bluuebunny/crossref_metadata_2025 huggingface dataset:
Figure S4 from Paclitaxel Reduces Tumor Growth by Reprogramming Tumor-Associated Macrophages to an M1 Profile in a TLR4-Dependent Manner
Authors: Wanderley Carlos W. , Colón David F. , Luiz João Paulo M. , Oliveira Francisco F. , Viacava Paula R. , Leite Caio A. , Pereira Janaina A. , Silva Camila M. , Silva Cassia R. , Silva Rangel L. , Speck-Hernandez Cesar A. , Mota José M. , Alves-Filho José C. , Lima-Junior Roberto C. , Cunha Thiago M. , Cunha Fernando Q.
Published: April 2023

Characterization of mature/immature macrophages subsets in the tumor microenvironment
Supplementary Figures S1-S16 from Patient-Customized Drug Combination Prediction and Testing for T-cell Prolymphocytic Leukemia Patients
Authors: He Liye , Tang Jing , Andersson Emma I. , Timonen Sanna , Koschmieder Steffen , Wennerberg Krister , Mustjoki Satu , Aittokallio Tero
Published: April 2023

Schematics of the computational steps of DCPT platform, along with detailed evaluation of the predicted combinations tested in the T-PLL and AML patient samples ex vivo.
Supplementary Figures S1-S4 from A2AR Adenosine Signaling Suppresses Natural Killer Cell Maturation in the Tumor Microenvironment
Authors: Young Arabella , Ngiow Shin Foong , Gao Yulong , Patch Ann-Marie , Barkauskas Deborah S. , Messaoudene Meriem , Lin Gene , Coudert Jerome D. , Stannard Kimberley A. , Zitvogel Laurence , Degli-Esposti Mariapia A. , Vivier Eric , Waddell Nicola , Linden Joel , Huntington Nicholas D. , Souza-Fonseca-Guimaraes Fernando , Smyth Mark J.
Published: April 2023

Figure S1. Liver ILC1s express high levels of adenosine-related molecules. Figure S2. A2AR-deficient NK cells display enhanced competitive proliferation. Figure S3. NK cell specific deletion of the A2AR provides improved proliferative capacity. Figure S4. Tumor-infiltrating leukocytes from NK cell specific A2AR deletion.
Supplementary Information from Loss of Pax5 Exploits Sca1-BCR-ABLp190 Susceptibility to Confer the Metabolic Shift Essential for pB-ALL
Authors: Martín-Lorenzo Alberto , Auer Franziska , Chan Lai N. , García-Ramírez Idoia , González-Herrero Inés , Rodríguez-Hernández Guillermo , Bartenhagen Christoph , Dugas Martin , Gombert Michael , Ginzel Sebastian , Blanco Oscar , Orfao Alberto , Alonso-López Diego , Rivas Javier De Las , García-Cenador Maria B. , García-Criado Francisco J. , Müschen Markus , Sánchez-García Isidro , Borkhardt Arndt , Vicente-Dueñas Carolina , Hauer Julia
Published: April 2023

Supplementary Figures and Table legends as well as supplementary methods
Supplementary Table S8 from Neonatal Inflammatory Markers Are Associated with Childhood B-cell Precursor Acute Lymphoblastic Leukemia
Authors: Søegaard Signe Holst , Rostgaard Klaus , Skogstrand Kristin , Wiemels Joseph Leo , Schmiegelow Kjeld , Hjalgrim Henrik
Published: April 2023

Neonatal inflammatory marker associations with maternal and child characteristics.
Supplementary Figure S6 from Amplification of Glyceronephosphate O-Acyltransferase and Recruitment of USP30 Stabilize DRP1 to Promote Hepatocarcinogenesis
Authors: Gu Li , Zhu Yahui , Lin Xi , Li Yajun , Cui Kaisa , Prochownik Edward V. , Li Youjun
Published: April 2023

Supplementary Figure S6 shows that GNPAT and DRP1 inhibition alters serum TG levels, lipogenesis and FA uptake gene expression in DEN/CCl4-induced hepatocarcinogenesis in mice.
Supplementary Figure S4 from Amplification of Glyceronephosphate O-Acyltransferase and Recruitment of USP30 Stabilize DRP1 to Promote Hepatocarcinogenesis
Authors: Gu Li , Zhu Yahui , Lin Xi , Li Yajun , Cui Kaisa , Prochownik Edward V. , Li Youjun
Published: April 2023

Supplementary Figure S4 shows that knockout GNPAT or DRP1 retards tumor growth using CRISPR/Cas9 technology.
Figure S6 from YAP/TAZ Initiates Gastric Tumorigenesis via Upregulation of MYC
Authors: Choi Wonyoung , Kim Jeongsik , Park Jaeoh , Lee Da-Hye , Hwang Daehee , Kim Jeong-Hwan , Ashktorab Hassan , Smoot Duane , Kim Seon-Young , Choi Chan , Koh Gou Young , Lim Dae-Sik
Published: April 2023

MYC is transcriptionally regulated by YAP
Supplementary Figures and Table from Emerin Deregulation Links Nuclear Shape Instability to Metastatic Potential
Authors: Reis-Sobreiro Mariana , Chen Jie-Fu , Novitskaya Tatiana , You Sungyong , Morley Samantha , Steadman Kenneth , Gill Navjot Kaur , Eskaros Adel , Rotinen Mirja , Chu Chia-Yi , Chung Leland W.K. , Tanaka Hisashi , Yang Wei , Knudsen Beatrice S. , Tseng Hsian-Rong , Rowat Amy C. , Posadas Edwin M. , Zijlstra Andries , Di Vizio Dolores , Freeman Michael R.
Published: April 2023

