bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplemental figure 1 and tables 1, 2 and 3 from Cancer-Specific and General Nutritional Scores and Cancer Risk: Results from the Prospective NutriNet-Santé Cohort
Authors: Lavalette Céline , Adjibade Moufidath , Srour Bernard , Sellem Laury , Fiolet Thibault , Hercberg Serge , Latino-Martel Paule , Fassier Philippine , Deschasaux Mélanie , Kesse-Guyot Emmanuelle , Touvier Mathilde
Published: April 2023

Supplemental figure 1: Flow chart for the section of the population study Supplemental table 1 Computation of the WCRF/AICR, AHEI-2010, MEDI-LITE and PNNS-GS scores in the NutriNet-SantÃƒÂ© study Supplemental table 2 Net Reclassification Improvement (NRI) for cancer risk associated with each nutritional score, NutriNet-SantÃƒÂ© Cohort, France, 2009-2017 (n= 41,543) Supplemental table 3 Hazard ratios (HR) and 95% confidence intervals (95% CIs) for cancer risk associated with a one-point increment in the WCRF/AICR score after removing each component of the score at a time, NutriNet-SantÃƒÂ© Cohort, France, 2009-2017 (n= 41,543)
Supplementary Table S7 from Integrative Genome-Wide Analysis of Long Noncoding RNAs in Diverse Immune Cell Types of Melanoma Patients
Authors: Wang Lei , Felts Sara J. , Van Keulen Virginia P. , Scheid Adam D. , Block Matthew S. , Markovic Svetomir N. , Pease Larry R. , Zhang Yuji
Published: April 2023

The information of the trans-regulatory lncRNAs associated with immune responses and 3 mRNA translation pathways in CD14+ PBC.
supplementary file data from Germline Mutations in the Mitochondrial 2-Oxoglutarate/Malate Carrier SLC25A11 Gene Confer a Predisposition to Metastatic Paragangliomas
Authors: Buffet Alexandre , Morin Aurélie , Castro-Vega Luis-Jaime , Habarou Florence , Lussey-Lepoutre Charlotte , Letouzé Eric , Lefebvre Hervé , Guilhem Isabelle , Haissaguerre Magalie , Raingeard Isabelle , Padilla-Girola Mathilde , Tran Thi , Tchara Lucien , Bertherat Jérôme , Amar Laurence , Ottolenghi Chris , Burnichon Nelly , Gimenez-Roqueplo Anne-Paule , Favier Judith
Published: April 2023

Supplementary Methods Supplementary Clinics Figures S1 to S9 Tables S1 to S3
Supplementary Data from DNA Polymerase Eta Prevents Tumor Cell-Cycle Arrest and Cell Death during Recovery from Replication Stress
Authors: Barnes Ryan P. , Tsao Wei-Chung , Moldovan George-Lucian , Eckert Kristin A.
Published: April 2023

Supplementary Table 1 and Figures S1-S7
Suppl Figure 6 from BET Inhibition Overcomes Receptor Tyrosine Kinase–Mediated Cetuximab Resistance in HNSCC
Authors: Leonard Brandon , Brand Toni M. , O'Keefe Rachel A. , Lee Eliot D. , Zeng Yan , Kemmer Jacquelyn D. , Li Hua , Grandis Jennifer R. , Bhola Neil E.
Published: April 2023

Evaluation of basal BRD4 expression in HNSCC cell lines and PDXs.
SupSupplementary Figures and Tables from Dual HDAC and PI3K Inhibition Abrogates NFκB- and FOXM1-Mediated DNA Damage Response to Radiosensitize Pediatric High-Grade Gliomas
Authors: Pal Sharmistha , Kozono David , Yang Xiaodong , Fendler Wojciech , Fitts Whitney , Ni Jing , Alberta John A. , Zhao Jean , Liu Kevin X. , Bian Jie , Truffaux Nathalene , Weiss William A. , Resnick Adam C. , Bandopadhayay Pratiti , Ligon Keith L. , DuBois Steven G. , Mueller Sabine , Chowdhury Dipanjan , Haas-Kogan Daphne A.
Published: April 2023

This file contains the supplementary figures (S1-S10) with legends and supplementary tables S1-S8. Supplementary Tables S1-S3 contain sequences for siRNA and primers used in RT-PCR, ChIP-PCR. Supplementary Tables S4-S8 contain the p-values for all pairwise comparisons performed in figures 3-6. Figure S1: CUDC-907 inhibits HDAC and PI3K activity. Figure S2: CUDC-907 synergizes with radiation. Figure S3: CUDC-907 reduces tomor cell proliferation in vivo. Figure S4:CUDC-907 induces cell cycle arrest and apoptosis. Figure S5:CUDC-907 enhances radiation induced DNA damage in vitro. Figure S6:Increase in DNA damage marker γ-H2AX is observed in vivo in the presence of CUDC-907. Figure S7:CUDC-907 reduces DNA damage protein. Figure S8: CUDC-907 impairs expression of NFκB and FOXM1. Figure S9:CUDC-907 interferes with nuclear localization of NFκB proteins. Figure S10:NFκB and FOXM1 knockdown induces DNA damage and cell viability.
Supplementary Table S1 from Extracellular Citrate Affects Critical Elements of Cancer Cell Metabolism and Supports Cancer Development In Vivo
Authors: Mycielska Maria E. , Dettmer Katja , Rümmele Petra , Schmidt Katharina , Prehn Cornelia , Milenkovic Vladimir M. , Jagla Wolfgang , Madej Gregor M. , Lantow Margareta , Schladt Moritz , Cecil Alexander , Koehl Gudrun E. , Eggenhofer Elke , Wachsmuth Christian J. , Ganapathy Vadivel , Schlitt Hans J. , Kunzelmann Karl , Ziegler Christine , Wetzel Christian H. , Gaumann Andreas , Lang Sven A. , Adamski Jerzy , Oefner Peter J. , Geissler Edward K.
Published: April 2023

List of metabolites measured with the AbsoluteIDQ® p180 Kit
Supplementary Figure S7 from Extracellular Citrate Affects Critical Elements of Cancer Cell Metabolism and Supports Cancer Development In Vivo
Authors: Mycielska Maria E. , Dettmer Katja , Rümmele Petra , Schmidt Katharina , Prehn Cornelia , Milenkovic Vladimir M. , Jagla Wolfgang , Madej Gregor M. , Lantow Margareta , Schladt Moritz , Cecil Alexander , Koehl Gudrun E. , Eggenhofer Elke , Wachsmuth Christian J. , Ganapathy Vadivel , Schlitt Hans J. , Kunzelmann Karl , Ziegler Christine , Wetzel Christian H. , Gaumann Andreas , Lang Sven A. , Adamski Jerzy , Oefner Peter J. , Geissler Edward K.
Published: April 2023

Expression of pmCiC in human cancer tissues of different origin and at metastatic sites.
Supplementary Figure S6 from Extracellular Citrate Affects Critical Elements of Cancer Cell Metabolism and Supports Cancer Development In Vivo
Authors: Mycielska Maria E. , Dettmer Katja , Rümmele Petra , Schmidt Katharina , Prehn Cornelia , Milenkovic Vladimir M. , Jagla Wolfgang , Madej Gregor M. , Lantow Margareta , Schladt Moritz , Cecil Alexander , Koehl Gudrun E. , Eggenhofer Elke , Wachsmuth Christian J. , Ganapathy Vadivel , Schlitt Hans J. , Kunzelmann Karl , Ziegler Christine , Wetzel Christian H. , Gaumann Andreas , Lang Sven A. , Adamski Jerzy , Oefner Peter J. , Geissler Edward K.
Published: April 2023

