYCN/Trp53KI/KI mice. Supplementary Table 2. Sequencing results for Trp53 exons 5-9. Supplementary Table 3. KEGG pathway analysis of genes differentially expressed in Th-MYCN/Trp53KI/KI tumors versus Th-MYCN/Trp53WT/WT tumors
Supplementary Info from PD-1 Blunts the Function of Ovarian Tumor–Infiltrating Dendritic Cells by Inactivating NF-κB
Authors: Karyampudi Lavakumar , Lamichhane Purushottam , Krempski James , Kalli Kimberly R. , Behrens Marshall D. , Vargas Doris M. , Hartmann Lynn C. , Janco Jo Marie T. , Dong Haidong , Hedin Karen E. , Dietz Allan B. , Goode Ellen L. , Knutson Keith L.
Published: March 2023

Supplementary methods and figures. Fig. 1:TIDCs obtained from the ascites from ovarian cancer patients express PD-1 mRNA. Fig. 2: TIDCs obtained from the ascites of ID8 tumor bearing mice express PD-1 mRNA.
Supplementary Materials and Methods from p53 Loss in MYC-Driven Neuroblastoma Leads to Metabolic Adaptations Supporting Radioresistance
Authors: Yogev Orli , Barker Karen , Sikka Arti , Almeida Gilberto S. , Hallsworth Albert , Smith Laura M. , Jamin Yann , Ruddle Ruth , Koers Alexander , Webber Hannah T. , Raynaud Florence I. , Popov Sergey , Jones Chris , Petrie Kevin , Robinson Simon P. , Keun Hector C. , Chesler Louis
Published: March 2023

Supplementary Materials and Methods
Supplementary Table S5 from miR-146b-5p within BCR-ABL1–Positive Microvesicles Promotes Leukemic Transformation of Hematopoietic Cells
Authors: Zhang Hong-Mei , Li Qing , Zhu Xiaojian , Liu Wei , Hu Hui , Liu Teng , Cheng Fanjun , You Yong , Zhong Zhaodong , Zou Ping , Li Qiubai , Chen Zhichao , Guo An-Yuan
Published: March 2023

Supplementary Table S5. GO enrichment for 8 cluters of DEGs
Supplementary Figure Legends from Ribosomal Protein Rpl22 Controls the Dissemination of T-cell Lymphoma
Authors: Rao Shuyun , Cai Kathy Q. , Stadanlick Jason E. , Greenberg-Kushnir Noa , Solanki-Patel Nehal , Lee Sang-Yun , Fahl Shawn P. , Testa Joseph R. , Wiest David L.
Published: March 2023

This file contains the legends fro supplementary figures 1-4.
Supplementary Table S2 from miR-146b-5p within BCR-ABL1–Positive Microvesicles Promotes Leukemic Transformation of Hematopoietic Cells
Authors: Zhang Hong-Mei , Li Qing , Zhu Xiaojian , Liu Wei , Hu Hui , Liu Teng , Cheng Fanjun , You Yong , Zhong Zhaodong , Zou Ping , Li Qiubai , Chen Zhichao , Guo An-Yuan
Published: March 2023

Supplementary Table S2. Summary of gene and miRNA expression by different expression level
Supplementary Figures and Tables from TMEM2 Is a SOX4-Regulated Gene That Mediates Metastatic Migration and Invasion in Breast Cancer
Authors: Lee Hyeseung , Goodarzi Hani , Tavazoie Sohail F. , Alarcón Claudio R.
Published: March 2023

Supplementary Figure S1 contains TMEM2 protein expression levels in human cancer. Supplementary Figure S2 contains quantification of mRNA levels of TMEM2 in the context of SOX4 knockdown or overexpression. Supplementary Figure S3 contains western blot quantification of TMEM2 in the TMEM2 knockdown cells. Supplementary Figure S4 contains the result of in vivo lung colonization assay done in CN34-LM1A cells with TMEM2 knockdown by an independent shRNA. Supplementary Table S1 contains primer information used in this study. Supplementary Table S2, S3, and S4 contain list of genes from each steps of systematic analyses done in this study.
Supplementary Figure Legends from TMEM2 Is a SOX4-Regulated Gene That Mediates Metastatic Migration and Invasion in Breast Cancer
Authors: Lee Hyeseung , Goodarzi Hani , Tavazoie Sohail F. , Alarcón Claudio R.
Published: March 2023

This file contains supplementary figure legends only.
Supplemental Material from An Integrated Analysis of Heterogeneous Drug Responses in Acute Myeloid Leukemia That Enables the Discovery of Predictive Biomarkers
Authors: Chen Weihsu C. , Yuan Julie S. , Xing Yan , Mitchell Amanda , Mbong Nathan , Popescu Andreea C. , McLeod Jessica , Gerhard Gitte , Kennedy James A. , Bogdanoski Goce , Lauriault Stevan , Perdu Sofie , Merkulova Yulia , Minden Mark D. , Hogge Donna E. , Guidos Cynthia , Dick John E. , Wang Jean C.Y.
Published: March 2023

Supplemental Methods Supplemental Table 1 Supplemental Figures 1-6 1. Pretreatment with cytarabine potentiates the effects of FED in AML xenografts. Supplemental Figure 2. PF cytometry analysis of AML samples. Supplemental Figure 3. Immunophenotypic and phosphoprotein signaling heterogeneity of AML patient samples. Supplemental Figure 4. PF analysis of validation cohort samples Supplemental Figure 5. Effects of FED treatment on FLT3 activity. Supplemental Figure 6. Effects of FED and DAS treatment on pSTAT5, pSRC and pTyr in BCR-ABL1+ AML samples. Supplemental Table 1: Characteristics of patient samples studied in initial and validation cohorts.
Supplementary figures 1-6 from CK2α' Drives Lung Cancer Metastasis by Targeting BRMS1 Nuclear Export and Degradation
Authors: Liu Yuan , Amin Elianna B. , Mayo Marty W. , Chudgar Neel P. , Bucciarelli Peter R. , Kadota Kyuichi , Adusumilli Prasad S. , Jones David R.
Published: March 2023

S1: TNF-induced phosphorylation of BRMS1 is independent of NF-κB. S2: CK2α' endogenously interacts with BRMS1. S3: 14-3-3ε interacts with BRMS1. S4: Activation of CK2α' enhances the invasion potential of NSCLC cells. S5: Activation of CK2α' is incapable of affecting primary tumor growth. S6: CK2α' kinase activity is increased in tumors with lymph nodal metastasis.
Supplementary Figure 8 from Galectin-3 Cleavage Alters Bone Remodeling: Different Outcomes in Breast and Prostate Cancer Skeletal Metastasis
Authors: Nakajima Kosei , Kho Dhong Hyo , Yanagawa Takashi , Harazono Yosuke , Hogan Victor , Chen Wei , Ali-Fehmi Rouba , Mehra Rohit , Raz Avraham
Published: March 2023

Cancer patient's IgG does not recognize CRD of Gal-3.
Supplemental Figure Legends from Aberrant Notch Signaling in the Bone Marrow Microenvironment of Acute Lymphoid Leukemia Suppresses Osteoblast-Mediated Support of Hematopoietic Niche Function
Authors: Wang Weihuan , Zimmerman Grant , Huang Xiaoran , Yu Shuiliang , Myers Jay , Wang Yiwei , Moreton Stephen , Nthale Joseph , Awadallah Amad , Beck Rose , Xin Wei , Wald David , Huang Alex Y. , Zhou Lan
Published: March 2023

Supplemental Figure Legends
Supplementary Figure 6 from Galectin-3 Cleavage Alters Bone Remodeling: Different Outcomes in Breast and Prostate Cancer Skeletal Metastasis
Authors: Nakajima Kosei , Kho Dhong Hyo , Yanagawa Takashi , Harazono Yosuke , Hogan Victor , Chen Wei , Ali-Fehmi Rouba , Mehra Rohit , Raz Avraham
Published: March 2023