High magnification pmCiC staining (Fig. 5C) of benign prostate epithelial cells versus cancer cells.
Supplementary Figure S4 from Extracellular Citrate Affects Critical Elements of Cancer Cell Metabolism and Supports Cancer Development In Vivo
Authors: Mycielska Maria E. , Dettmer Katja , Rümmele Petra , Schmidt Katharina , Prehn Cornelia , Milenkovic Vladimir M. , Jagla Wolfgang , Madej Gregor M. , Lantow Margareta , Schladt Moritz , Cecil Alexander , Koehl Gudrun E. , Eggenhofer Elke , Wachsmuth Christian J. , Ganapathy Vadivel , Schlitt Hans J. , Kunzelmann Karl , Ziegler Christine , Wetzel Christian H. , Gaumann Andreas , Lang Sven A. , Adamski Jerzy , Oefner Peter J. , Geissler Edward K.
Published: April 2023

pmCiC homology structure and blocking of pmCiC by gluconate.
Supplementary Figure S3 from Extracellular Citrate Affects Critical Elements of Cancer Cell Metabolism and Supports Cancer Development In Vivo
Authors: Mycielska Maria E. , Dettmer Katja , Rümmele Petra , Schmidt Katharina , Prehn Cornelia , Milenkovic Vladimir M. , Jagla Wolfgang , Madej Gregor M. , Lantow Margareta , Schladt Moritz , Cecil Alexander , Koehl Gudrun E. , Eggenhofer Elke , Wachsmuth Christian J. , Ganapathy Vadivel , Schlitt Hans J. , Kunzelmann Karl , Ziegler Christine , Wetzel Christian H. , Gaumann Andreas , Lang Sven A. , Adamski Jerzy , Oefner Peter J. , Geissler Edward K.
Published: April 2023

Cancer cell proliferation in the presence of extracellular citrate.
Supplementary Figure 1 from Extracellular Citrate Affects Critical Elements of Cancer Cell Metabolism and Supports Cancer Development In Vivo
Authors: Mycielska Maria E. , Dettmer Katja , Rümmele Petra , Schmidt Katharina , Prehn Cornelia , Milenkovic Vladimir M. , Jagla Wolfgang , Madej Gregor M. , Lantow Margareta , Schladt Moritz , Cecil Alexander , Koehl Gudrun E. , Eggenhofer Elke , Wachsmuth Christian J. , Ganapathy Vadivel , Schlitt Hans J. , Kunzelmann Karl , Ziegler Christine , Wetzel Christian H. , Gaumann Andreas , Lang Sven A. , Adamski Jerzy , Oefner Peter J. , Geissler Edward K.
Published: April 2023

Intracellular Ca2+ in the presence of extracellular citrate.
Supplementary Table S1 from TNFRSF19 Inhibits TGFβ Signaling through Interaction with TGFβ Receptor Type I to Promote Tumorigenesis
Authors: Deng Chengcheng , Lin Yu-Xin , Qi Xue-Kang , He Gui-Ping , Zhang Yuchen , Zhang Hao-Jiong , Xu Miao , Feng Qi-Sheng , Bei Jin-Xin , Zeng Yi-Xin , Feng Lin
Published: April 2023

Supplementary Table S1 from TNFRSF19 Inhibits TGFβ Signaling through Interaction with TGFβ Receptor Type I to Promote Tumorigenesis
Supplementary Video S1. from Therapeutic Targeting of Sunitinib-Induced AR Phosphorylation in Renal Cell Carcinoma
Authors: Adelaiye-Ogala Remi , Damayanti Nur P. , Orillion Ashley R. , Arisa Sreevani , Chintala Sreenivasulu , Titus Mark A. , Kao Chinghai , Pili Roberto
Published: April 2023

Sunitinib promotes AR localization to the nucleus. Real-time fluorescence live cell imaging of 786-0 cells expressing AR-EGFP demonstrates increase AR nuclear localization following Sunitinib treatment (5uM Sunitinib t=30s).
Supplementary Figure S2 from TNFRSF19 Inhibits TGFβ Signaling through Interaction with TGFβ Receptor Type I to Promote Tumorigenesis
Authors: Deng Chengcheng , Lin Yu-Xin , Qi Xue-Kang , He Gui-Ping , Zhang Yuchen , Zhang Hao-Jiong , Xu Miao , Feng Qi-Sheng , Bei Jin-Xin , Zeng Yi-Xin , Feng Lin
Published: April 2023

Supplementary Figure S2 from TNFRSF19 Inhibits TGFβ Signaling through Interaction with TGFβ Receptor Type I to Promote Tumorigenesis
Supplementary Figure S1 from TNFRSF19 Inhibits TGFβ Signaling through Interaction with TGFβ Receptor Type I to Promote Tumorigenesis
Authors: Deng Chengcheng , Lin Yu-Xin , Qi Xue-Kang , He Gui-Ping , Zhang Yuchen , Zhang Hao-Jiong , Xu Miao , Feng Qi-Sheng , Bei Jin-Xin , Zeng Yi-Xin , Feng Lin
Published: April 2023

Supplementary Figure S1 from TNFRSF19 Inhibits TGFβ Signaling through Interaction with TGFβ Receptor Type I to Promote Tumorigenesis
Table S3 from Transcriptomics and Transposon Mutagenesis Identify Multiple Mechanisms of Resistance to the FGFR Inhibitor AZD4547
Authors: Kas Sjors M. , de Ruiter Julian R. , Schipper Koen , Schut Eva , Bombardelli Lorenzo , Wientjens Ellen , Drenth Anne Paulien , de Korte-Grimmerink Renske , Mahakena Sunny , Phillips Christopher , Smith Paul D. , Klarenbeek Sjoerd , van de Wetering Koen , Berns Anton , Wessels Lodewyk F.A. , Jonkers Jos
Published: April 2023

Overview of insertions identified in the donor, vehicle- and AZD4547-treated tumors.
Table S1 from Transcriptomics and Transposon Mutagenesis Identify Multiple Mechanisms of Resistance to the FGFR Inhibitor AZD4547
Authors: Kas Sjors M. , de Ruiter Julian R. , Schipper Koen , Schut Eva , Bombardelli Lorenzo , Wientjens Ellen , Drenth Anne Paulien , de Korte-Grimmerink Renske , Mahakena Sunny , Phillips Christopher , Smith Paul D. , Klarenbeek Sjoerd , van de Wetering Koen , Berns Anton , Wessels Lodewyk F.A. , Jonkers Jos
Published: April 2023

Overview of the sequenced tumor samples, including sample IDs, treatment information and the type of transplanted material.
Figure S4 from Evaluation of Explant Responses to STING Ligands: Personalized Immunosurgical Therapy for Head and Neck Squamous Cell Carcinoma
Authors: Baird Jason R. , Bell R. Bryan , Troesch Victoria , Friedman David , Bambina Shelly , Kramer Gwen , Blair Tiffany C. , Medler Terry , Wu Yaping , Sun Zhaoyu , de Gruijl Tanja D. , van de Ven Rieneke , Leidner Rom S. , Crittenden Marka R. , Gough Michael J.
Published: April 2023