Anti-CRD of Gal-3 inhibits osteoclast cell fusion.
Supplementary Figure 5 from Galectin-3 Cleavage Alters Bone Remodeling: Different Outcomes in Breast and Prostate Cancer Skeletal Metastasis
Authors: Nakajima Kosei , Kho Dhong Hyo , Yanagawa Takashi , Harazono Yosuke , Hogan Victor , Chen Wei , Ali-Fehmi Rouba , Mehra Rohit , Raz Avraham
Published: March 2023

Myosin-2A is a candidate for binding partner of Gal-3.
Supplementary Figure 3 from Galectin-3 Cleavage Alters Bone Remodeling: Different Outcomes in Breast and Prostate Cancer Skeletal Metastasis
Authors: Nakajima Kosei , Kho Dhong Hyo , Yanagawa Takashi , Harazono Yosuke , Hogan Victor , Chen Wei , Ali-Fehmi Rouba , Mehra Rohit , Raz Avraham
Published: March 2023

Mouse osteoclast precursor expresses and secretes endogenous Gal-3.
Supplementary Figure 2 from Galectin-3 Cleavage Alters Bone Remodeling: Different Outcomes in Breast and Prostate Cancer Skeletal Metastasis
Authors: Nakajima Kosei , Kho Dhong Hyo , Yanagawa Takashi , Harazono Yosuke , Hogan Victor , Chen Wei , Ali-Fehmi Rouba , Mehra Rohit , Raz Avraham
Published: March 2023

Human and Mouse osteoclast precursor cells express Gal-3.
Supplemental Figure 2 from STAT3 Establishes an Immunosuppressive Microenvironment during the Early Stages of Breast Carcinogenesis to Promote Tumor Growth and Metastasis
Authors: Jones Laura M. , Broz Miranda L. , Ranger Jill J. , Ozcelik John , Ahn Ryuhjin , Zuo Dongmei , Ursini-Siegel Josie , Hallett Michael T. , Krummel Matthew , Muller William J.
Published: March 2023

Supplemental Figure 2: Stat3flx/flx/MTB/MIC mammary glands transform slightly less than the Stat3wt/wt/MTB/MIC mice after 2 weeks of induction.
Supplemental Table 3 from Eradication of Acute Myeloid Leukemia with FLT3 Ligand–Targeted miR-150 Nanoparticles
Authors: Jiang Xi , Bugno Jason , Hu Chao , Yang Yang , Herold Tobias , Qi Jun , Chen Ping , Gurbuxani Sandeep , Arnovitz Stephen , Strong Jennifer , Ferchen Kyle , Ulrich Bryan , Weng Hengyou , Wang Yungui , Huang Hao , Li Shenglai , Neilly Mary Beth , Larson Richard A. , Le Beau Michelle M. , Bohlander Stefan K. , Jin Jie , Li Zejuan , Bradner James E. , Hong Seungpyo , Chen Jianjun
Published: March 2023

Effects of JQ1 and/or miR-150 nanoparticles on mouse blood cell differentiation four weeks after the last administration of drugs or control (PBS)
Supplementary Figures S1-S8 from Activation of the Lin28/let-7 Axis by Loss of ESE3/EHF Promotes a Tumorigenic and Stem-like Phenotype in Prostate Cancer
Authors: Albino Domenico , Civenni Gianluca , Dallavalle Cecilia , Roos Martina , Jahns Hartmut , Curti Laura , Rossi Simona , Pinton Sandra , D'Ambrosio Gioacchino , Sessa Fausto , Hall Jonathan , Catapano Carlo V. , Carbone Giuseppina M.
Published: March 2023

Knockdown of ESE3/EHF and let-7 miRNAs in immortalized human prostate epithelial cells (S1); Lin28 protein expression in xenografts of human prostate cancer cell lines (S2); Ablation and forced expression of Lin28A and Lin28B affect the phenotype of normal and prostate cancer cells (S3); Consequences of miR-let7b expression in prostate cancer cells (S4); Predicted ETS binding sites (EBS) in the promoters of five let-7 family members (S5); ESE3/EHF rescues the effects of forced expression of Lin28A on the CSC compartment in normal prostate epithelial cells (S6); Lin28A and Lin28B downregulation affect the phenotype of human prostate cancer cells (S7); Efficiency of Lin28B downregulation by the Lin28B-2 siRNA in DU145 cells (S8).
Supplemental Table 2 from Eradication of Acute Myeloid Leukemia with FLT3 Ligand–Targeted miR-150 Nanoparticles
Authors: Jiang Xi , Bugno Jason , Hu Chao , Yang Yang , Herold Tobias , Qi Jun , Chen Ping , Gurbuxani Sandeep , Arnovitz Stephen , Strong Jennifer , Ferchen Kyle , Ulrich Bryan , Weng Hengyou , Wang Yungui , Huang Hao , Li Shenglai , Neilly Mary Beth , Larson Richard A. , Le Beau Michelle M. , Bohlander Stefan K. , Jin Jie , Li Zejuan , Bradner James E. , Hong Seungpyo , Chen Jianjun
Published: March 2023

Effects of the nanoparticles on mouse blood cell differentiation two (A) or four (B) weeks after the last administration of nanoparticles or control (PBS)
Supplemental Table 1 from Eradication of Acute Myeloid Leukemia with FLT3 Ligand–Targeted miR-150 Nanoparticles
Authors: Jiang Xi , Bugno Jason , Hu Chao , Yang Yang , Herold Tobias , Qi Jun , Chen Ping , Gurbuxani Sandeep , Arnovitz Stephen , Strong Jennifer , Ferchen Kyle , Ulrich Bryan , Weng Hengyou , Wang Yungui , Huang Hao , Li Shenglai , Neilly Mary Beth , Larson Richard A. , Le Beau Michelle M. , Bohlander Stefan K. , Jin Jie , Li Zejuan , Bradner James E. , Hong Seungpyo , Chen Jianjun
Published: March 2023

Clinical and molecular characteristics of the AML patients in GSE37642 cohort
Supplementary Tables S1-S6 from Mass Spectrometry–Based Metabolomics Identifies Longitudinal Urinary Metabolite Profiles Predictive of Radiation-Induced Cancer
Authors: Cook John A. , Chandramouli Gadisetti V.R. , Anver Miriam R. , Sowers Anastasia L. , Thetford Angela , Krausz Kristopher W. , Gonzalez Frank J. , Mitchell James B. , Patterson Andrew D.
Published: March 2023

Distribution of neoplasm types between Control (0 Gy) and irradiated (5.4 Gy) mice (excluding outliers) ; Number of feature samples for various groups at different time intervals within 1 year ; Retention times and m/z ratios of quality controls and their standard errors ; Summary of Random Forest Classification ; Significant features (FDR<4.2%) in Control vs. IR comparison at any one of the four time groups ; Features Correlating with Pattern Matching from IRH, IRB, and IRS Neoplasms .
Supplemental Figures from Eradication of Acute Myeloid Leukemia with FLT3 Ligand–Targeted miR-150 Nanoparticles
Authors: Jiang Xi , Bugno Jason , Hu Chao , Yang Yang , Herold Tobias , Qi Jun , Chen Ping , Gurbuxani Sandeep , Arnovitz Stephen , Strong Jennifer , Ferchen Kyle , Ulrich Bryan , Weng Hengyou , Wang Yungui , Huang Hao , Li Shenglai , Neilly Mary Beth , Larson Richard A. , Le Beau Michelle M. , Bohlander Stefan K. , Jin Jie , Li Zejuan , Bradner James E. , Hong Seungpyo , Chen Jianjun
Published: March 2023