Cytokine production from murine tumor explants
Table S6 from Canonical Wnt Signaling Remodels Lipid Metabolism in Zebrafish Hepatocytes following Ras Oncogenic Insult
Authors: Yao Yuxiao , Sun Shaoyang , Wang Jingjing , Fei Fei , Dong Zhaoru , Ke Ai-Wu , He Ruoyu , Wang Lei , Zhang Lili , Ji Min-Biao , Li Qiang , Yu Min , Shi Guo-Ming , Fan Jia , Gong Zhiyuan , Wang Xu
Published: April 2023

List of normalized abundances of fatty acyl groups in each lipid categories and classes in 6 dpf control, Tg(Myc), Tg(Kras), and Tg(Myc&Kras) larvae
Supplementary Data from Pooled Analysis of Nine Cohorts Reveals Breast Cancer Risk Factors by Tumor Molecular Subtype
Authors: Gaudet Mia M. , Gierach Gretchen L. , Carter Brian D. , Luo Juhua , Milne Roger L. , Weiderpass Elisabete , Giles Graham G. , Tamimi Rulla M. , Eliassen A. Heather , Rosner Bernard , Wolk Alicja , Adami Hans-Olov , Margolis Karen L. , Gapstur Susan M. , Garcia-Closas Montserrat , Brinton Louise A.
Published: April 2023

Supplemental Tables
Figure S5 from Targeting the Hsp40/Hsp70 Chaperone Axis as a Novel Strategy to Treat Castration-Resistant Prostate Cancer
Authors: Moses Michael A. , Kim Yeong Sang , Rivera-Marquez Genesis M. , Oshima Nobu , Watson Matthew J. , Beebe Kristin E. , Wells Catherine , Lee Sunmin , Zuehlke Abbey D. , Shao Hao , Bingman William E. , Kumar Vineet , Malhotra Sanjay V. , Weigel Nancy L. , Gestwicki Jason E. , Trepel Jane B. , Neckers Leonard M.
Published: April 2023

Average mouse body weight for Figure 5; PD analyses of C86 +/- JG98 in vivo; in vitro effects of C86 +/- JG98 on other client proteins
Figure S3 from Targeting the Hsp40/Hsp70 Chaperone Axis as a Novel Strategy to Treat Castration-Resistant Prostate Cancer
Authors: Moses Michael A. , Kim Yeong Sang , Rivera-Marquez Genesis M. , Oshima Nobu , Watson Matthew J. , Beebe Kristin E. , Wells Catherine , Lee Sunmin , Zuehlke Abbey D. , Shao Hao , Bingman William E. , Kumar Vineet , Malhotra Sanjay V. , Weigel Nancy L. , Gestwicki Jason E. , Trepel Jane B. , Neckers Leonard M.
Published: April 2023

Cell lysate inputs for Figure 3
Supplementary Table S6 from Neoadjuvant-Intensive Androgen Deprivation Therapy Selects for Prostate Tumor Foci with Diverse Subclonal Oncogenic Alterations
Authors: Sowalsky Adam G. , Ye Huihui , Bhasin Manoj , Van Allen Eliezer M. , Loda Massimo , Lis Rosina T. , Montaser-Kouhsari Laleh , Calagua Carla , Ma Fen , Russo Joshua W. , Schaefer Rachel J. , Voznesensky Olga S. , Zhang Zhenwei , Bubley Glenn J. , Montgomery Bruce , Mostaghel Elahe A. , Nelson Peter S. , Taplin Mary-Ellen , Balk Steven P.
Published: April 2023

Shared somatic mutations
Figure S1 from EGFR Cooperates with EGFRvIII to Recruit Macrophages in Glioblastoma
Authors: An Zhenyi , Knobbe-Thomsen Christiane B. , Wan Xiaohua , Fan Qi Wen , Reifenberger Guido , Weiss William A.
Published: April 2023

A and B, Real-time PCR of indicated genes. C, Flow cytometry sorting of cells that express high/low levels of EGFR/EGFRvIII. D, qRT-PCR of CCL2 in indicated cell populations. Table shows the raw value from the qRT-PCR. **, p < 0.01. ***, p < 0.01.
Supplementary Table S5 from Neoadjuvant-Intensive Androgen Deprivation Therapy Selects for Prostate Tumor Foci with Diverse Subclonal Oncogenic Alterations
Authors: Sowalsky Adam G. , Ye Huihui , Bhasin Manoj , Van Allen Eliezer M. , Loda Massimo , Lis Rosina T. , Montaser-Kouhsari Laleh , Calagua Carla , Ma Fen , Russo Joshua W. , Schaefer Rachel J. , Voznesensky Olga S. , Zhang Zhenwei , Bubley Glenn J. , Montgomery Bruce , Mostaghel Elahe A. , Nelson Peter S. , Taplin Mary-Ellen , Balk Steven P.
Published: April 2023

Somatic copy number alterations
Supplementary Tables 1-3 from The E2F1–miR-520/372/373–SPOP Axis Modulates Progression of Renal Carcinoma
Authors: Ding Meng , Lu Xiaolan , Wang Cheng , Zhao Quan , Ge Jingping , Xia Qiuyuan , Wang Junjun , Zen Ke , Zhang Chen-Yu , Zhang Chunni
Published: April 2023

Table S1 provides clinicopathologic characteristics of SPOP expression in renal carcinoma patients. Table S2 is the summary of siRNA sequences used in this study. Table S3 is the summary of qRT-PCR primer sequences used in this study.
Supplementary Figures 1-7 from The E2F1–miR-520/372/373–SPOP Axis Modulates Progression of Renal Carcinoma
Authors: Ding Meng , Lu Xiaolan , Wang Cheng , Zhao Quan , Ge Jingping , Xia Qiuyuan , Wang Junjun , Zen Ke , Zhang Chen-Yu , Zhang Chunni
Published: April 2023

Figure S1 indicates that SPOP depletion inhibits proliferation, invasion, and migration of renal carcinoma cells in vitro. Figure S2 shows the efficiency of miRNA mimics and their effects on SPOP protein and mRNA. Figure S3 demonstrates that miR-520/372/373 family suppresses renal carcinoma cells growth, invasion, and migration in vitro. Figure S4 suggests that miR-520/372/373 family suppresses proliferation of renal carcinoma cells by targeting SPOP. Figure S5 indicates that miR-520/372/373 family suppresses carcinogenesis by inhibiting SPOP in vivo. Figure S6 shows therapeutic effect of the miR-520/372/373 family in vivo. Figure S7 indicates miR-520/372/373 family is regulated by E2F1.
Supplementary Tables from Tobacco Carcinogen–Induced Production of GM-CSF Activates CREB to Promote Pancreatic Cancer
Authors: Srinivasan Supriya , Totiger Tulasigeri , Shi Chanjuan , Castellanos Jason , Lamichhane Purushottam , Dosch Austin R. , Messaggio Fanuel , Kashikar Nilesh , Honnenahally Kumaraswamy , Ban Yuguang , Merchant Nipun B. , VanSaun Michael , Nagathihalli Nagaraj S.
Published: April 2023