Supplemental Figure 1. Construction of G7-FLT3L dendrimers and their uptake ratio in AML cells. Supplemental Figure 2. G7 PAMAM dendrimers efficiently complex small, single stranded oligonucleotides. Supplemental Figure 3. G7-FLT3L-miR-150 nanoparticles repressed expression of direct or indirect target genes of miR-150 in vitro. Supplemental Figure 4. The specific targeting and inhibitory effect of G7-Flt3L-miR-150 nanoparticles to FLT3-overexpressing AML cells in vitro. Supplemental Figure 5. In vivo uptake and function of G7-Flt3L-miR-150 nanoparticles. Supplemental Figure 6. Analysis of the potential influence of the nanoparticles on hematopoietic system in normal mice.
Supplementary Methods and References from Mass Spectrometry–Based Metabolomics Identifies Longitudinal Urinary Metabolite Profiles Predictive of Radiation-Induced Cancer
Authors: Cook John A. , Chandramouli Gadisetti V.R. , Anver Miriam R. , Sowers Anastasia L. , Thetford Angela , Krausz Kristopher W. , Gonzalez Frank J. , Mitchell James B. , Patterson Andrew D.
Published: March 2023

Description of additional methods and procedures used in the study. Also includes Supplementary References.
Supplementary Figure S5 from Mass Spectrometry–Based Metabolomics Identifies Longitudinal Urinary Metabolite Profiles Predictive of Radiation-Induced Cancer
Authors: Cook John A. , Chandramouli Gadisetti V.R. , Anver Miriam R. , Sowers Anastasia L. , Thetford Angela , Krausz Kristopher W. , Gonzalez Frank J. , Mitchell James B. , Patterson Andrew D.
Published: March 2023

Six patterns of relative IRB, IRH and IRS levels considered for template matching.
Supplementary Figure S2 from Mass Spectrometry–Based Metabolomics Identifies Longitudinal Urinary Metabolite Profiles Predictive of Radiation-Induced Cancer
Authors: Cook John A. , Chandramouli Gadisetti V.R. , Anver Miriam R. , Sowers Anastasia L. , Thetford Angela , Krausz Kristopher W. , Gonzalez Frank J. , Mitchell James B. , Patterson Andrew D.
Published: March 2023

Comparison of metabolite profiles of 5.4 Gy (IR) to 0 Gy (Control) using 525 samples (Control = 141 from 17 mice, IR = 384 from 51 mice).
Supplementary Figure 9 from Maximizing the Efficacy of MAPK-Targeted Treatment in PTENLOF/BRAFMUT Melanoma through PI3K and IGF1R Inhibition
Authors: Herkert Barbara , Kauffmann Audrey , Mollé Sandra , Schnell Christian , Ferrat Thomas , Voshol Hans , Juengert Janina , Erasimus Hélène , Marszalek Grégory , Kazic-Legueux Malika , Billy Eric , Ruddy David , Stump Mark , Guthy Daniel , Ristov Mitko , Calkins Keith , Maira Sauveur-Michel , Sellers William R. , Hofmann Francesco , Hall Michael N. , Brachmann Saskia M.
Published: March 2023

Cartoon illustrating the requirement of concomitant inhibition of PI3Kβ together with PI3Kα or IGF1R and MAPK signaling to achieve complete long-term pathway inhibition in PTENLOF/BRAFMUT melanoma.
Supplementary Figure 8 from Maximizing the Efficacy of MAPK-Targeted Treatment in PTENLOF/BRAFMUT Melanoma through PI3K and IGF1R Inhibition
Authors: Herkert Barbara , Kauffmann Audrey , Mollé Sandra , Schnell Christian , Ferrat Thomas , Voshol Hans , Juengert Janina , Erasimus Hélène , Marszalek Grégory , Kazic-Legueux Malika , Billy Eric , Ruddy David , Stump Mark , Guthy Daniel , Ristov Mitko , Calkins Keith , Maira Sauveur-Michel , Sellers William R. , Hofmann Francesco , Hall Michael N. , Brachmann Saskia M.
Published: March 2023