Supplementary Tables show all the primary antibodies, primer sequences, antibodies used in the flow cytometry assay, up- and down-regulated gene list and CREB signature gene list.
Figure S1 from Tobacco Carcinogen–Induced Production of GM-CSF Activates CREB to Promote Pancreatic Cancer
Authors: Srinivasan Supriya , Totiger Tulasigeri , Shi Chanjuan , Castellanos Jason , Lamichhane Purushottam , Dosch Austin R. , Messaggio Fanuel , Kashikar Nilesh , Honnenahally Kumaraswamy , Ban Yuguang , Merchant Nipun B. , VanSaun Michael , Nagathihalli Nagaraj S.
Published: April 2023

Figure S1 shows NNK activates CREB which is downstream of Akt signaling
Supplementary Materials and Methods from ErbB3 Targeting Enhances the Effects of MEK Inhibitor in Wild-Type BRAF/NRAS Melanoma
Authors: Capparelli Claudia , Purwin Timothy J. , Heilman Shea A. , Chervoneva Inna , McCue Peter A. , Berger Adam C. , Davies Michael A. , Gershenwald Jeffrey E. , Krepler Clemens , Aplin Andrew E.
Published: April 2023

Cell culture-Inhibitor-Sequencing-Additional siRNA-Statistical analysis
Supplementary Figures and Figures legends from ErbB3 Targeting Enhances the Effects of MEK Inhibitor in Wild-Type BRAF/NRAS Melanoma
Authors: Capparelli Claudia , Purwin Timothy J. , Heilman Shea A. , Chervoneva Inna , McCue Peter A. , Berger Adam C. , Davies Michael A. , Gershenwald Jeffrey E. , Krepler Clemens , Aplin Andrew E.
Published: April 2023

Supplemental Fig. S1. ErbB3 and ErbB2 are phosphorylated in the majority of WT/WT melanoma patient. Supplemental Fig. S2. Melanoma cells utilized in this study do not express NRG1. Supplemental Fig. S3. NRG1 rescues the inhibitory effects of MEK inhibitor on melanoma cell growth. Supplemental Fig. S4. Trametinib induces adaptive activation of ErbB2/ErbB3 dimer following NRG1 treatment. Supplemental Fig. S5. ERK1/2 phosphorylation modulates ErbB2 activation. Supplemental Fig. S7. LJM716 and pertuzumab reverse the protective effects provided by CAF-derived NRG1 in MEK inhibited melanoma cells and increase the efficacy of MEK inhibitors in vivo.
Table S5, S6 and S7 from Zebrafish: Speeding Up the Cancer Drug Discovery Process
Authors: Letrado Patricia , de Miguel Irene , Lamberto Iranzu , Díez-Martínez Roberto , Oyarzabal Julen
Published: April 2023

This file contains supplemental tables of zebrafish cancer models carried out in zebrafish using genetics approaches, allograft, xenograft and orthotopic assays
Supplemental Figures from Long-Chain n-3 Fatty Acids Attenuate Oncogenic KRas-Driven Proliferation by Altering Plasma Membrane Nanoscale Proteolipid Composition
Authors: Fuentes Natividad R. , Mlih Mohamed , Barhoumi Rola , Fan Yang-Yi , Hardin Paul , Steele Trevor J. , Behmer Spencer , Prior Ian A. , Karpac Jason , Chapkin Robert S.
Published: April 2023

Contains Supplemental Figure 1, photomicrographs of cells demonstrating the method for determining quantitative pERK levels. Supplemental Figure 2, pERK, ERK, and Ras western images. Supplemental Figure 3, charts representing data from FLIM-FRET experiments on corn oil fed drosophila.
Table S10 from Zebrafish: Speeding Up the Cancer Drug Discovery Process
Authors: Letrado Patricia , de Miguel Irene , Lamberto Iranzu , Díez-Martínez Roberto , Oyarzabal Julen
Published: April 2023

This file contains 355 reported case studies in zebrafish in cancer drug discovery projects
Supplementary figures from IFNγ PET Imaging as a Predictive Tool for Monitoring Response to Tumor Immunotherapy
Authors: Gibson Heather M. , McKnight Brooke N. , Malysa Agnes , Dyson Greg , Wiesend Wendy N. , McCarthy Claire E. , Reyes Joyce , Wei Wei-Zen , Viola-Villegas Nerissa T.
Published: April 2023

Time course imaging of anti-CD3 and anti-IFN-gamma PET tracers, as well as images from all experimental mice are shown. Additional quality control measures such as tracer uptake in the spleen and 100x magnification of IHC samples are included.
Supplementary Document S1 from Combined MR Imaging of Oxygen Consumption and Supply Reveals Tumor Hypoxia and Aggressiveness in Prostate Cancer Patients
Authors: Hompland Tord , Hole Knut Håkon , Ragnum Harald Bull , Aarnes Eva-Katrine , Vlatkovic Ljiljana , Lie A. Kathrine , Patzke Sebastian , Brennhovd Bjørn , Seierstad Therese , Lyng Heidi
Published: April 2023

Development of the image integration algorithm.
Figures S1-4 from Combined MR Imaging of Oxygen Consumption and Supply Reveals Tumor Hypoxia and Aggressiveness in Prostate Cancer Patients
Authors: Hompland Tord , Hole Knut Håkon , Ragnum Harald Bull , Aarnes Eva-Katrine , Vlatkovic Ljiljana , Lie A. Kathrine , Patzke Sebastian , Brennhovd Bjørn , Seierstad Therese , Lyng Heidi
Published: April 2023

Pimonidazole immunoscore versus time after administration, DWI parameters and histology parameters
Supplementary Data from Comutations in DNA Damage Response Pathways Serve as Potential Biomarkers for Immune Checkpoint Blockade
Authors: Wang Zhijie , Zhao Jing , Wang Guoqiang , Zhang Fan , Zhang Zemin , Zhang Yuzi , Dong Hua , Zhao Xiaochen , Duan Jianchun , Bai Hua , Tian Yanhua , Wan Rui , Han Miao , Cao Yan , Xiong Lei , Liu Li , Wang Shuhang , Cai Shangli , Mok Tony S.K. , Wang Jie
Published: April 2023

The supplemental material provides a detailed list of data, DNA repair response genes and immune gene signature used in the present study. Co-mutation in HRR and BER or HRR and MMR was associated with tumor mutational burden and neoantigen load in most tumors. Single-mutated DDR pathway could not differentiate patients who could response to immunotherapy in the four clinical cohorts. Co-mutation status was compared with PD-1 expression or TMB in the clinical cohorts. In the melanoma cohorts, co-mutation status also predicted improved OS and ORR in the TMB stratification analysis, though significant P values were not reached.
Table S2 from IL1 Receptor Antagonist Controls Transcriptional Signature of Inflammation in Patients with Metastatic Breast Cancer
Authors: Wu Te-Chia , Xu Kangling , Martinek Jan , Young Robyn R. , Banchereau Romain , George Joshy , Turner Jacob , Kim Kyung In , Zurawski Sandra , Wang Xuan , Blankenship Derek , Brookes Hannah M. , Marches Florentina , Obermoser Gerlinde , Lavecchio Elizabeth , Levin Maren K. , Bae Sookyoung , Chung Cheng-Han , Smith Jennifer L. , Cepika Alma-Martina , Oxley Kyp L. , Snipes George J. , Banchereau Jacques , Pascual Virginia , O'Shaughnessy Joyce , Palucka A. Karolina
Published: April 2023

Sample information of invasive breast carcinoma dataset in TCGA and METABRIC
Supplementary Data from Epigenetic Reprogramming with Antisense Oligonucleotides Enhances the Effectiveness of Androgen Receptor Inhibition in Castration-Resistant Prostate Cancer
Authors: Xiao Lanbo , Tien Jean C. , Vo Josh , Tan Mengyao , Parolia Abhijit , Zhang Yajia , Wang Lisha , Qiao Yuanyuan , Shukla Sudhanshu , Wang Xiaoju , Zheng Heng , Su Fengyun , Jing Xiaojun , Luo Esther , Delekta Andrew , Juckette Kristin M. , Xu Alice , Cao Xuhong , Alva Ajjai S. , Kim Youngsoo , MacLeod A. Robert , Chinnaiyan Arul M.
Published: April 2023

Supplementary information with additional materials and methods, references, and the legends for all supplementary figures.
Figure S3 from Heterozygosity of Chaperone Grp78 Reduces Intestinal Stem Cell Regeneration Potential and Protects against Adenoma Formation
Authors: van Lidth de Jeude Jooske F. , Spaan Claudia N. , Meijer Bartolomeus J. , Smit Wouter L. , Soeratram Tanya T.D. , Wielenga Mattheus C.B. , Westendorp B. Florien , Lee Amy S. , Meisner Sander , Vermeulen Jacqueline L.M. , Wildenberg Manon E. , van den Brink Gijs R. , Muncan Vanesa , Heijmans Jarom
Published: April 2023

Supplementary Figure S3
Figure S2 from Heterozygosity of Chaperone Grp78 Reduces Intestinal Stem Cell Regeneration Potential and Protects against Adenoma Formation
Authors: van Lidth de Jeude Jooske F. , Spaan Claudia N. , Meijer Bartolomeus J. , Smit Wouter L. , Soeratram Tanya T.D. , Wielenga Mattheus C.B. , Westendorp B. Florien , Lee Amy S. , Meisner Sander , Vermeulen Jacqueline L.M. , Wildenberg Manon E. , van den Brink Gijs R. , Muncan Vanesa , Heijmans Jarom
Published: April 2023

Supplementary Figure S2
Supplementary Table S4 from Sex Differences in Cancer Driver Genes and Biomarkers
Authors: Li Constance H. , Haider Syed , Shiah Yu-Jia , Thai Kevin , Boutros Paul C.
Published: April 2023

All copy number gain results
Supplementary Table S3 from Sex Differences in Cancer Driver Genes and Biomarkers
Authors: Li Constance H. , Haider Syed , Shiah Yu-Jia , Thai Kevin , Boutros Paul C.
Published: April 2023

All copy number loss results
Supplementary Table S2 from Sex Differences in Cancer Driver Genes and Biomarkers
Authors: Li Constance H. , Haider Syed , Shiah Yu-Jia , Thai Kevin , Boutros Paul C.
Published: April 2023

Summary of mutation load and percentage genome altered analysis
Supplementary Table S1 from Sex Differences in Cancer Driver Genes and Biomarkers
Authors: Li Constance H. , Haider Syed , Shiah Yu-Jia , Thai Kevin , Boutros Paul C.
Published: April 2023

Description of CNA and SNV data, pancancer and tumour type-specific model variables, and summary of variables for each tumour type
Supplementary Figures from Sex Differences in Cancer Driver Genes and Biomarkers
Authors: Li Constance H. , Haider Syed , Shiah Yu-Jia , Thai Kevin , Boutros Paul C.
Published: April 2023

All supporting supplementary figures S1-S23
Fig, S3 from RIPK1 Binds MCU to Mediate Induction of Mitochondrial Ca2+ Uptake and Promotes Colorectal Oncogenesis
Authors: Zeng Fanxin , Chen Xiao , Cui Weiyi , Wen Wei , Lu Fujian , Sun Xueting , Ma Dongwei , Yuan Ye , Li Zezhong , Hou Ning , Zhao Hong , Bi Xinyu , Zhao Jianjun , Zhou Jianguo , Zhang Yan , Xiao Rui-Ping , Cai Jianqiang , Zhang Xiuqin
Published: April 2023

Figure S3. RIPK3 and p-MLKL is Decreased, while Caspase-8 is Increased in CRC. (A-D) Representative western blots and averaged data of RIPK3, p-MLKL, and Caspase 8 from normal and CRC tissue. Results are expressed as mean {plus minus} SEM. **p < 0.01, normal vs CRC (n=18).
Supplementary figures and figure legends from APC/C-CDH1–Regulated IDH3β Coordinates with the Cell Cycle to Promote Cell Proliferation
Authors: Wu Qingnan , Zhang Weimin , Xue Liyan , Wang Yan , Fu Ming , Ma Liying , Song Yongmei , Zhan Qi-Min
Published: April 2023

Fig S1. The changing trend of Î±-KG, fumarate and malate were significantly correlated with S phase.Fig S2. IDH3Î² accumulated in late G1 phase and CDC20 was not the regulator of IDH3Î². Fig S3. The interaction of IDH3Î² and CDH1 was strong in G1 and weak in G2/M. Fig .S4 IDH3Î² regulated the G1/S transition and cell proliferation. Fig .S5 Xenograft tumor formation of stable IDH3Î² overexpressed KYSE410 cells and control cells.Fig .S6 IDH3Î±, IDH3Î² and IDH3Î³ contribute to oxidative metabolism in TCA cycle.Fig .S7 IDH3Î²-dependent Î±-KG generation accounts for improving cell proliferation. Fig .S8 IDH3Î² enhances cytoplasmic PFKFB3 level in IDH3Î² overexpressed cell.
Supplementary Data from Radiation-Induced DNA Damage Cooperates with Heterozygosity of TP53 and PTEN to Generate High-Grade Gliomas
Authors: Todorova Pavlina K. , Fletcher-Sananikone Eliot , Mukherjee Bipasha , Kollipara Rahul , Vemireddy Vamsidhara , Xie Xian-Jin , Guida Peter M. , Story Michael D. , Hatanpaa Kimmo , Habib Amyn A. , Kittler Ralf , Bachoo Robert , Hromas Robert , Floyd John R. , Burma Sandeep
Published: April 2023

Figure S1: Cre-mediated excision of floxed alleles and induction of double strand breaks in murine brains. Figure S2: DNA damage in primary astrocytes and murine brains induced by different radiation types. Figure S3: Histopathology and cell lineage markers in radiation-induced gliomas (RIG). Figure S4: Sox2 expression in RIG-derived cell lines and tumor growth kinetics. Figure S5: Loss of p53 and Pten in RIG-derived cell lines. Figure S6: Non-Met amplified RIG. Table S1: List of PCR and RT-PCR primers. Table S2: RIG-derived lines. Table S3: Subcutaneous and orthotopic tumors generated from RIG-derived cell lines. Table S4: A panel of 33 RIGs used for immunohistochemical analysis. Table S5. List of GISTIC hits.
Supplementary Table S1 from Proteolytic Release of the p75NTR Intracellular Domain by ADAM10 Promotes Metastasis and Resistance to Anoikis
Authors: Bao Xin , Shi Jianbo , Xie Furong , Liu Zengying , Yu Jingshuang , Chen Wantao , Zhang Zhiyuan , Xu Qin
Published: April 2023