PI3K pathway inhibition using PI3Kβi/PI3Kαi or PI3Kβi/IGF1Ri enhances the anti-proliferative effect of the BRAF/MEK inhibition regimen in PTENLOF/BRAFMUT cell lines and shifts the response towards cell death A+B) Validation of BRAFi/MEKi activity in RVH-421 (A) and WM-266-4 (B) in the absence or presence of PI3Kβi/PI3Kαi or PI3Kβi/IGF1Ri using proliferation (upper panels; growth matrix highlighting percentages of proliferation inhibition relative to DMSO) or cell death assays (lower panels; fraction of PI-positive, dead cells). PI3Kβi=rac-KIN-193, PI3Kαi=BYL719, IGF1Ri=AEW541, BRAFi=LGX818, MEKi=MEK162
Supplementary Table 2 from Phosphatase PTP4A3 Promotes Triple-Negative Breast Cancer Growth and Predicts Poor Patient Survival
Authors: den Hollander Petra , Rawls Kathryn , Tsimelzon Anna , Shepherd Jonathan , Mazumdar Abhijit , Hill Jamal , Fuqua Suzanne A.W. , Chang Jenny C. , Osborne C. Kent , Hilsenbeck Susan G. , Mills Gordon B. , Brown Powel H.
Published: March 2023

Supp Tab 2 - Cox proportional hazard ratio analysis of the Curtis Data set.
Supplementary Figure 6 from Maximizing the Efficacy of MAPK-Targeted Treatment in PTENLOF/BRAFMUT Melanoma through PI3K and IGF1R Inhibition
Authors: Herkert Barbara , Kauffmann Audrey , Mollé Sandra , Schnell Christian , Ferrat Thomas , Voshol Hans , Juengert Janina , Erasimus Hélène , Marszalek Grégory , Kazic-Legueux Malika , Billy Eric , Ruddy David , Stump Mark , Guthy Daniel , Ristov Mitko , Calkins Keith , Maira Sauveur-Michel , Sellers William R. , Hofmann Francesco , Hall Michael N. , Brachmann Saskia M.
Published: March 2023

Concomitant inhibition of PI3Kβ, IGF1R and MAPK signaling are leading to full long-term pathway blockade. A) +B) Effects of treatment with the indicated inhibitors as single-agents or in combination on WM-266-4 (A) or RVH-421 (B) were evaluated by immunoblotting using phospho-specific or total target protein antibodies. PI3Kβi=rac-KIN-193, PI3Kαi=BYL719, IGF1Ri (A)=AEW541, IGF1Ri (B)=Figitumumab-like antibody, MEKi=MEK162
Supplementary Figure 5 from Maximizing the Efficacy of MAPK-Targeted Treatment in PTENLOF/BRAFMUT Melanoma through PI3K and IGF1R Inhibition
Authors: Herkert Barbara , Kauffmann Audrey , Mollé Sandra , Schnell Christian , Ferrat Thomas , Voshol Hans , Juengert Janina , Erasimus Hélène , Marszalek Grégory , Kazic-Legueux Malika , Billy Eric , Ruddy David , Stump Mark , Guthy Daniel , Ristov Mitko , Calkins Keith , Maira Sauveur-Michel , Sellers William R. , Hofmann Francesco , Hall Michael N. , Brachmann Saskia M.
Published: March 2023

MAPK pathway inhibition synergizes with PI3Kβ inhibition in WM-266-4, but not in A-375. A-D) Determination of PI3K/BRAF and PI3K/MEK inhibitor synergy in WM-266-4 (A+B) and A-375 (C+D) using proliferation assays. Dose matrices highlight percentages of proliferation inhibition relative to DMSO with 100 indicating complete block of proliferation and >100 indicative of cell death. SS, synergy score. PI3Kβi1/2=rac-KIN-193/GSK-2636771, panPI3Ki=GDC0941, PI3Kαi=BYL719, BRAFi=LGX818, MEKi=MEK162
Supplementary Figure 5 from Phosphatase PTP4A3 Promotes Triple-Negative Breast Cancer Growth and Predicts Poor Patient Survival
Authors: den Hollander Petra , Rawls Kathryn , Tsimelzon Anna , Shepherd Jonathan , Mazumdar Abhijit , Hill Jamal , Fuqua Suzanne A.W. , Chang Jenny C. , Osborne C. Kent , Hilsenbeck Susan G. , Mills Gordon B. , Brown Powel H.
Published: March 2023