PCR/real-time PCR primer sequences and RNAi sequences used in the present study
Supplemental Figure S8 from Treatment-Induced Tumor Cell Apoptosis and Secondary Necrosis Drive Tumor Progression in the Residual Tumor Microenvironment through MerTK and IDO1
Authors: Werfel Thomas A. , Elion David L. , Rahman Bushra , Hicks Donna J. , Sanchez Violeta , Gonzales-Ericsson Paula I. , Nixon Mellissa J. , James Jamaal L. , Balko Justin M. , Scherle Peggy A. , Koblish Holly K. , Cook Rebecca S.
Published: April 2023

Supplemental Figure S8. MMTV-Neu tumors were measured on treatment day 1 and again on treatment day 29. measurements from each tumor is represented by a datapoint. The line connects measurements from a single tumor on day 1 to the measurement of the same tumor on day 29. Vehicle-treated tumors are shown in gray. A. Vehicle-treated tumors are compared to tumors treated with lapatinib (shown in black). B. Vehicle-treated tumors are compared to tumors treated with BMS-777607 + Epacadostat (B/E, shown in red). C. Vehicle-treated tumors are compared to tumors treated with Lapatinib + BMS-777607 + Epacadostat (L/B/E, shown in blue). D. Vehicle-treated tumors are compared to all remaining treatment groups: lapatinib-treated tumors in black, B/E-treated tumors in red, and L/B/E-treated tumors in blue.
Supplemental Figure S7 from Treatment-Induced Tumor Cell Apoptosis and Secondary Necrosis Drive Tumor Progression in the Residual Tumor Microenvironment through MerTK and IDO1
Authors: Werfel Thomas A. , Elion David L. , Rahman Bushra , Hicks Donna J. , Sanchez Violeta , Gonzales-Ericsson Paula I. , Nixon Mellissa J. , James Jamaal L. , Balko Justin M. , Scherle Peggy A. , Koblish Holly K. , Cook Rebecca S.
Published: April 2023

Supplemental Figure S7. MMTV-Neu tumors were treated lapatinib on days 1 and 7, and with BMS-777607 on days 14. Average tumor volume is shown.
Supplemental Figure S6 from Treatment-Induced Tumor Cell Apoptosis and Secondary Necrosis Drive Tumor Progression in the Residual Tumor Microenvironment through MerTK and IDO1
Authors: Werfel Thomas A. , Elion David L. , Rahman Bushra , Hicks Donna J. , Sanchez Violeta , Gonzales-Ericsson Paula I. , Nixon Mellissa J. , James Jamaal L. , Balko Justin M. , Scherle Peggy A. , Koblish Holly K. , Cook Rebecca S.
Published: April 2023

Supplemental Figure S6. Tumors harvested on treatment d 7 were assessed by IHC for FoxP3 and Arg-1. Representative images are shown. Original magnification = 400X. Asterisks represent areas of acellular debris. Black arrows indicate tumor infiltrating lymphocytes (TILs). Yellow arrows indicate hyper-condensed nuclei characteristic of apoptotic bodies / apoptotic debris.
Supplementary Figure S3 from Proteolytic Release of the p75NTR Intracellular Domain by ADAM10 Promotes Metastasis and Resistance to Anoikis
Authors: Bao Xin , Shi Jianbo , Xie Furong , Liu Zengying , Yu Jingshuang , Chen Wantao , Zhang Zhiyuan , Xu Qin
Published: April 2023

p75NTR ICD selectively activates NF-κB under detachment conditions.
Supplementary Figure S1 from Proteolytic Release of the p75NTR Intracellular Domain by ADAM10 Promotes Metastasis and Resistance to Anoikis
Authors: Bao Xin , Shi Jianbo , Xie Furong , Liu Zengying , Yu Jingshuang , Chen Wantao , Zhang Zhiyuan , Xu Qin
Published: April 2023

ADAM10 expression is associated with cancer metastasis and spheroid colony formation.
Supplemental Figure S3 from Treatment-Induced Tumor Cell Apoptosis and Secondary Necrosis Drive Tumor Progression in the Residual Tumor Microenvironment through MerTK and IDO1
Authors: Werfel Thomas A. , Elion David L. , Rahman Bushra , Hicks Donna J. , Sanchez Violeta , Gonzales-Ericsson Paula I. , Nixon Mellissa J. , James Jamaal L. , Balko Justin M. , Scherle Peggy A. , Koblish Holly K. , Cook Rebecca S.
Published: April 2023

Supplemental Figure S3. A. Tumors harvested on treatment d 7 were assessed by IHC for Arg-1 and FoxP3. Representative images are shown. Original magnification, 400X. N = 5. B-C. RT-qPCR gene expression analysis of Ripk1 and Ripk3 (B) and Gas6 (C) from tumors treated with vehicle or lapatinib on treatment day 1, followed by 6 daily treatments with vehicle or BMS-777607. Tumors were harvested 24 h after final treatment. Individual data points represent the average value of 5 experimental replicates from RNA harvested from a single tumor. Midlines are the average ({plus minus} S.D.) of the biological replicates (N = 3-4 per group). P values calculated using Student's T-test.
Supplementary Information from Implications of Epigenetic Drift in Colorectal Neoplasia
Authors: Luebeck Georg E. , Hazelton William D. , Curtius Kit , Maden Sean K. , Yu Ming , Carter Kelly T. , Burke Wynn , Lampe Paul D. , Li Christopher I. , Ulrich Cornelia M. , Newcomb Polly A. , Westerhoff Maria , Kaz Andrew M. , Luo Yanxin , Inadomi John M. , Grady William M.
Published: April 2023

Derivation of adenoma to carcinoma sojourn times, with table S1 showing estimated methylation drift rate parameters and table S2 showing estimated sojourn times for three tissue age models.
Table S1 from MFF Regulation of Mitochondrial Cell Death Is a Therapeutic Target in Cancer
Authors: Seo Jae Ho , Chae Young Chan , Kossenkov Andrew V. , Lee Yu Geon , Tang Hsin-Yao , Agarwal Ekta , Gabrilovich Dmitry I. , Languino Lucia R. , Speicher David W. , Shastrula Prashanth K. , Storaci Alessandra Maria , Ferrero Stefano , Gaudioso Gabriella , Caroli Manuela , Tosi Davide , Giroda Massimo , Vaira Valentina , Rebecca Vito W. , Herlyn Meenhard , Xiao Min , Fingerman Dylan , Martorella Alessandra , Skordalakes Emmanuel , Altieri Dario C.
Published: April 2023

MFF1 synthetic peptides used in this study
SI Table S5 from Implications of Epigenetic Drift in Colorectal Neoplasia
Authors: Luebeck Georg E. , Hazelton William D. , Curtius Kit , Maden Sean K. , Yu Ming , Carter Kelly T. , Burke Wynn , Lampe Paul D. , Li Christopher I. , Ulrich Cornelia M. , Newcomb Polly A. , Westerhoff Maria , Kaz Andrew M. , Luo Yanxin , Inadomi John M. , Grady William M.
Published: April 2023

This file provides a list of 'static' CGI-gene pairs for which methylation is significantly correlated with gene expression (q-value ) in left colon (including rectum) and right colon
SI Table S4 from Implications of Epigenetic Drift in Colorectal Neoplasia
Authors: Luebeck Georg E. , Hazelton William D. , Curtius Kit , Maden Sean K. , Yu Ming , Carter Kelly T. , Burke Wynn , Lampe Paul D. , Li Christopher I. , Ulrich Cornelia M. , Newcomb Polly A. , Westerhoff Maria , Kaz Andrew M. , Luo Yanxin , Inadomi John M. , Grady William M.
Published: April 2023