Supp Fig 5 - A) PTP4A3 and Myc amplification status in Luminal A/B and Basal-like breast cancers from TCGA data set. B) PTP4A3 and Myc amplification status in ovarian cancer from TCGA data set. C) Map detailing the location of the genes analyzed for gene amplification. D) Comparative analysis of PTP4A3 gene copy number and expression levels
Supplementary Figure 4 from Phosphatase PTP4A3 Promotes Triple-Negative Breast Cancer Growth and Predicts Poor Patient Survival
Authors: den Hollander Petra , Rawls Kathryn , Tsimelzon Anna , Shepherd Jonathan , Mazumdar Abhijit , Hill Jamal , Fuqua Suzanne A.W. , Chang Jenny C. , Osborne C. Kent , Hilsenbeck Susan G. , Mills Gordon B. , Brown Powel H.
Published: March 2023

Supp Fig 4 - A) Curtis data set analyzed for expression levels of PTP4A3 in normal breast tissue compared to invasive ductal carcinoma (IDC). B) Curtis data set analyzed for expression levels of PTP4A3 in non-TNBCs versus TNBCs. C) Kaplan-Meier curves of overall survival of all breast cancer patients (Kao Dataset) stratified by PTP4A3 expression and ER. D) Kaplan-Meier curves of disease-specific survival of all breast cancer patients (Curtis Dataset) stratified by PTP4A3 expression.
Supplementary information from Renalase Expression by Melanoma and Tumor-Associated Macrophages Promotes Tumor Growth through a STAT3-Mediated Mechanism
Authors: Hollander Lindsay , Guo Xiaojia , Velazquez Heino , Chang John , Safirstein Robert , Kluger Harriet , Cha Charles , Desir Gary V.
Published: March 2023

More detailed description of some of the methods.
Supplementary Table 5 from Cystine Deprivation Triggers Programmed Necrosis in VHL-Deficient Renal Cell Carcinomas
Authors: Tang Xiaohu , Wu Jianli , Ding Chien-Kuang , Lu Min , Keenan Melissa M. , Lin Chao-Chieh , Lin Chih-An , Wang Charles C. , George Daniel , Hsu David S. , Chi Jen-Tsan
Published: March 2023

Supplementary Table 5. Primers for qPCR
Supplementary Table 2 from PDLIM1 Stabilizes the E-Cadherin/β-Catenin Complex to Prevent Epithelial–Mesenchymal Transition and Metastatic Potential of Colorectal Cancer Cells
Authors: Chen Hai-Ning , Yuan Kefei , Xie Na , Wang Kui , Huang Zhao , Chen Yan , Dou Qianhui , Wu Min , Nice Edouard C. , Zhou Zong-Guang , Huang Canhua
Published: March 2023

Supplementary Table 2: Correlation between clinicopathologic features in CRC patients and the expression of PDLIM1, E-cadherin, membrane β-catenin, respectively.
Supplementary Table 4 from Cystine Deprivation Triggers Programmed Necrosis in VHL-Deficient Renal Cell Carcinomas
Authors: Tang Xiaohu , Wu Jianli , Ding Chien-Kuang , Lu Min , Keenan Melissa M. , Lin Chao-Chieh , Lin Chih-An , Wang Charles C. , George Daniel , Hsu David S. , Chi Jen-Tsan
Published: March 2023

Supplementary Table 4. Gene list of TNFalpha and VHL gene signature for "R score" projection analysis