This file provides a list of drift-related CGI-gene pairs for which methylation is significantly correlated with gene expression (q-value ) in left colon (including rectum) and right colon.
Supplementary Figure S2 from MFF Regulation of Mitochondrial Cell Death Is a Therapeutic Target in Cancer
Authors: Seo Jae Ho , Chae Young Chan , Kossenkov Andrew V. , Lee Yu Geon , Tang Hsin-Yao , Agarwal Ekta , Gabrilovich Dmitry I. , Languino Lucia R. , Speicher David W. , Shastrula Prashanth K. , Storaci Alessandra Maria , Ferrero Stefano , Gaudioso Gabriella , Caroli Manuela , Tosi Davide , Giroda Massimo , Vaira Valentina , Rebecca Vito W. , Herlyn Meenhard , Xiao Min , Fingerman Dylan , Martorella Alessandra , Skordalakes Emmanuel , Altieri Dario C.
Published: April 2023

MFF-VDAC1 complex in cancer
Supplementary Fig. 5 from In Vivo Modeling of Chemoresistant Neuroblastoma Provides New Insights into Chemorefractory Disease and Metastasis
Authors: Yogev Orli , Almeida Gilberto S. , Barker Karen T. , George Sally L. , Kwok Colin , Campbell James , Zarowiecki Magdalena , Kleftogiannis Dimitrios , Smith Laura M. , Hallsworth Albert , Berry Philip , Möcklinghoff Till , Webber Hannah T. , Danielson Laura S. , Buttery Bliss , Calton Elizabeth A. , da Costa Barbara M. , Poon Evon , Jamin Yann , Lise Stefano , Veal Gareth J. , Sebire Neil , Robinson Simon P. , Anderson John , Chesler Louis
Published: April 2023

Th-MYCNCPM32 tumors and cell lines show enhanced nuclear STAT3 staining and sensitivity to CYT387.
Figure S6 from MFF Regulation of Mitochondrial Cell Death Is a Therapeutic Target in Cancer
Authors: Seo Jae Ho , Chae Young Chan , Kossenkov Andrew V. , Lee Yu Geon , Tang Hsin-Yao , Agarwal Ekta , Gabrilovich Dmitry I. , Languino Lucia R. , Speicher David W. , Shastrula Prashanth K. , Storaci Alessandra Maria , Ferrero Stefano , Gaudioso Gabriella , Caroli Manuela , Tosi Davide , Giroda Massimo , Vaira Valentina , Rebecca Vito W. , Herlyn Meenhard , Xiao Min , Fingerman Dylan , Martorella Alessandra , Skordalakes Emmanuel , Altieri Dario C.
Published: April 2023

Anti-glioma activity of MFF peptidomimetic
Figure S5 from MFF Regulation of Mitochondrial Cell Death Is a Therapeutic Target in Cancer
Authors: Seo Jae Ho , Chae Young Chan , Kossenkov Andrew V. , Lee Yu Geon , Tang Hsin-Yao , Agarwal Ekta , Gabrilovich Dmitry I. , Languino Lucia R. , Speicher David W. , Shastrula Prashanth K. , Storaci Alessandra Maria , Ferrero Stefano , Gaudioso Gabriella , Caroli Manuela , Tosi Davide , Giroda Massimo , Vaira Valentina , Rebecca Vito W. , Herlyn Meenhard , Xiao Min , Fingerman Dylan , Martorella Alessandra , Skordalakes Emmanuel , Altieri Dario C.
Published: April 2023

Preclinical activity of MFF targeting
Supplementary Fig. 2 from In Vivo Modeling of Chemoresistant Neuroblastoma Provides New Insights into Chemorefractory Disease and Metastasis
Authors: Yogev Orli , Almeida Gilberto S. , Barker Karen T. , George Sally L. , Kwok Colin , Campbell James , Zarowiecki Magdalena , Kleftogiannis Dimitrios , Smith Laura M. , Hallsworth Albert , Berry Philip , Möcklinghoff Till , Webber Hannah T. , Danielson Laura S. , Buttery Bliss , Calton Elizabeth A. , da Costa Barbara M. , Poon Evon , Jamin Yann , Lise Stefano , Veal Gareth J. , Sebire Neil , Robinson Simon P. , Anderson John , Chesler Louis
Published: April 2023

Th-MYCNCPM32 tumors show increased ECM and increased levels of Tnrc6 but not TK1.
Supplementary Fig. 1 from In Vivo Modeling of Chemoresistant Neuroblastoma Provides New Insights into Chemorefractory Disease and Metastasis
Authors: Yogev Orli , Almeida Gilberto S. , Barker Karen T. , George Sally L. , Kwok Colin , Campbell James , Zarowiecki Magdalena , Kleftogiannis Dimitrios , Smith Laura M. , Hallsworth Albert , Berry Philip , Möcklinghoff Till , Webber Hannah T. , Danielson Laura S. , Buttery Bliss , Calton Elizabeth A. , da Costa Barbara M. , Poon Evon , Jamin Yann , Lise Stefano , Veal Gareth J. , Sebire Neil , Robinson Simon P. , Anderson John , Chesler Louis
Published: April 2023

Cyclophosphamide is associated with cell death and is actively metabolized in both sensitive and resistant mice.
Table S1 from Spindle Assembly Checkpoint Inhibition Can Resensitize p53-Null Stem Cells to Cancer Chemotherapy
Authors: Liu Changlong , Banister Carolyn E. , Buckhaults Phillip J.
Published: April 2023

Table S1. FDA approved 127 drugs used in this study
Supplementary figure legends from The Goldilocks Window of Personalized Chemotherapy: Getting the Immune Response Just Right
Authors: Park Derek S. , Robertson-Tessi Mark , Luddy Kimberly A. , Maini Philip K. , Bonsall Michael B. , Gatenby Robert A. , Anderson Alexander R.A.
Published: April 2023

Detailed legends for supplementary figures S1 - S7. This includes comparisons to baseline model values as well as the evaluation of the impacts of parameter variation.
Supplementary Figure 4 from Vitamin D–VDR Signaling Inhibits Wnt/β-Catenin–Mediated Melanoma Progression and Promotes Antitumor Immunity
Authors: Muralidhar Sathya , Filia Anastasia , Nsengimana Jérémie , Poźniak Joanna , O'Shea Sally J. , Diaz Joey M. , Harland Mark , Randerson-Moor Juliette A. , Reichrath Jörg , Laye Jonathan P. , van der Weyden Louise , Adams David J. , Bishop D.T. , Newton-Bishop Julia
Published: April 2023

Comparison of CD3 positive immune infiltrate in murine lungs
Supplementary Figure 3 from Vitamin D–VDR Signaling Inhibits Wnt/β-Catenin–Mediated Melanoma Progression and Promotes Antitumor Immunity
Authors: Muralidhar Sathya , Filia Anastasia , Nsengimana Jérémie , Poźniak Joanna , O'Shea Sally J. , Diaz Joey M. , Harland Mark , Randerson-Moor Juliette A. , Reichrath Jörg , Laye Jonathan P. , van der Weyden Louise , Adams David J. , Bishop D.T. , Newton-Bishop Julia
Published: April 2023

Estimation of VDR expression in murine melanoma cells using Western blot and qRT-PCR
Supplementary Figure 1 from Vitamin D–VDR Signaling Inhibits Wnt/β-Catenin–Mediated Melanoma Progression and Promotes Antitumor Immunity
Authors: Muralidhar Sathya , Filia Anastasia , Nsengimana Jérémie , Poźniak Joanna , O'Shea Sally J. , Diaz Joey M. , Harland Mark , Randerson-Moor Juliette A. , Reichrath Jörg , Laye Jonathan P. , van der Weyden Louise , Adams David J. , Bishop D.T. , Newton-Bishop Julia
Published: April 2023

Immunohistochemistry of melanoma sections from LMC for VDR expression
Figure S3 from The Goldilocks Window of Personalized Chemotherapy: Getting the Immune Response Just Right
Authors: Park Derek S. , Robertson-Tessi Mark , Luddy Kimberly A. , Maini Philip K. , Bonsall Michael B. , Gatenby Robert A. , Anderson Alexander R.A.
Published: April 2023

Expanded parameter analysis for Treg death rates. Increasing death rates leads to a larger Goldilocks Window and greater maximum tumor reduction.
Figure S2 from The Goldilocks Window of Personalized Chemotherapy: Getting the Immune Response Just Right
Authors: Park Derek S. , Robertson-Tessi Mark , Luddy Kimberly A. , Maini Philip K. , Bonsall Michael B. , Gatenby Robert A. , Anderson Alexander R.A.
Published: April 2023

Expanded parameter analysis for model parameter c. Greater T cell sensitivity to Tregs reduces the size of the Goldilocks Window.
Supplementary Materials and Methods from DAXX Suppresses Tumor-Initiating Cells in Estrogen Receptor–Positive Breast Cancer Following Endocrine Therapy
Authors: Peiffer Daniel S. , Wyatt Debra , Zlobin Andrei , Piracha Ali , Ng Jeffrey , Dingwall Andrew K. , Albain Kathy S. , Osipo Clodia
Published: April 2023

Additional Materials and Methods
Figure S1-S11 from DAXX Suppresses Tumor-Initiating Cells in Estrogen Receptor–Positive Breast Cancer Following Endocrine Therapy
Authors: Peiffer Daniel S. , Wyatt Debra , Zlobin Andrei , Piracha Ali , Ng Jeffrey , Dingwall Andrew K. , Albain Kathy S. , Osipo Clodia
Published: April 2023

Figure S1: Individual DAXX siRNA sequences have similar effect on DAXX expression and TIC-survival. Figure S2: DAXX status has little effect on bulk cell proliferation. Figure S3: Survival curves of each cell dilution from ELDA. Figure S4: Kaplan-Meier RFS Outcomes. Figure S5: Kaplan-Meier RFS Outcomes based on Nodal status. Figure S6: Global changes in gene expression due to DAXX depletion. Figure S7: Sites of DAXX enrichment and resulting changes in EMT following DAXX knockdown. Figure S8: DNA methylation or DNMT1 is required for restriction of TIC-survival and gene expression. Figure S9: DAXX requires DNMT1 to restrict TIC-associated gene expression and representative bisulfite sequencing results. Figure S10: DAXX overexpression has little effect on bulk cell proliferation, but is sufficient to inhibit NOTCH signaling. Figure S11: DAXX is sufficient to increase luminal/epithelial genes and inhibit EMT genes under ET conditions.
Supplementary materials from Mitochondrial NIX Promotes Tumor Survival in the Hypoxic Niche of Glioblastoma
Authors: Jung Jinkyu , Zhang Ying , Celiku Orieta , Zhang Wei , Song Hua , Williams Brian J. , Giles Amber J. , Rich Jeremy N. , Abounader Roger , Gilbert Mark R. , Park Deric M.
Published: April 2023

Methods of supplementary figures and additional information of materials.
Supplementary Table from Differential Variation Analysis Enables Detection of Tumor Heterogeneity Using Single-Cell RNA-Sequencing Data
Authors: Davis-Marcisak Emily F. , Sherman Thomas D. , Orugunta Pranay , Stein-O'Brien Genevieve L. , Puram Sidharth V. , Roussos Torres Evanthia T. , Hopkins Alexander C. , Jaffee Elizabeth M. , Favorov Alexander V. , Afsari Bahman , Goff Loyal A. , Fertig Elana J.
Published: April 2023

Supplementary Table from Differential Variation Analysis Enables Detection of Tumor Heterogeneity Using Single-Cell RNA-Sequencing Data
Supplementary Figure from Differential Variation Analysis Enables Detection of Tumor Heterogeneity Using Single-Cell RNA-Sequencing Data
Authors: Davis-Marcisak Emily F. , Sherman Thomas D. , Orugunta Pranay , Stein-O'Brien Genevieve L. , Puram Sidharth V. , Roussos Torres Evanthia T. , Hopkins Alexander C. , Jaffee Elizabeth M. , Favorov Alexander V. , Afsari Bahman , Goff Loyal A. , Fertig Elana J.
Published: April 2023

Supplementary Figure from Differential Variation Analysis Enables Detection of Tumor Heterogeneity Using Single-Cell RNA-Sequencing Data
Supplementary Figures from Epigenomic Profiling Discovers Trans-lineage SOX2 Partnerships Driving Tumor Heterogeneity in Lung Squamous Cell Carcinoma
Authors: Sato Takashi , Yoo Seungyeul , Kong Ranran , Sinha Abhilasha , Chandramani-Shivalingappa Prashanth , Patel Ayushi , Fridrikh Maya , Nagano Osamu , Masuko Takashi , Beasley Mary Beth , Powell Charles A. , Zhu Jun , Watanabe Hideo
Published: April 2023

SF1:Super-enhancer profiling identifies three subtypes of LUSC. SF2: Brn2 is expressed in a subset of human primary LUSC tumors. SF3: Brn2 and Sox2 co-localize and collaborate in the 'neural' LUSC cells. SF4: DNp63 overexpression in the 'neural' LUSC cells suppresses Brn2 expression and induces phenotypic changes. SF5: Brn2 overexpression and p63 ablation in the 'classical' LUSC cells and Brn2 ablation in the 'neural' LUSC cells. SF6: DNp63 induces a classical squamous-cell transcriptional program and G1 phase arrest in the 'neural' LK2 cells. SF7: DNp63 suppresses the 'neural' lineage program and induces the classical squamous-cell transcriptional program. SF8: DNp63 alters ErbB family signaling in the 'neural' LK2 cells.
Supplementary Data from CCL27/CCL28–CCR10 Chemokine Signaling Mediates Migration of Lymphatic Endothelial Cells
Authors: Karnezis Tara , Farnsworth Rae H. , Harris Nicole C. , Williams Steven P. , Caesar Carol , Byrne David J. , Herle Prad , Macheda Maria L. , Shayan Ramin , Zhang You-Fang , Yazar Sezer , Takouridis Simon J. , Gerard Craig , Fox Stephen B. , Achen Marc G. , Stacker Steven A.
Published: April 2023

Supplementary Figures S1-S8 S1 Heat map of chemokines and receptors S2 Immunohistochemical staining of lymphatic vessels S3 Expression of VEGF-D and chemokines in cancer cell lines S4 Expression of genes in melanoma patient samples S5 Chemokine secretion by tumour cells S6 Chemokine induced migration of LEC S7 Chemokines attract LEC in vivo S8 CCL-293EBNA tumour growth and CCL27 secretion