Emerin deregulation links nuclear shape instability to metastatic potential
Supplementary Material and Methods; Supplementary Tables 1-6; and Supplementary Figure S1-15 from A G3BP1-Interacting lncRNA Promotes Ferroptosis and Apoptosis in Cancer via Nuclear Sequestration of p53
Authors: Mao Chao , Wang Xiang , Liu Yating , Wang Min , Yan Bin , Jiang Yiqun , Shi Ying , Shen Yi , Liu Xiaoli , Lai Weiwei , Yang Rui , Xiao Desheng , Cheng Yan , Liu Shuang , Zhou Hu , Cao Ya , Yu Weishi , Muegge Kathrin , Yu Herbert , Tao Yongguang
Published: April 2023

Supplementary Material and Methods; Supplementary Tables 1-6; and Supplementary Figure S1-15. Figure S1 shows the P53RRA RNA levels were downregulated in cancer tissues and cells; Figure S2 shows LSH increased DNA methylation in the promoter of P53RRA; Figure S3 shows Cfp1 was overexpressed in lung cancer and Cfp1 did not affect DNA methylation of P53RRA; Figure S4 shows analysis of RNA sequencing; Figure S5 shows P53RRA affects the expression level of metabolic genes at the transcriptome level; Figure S6 shows P53RRA affects the expression level of metabolic genes; Figure S7 shows P53RRA promotes cell cycle progression and apoptosis; Figure S8 shows G3BP1 does not affect the expression and sublocalization of P53RRA and G3BP1 promotes lung cancer progression; Figure S9 shows p53 regulated P53RRA target genes; Figure S10 shows G3BP1 regulated the recruitment of p53 to the P53RRA target gene; Figure S11 shows P53RRA regulated the recruitment of p53 to the P53RRA target genes; Figure S12 shows G3BP1 promoted the distribution of p53 in the cytoplasm; Figure S13 shows p53 does not affect P53RRA expression and P53RRA regulates p53 signaling pathway in a dependent manner of p53 signaling; Figure S14 shows P53RRA reduction predicts poor clinical outcome in patients with cancer; Figure S15 shows a schematic model for a lincRNA, P53RRA, as a tumor suppressor in cancer progression.
Figure S5 from Zika Virus Selectively Kills Aggressive Human Embryonal CNS Tumor Cells In Vitro and In Vivo
Authors: Kaid Carolini , Goulart Ernesto , Caires-Júnior Luiz C. , Araujo Bruno H.S. , Soares-Schanoski Alessandra , Bueno Heloisa M.S. , Telles-Silva Kayque A. , Astray Renato M. , Assoni Amanda F. , Júnior Antônio F.R. , Ventini Daniella C. , Puglia Ana L.P. , Gomes Roselane P. , Zatz Mayana , Okamoto Oswaldo K.
Published: April 2023

Histological analysis of brains from tumor bearing mice, overall survival curves and ZIKVBR load in different tissues of BALB/c Nude mice.
Figure S4 from Astrocyte Elevated Gene-1 Regulates Macrophage Activation in Hepatocellular Carcinogenesis
Authors: Robertson Chadia L. , Mendoza Rachel G. , Jariwala Nidhi , Dozmorov Mikhail , Mukhopadhyay Nitai D. , Subler Mark A. , Windle Jolene J. , Lai Zhao , Fisher Paul B. , Ghosh Shobha , Sarkar Devanand
Published: April 2023

This figure shows Western blot of DNA damage pathway proteins in hepatocytes.
Figure S2 from Astrocyte Elevated Gene-1 Regulates Macrophage Activation in Hepatocellular Carcinogenesis
Authors: Robertson Chadia L. , Mendoza Rachel G. , Jariwala Nidhi , Dozmorov Mikhail , Mukhopadhyay Nitai D. , Subler Mark A. , Windle Jolene J. , Lai Zhao , Fisher Paul B. , Ghosh Shobha , Sarkar Devanand
Published: April 2023

This figure shows AEG-1 expression in Kupffer cells.
Supplementary table 3-5 from Patient-Derived Xenograft Models Reveal Intratumor Heterogeneity and Temporal Stability in Neuroblastoma
Authors: Braekeveldt Noémie , von Stedingk Kristoffer , Fransson Susanne , Martinez-Monleon Angela , Lindgren David , Axelson Håkan , Levander Fredrik , Willforss Jakob , Hansson Karin , Øra Ingrid , Backman Torbjörn , Börjesson Anna , Beckman Siv , Esfandyari Javanshir , Berbegall Ana P. , Noguera Rosa , Karlsson Jenny , Koster Jan , Martinsson Tommy , Gisselsson David , Påhlman Sven , Bexell Daniel
Published: April 2023

Supplementary Table S3. Related to Figure 3. Gene ontology for genes with higher expression in patient tumors vs. PDOXs. Supplementary Table S4. Related to Figure 3. List of the gene clusters defined across PDOXs #1-5 obtained from serial orthotopic passaging. Supplementary Table S5. Related to Figure 3. List of enriched Gene Ontology terms by cluster defined in PDOXs #1-5.
Supplementary Figure 7 from CRISPR/Cas9-Mediated Knockout of DGK Improves Antitumor Activities of Human T Cells
Authors: Jung In-Young , Kim Yoon-Young , Yu Ho-Sung , Lee Myoungsoo , Kim Seokjoong , Lee Jungmin
Published: April 2023

DGK KO enhances T cell proliferation despite of FAS-mediated Activation Induced Cell Death (AICD) in 139 CAR-T cells.
Supplementary Figure 6 from CRISPR/Cas9-Mediated Knockout of DGK Improves Antitumor Activities of Human T Cells
Authors: Jung In-Young , Kim Yoon-Young , Yu Ho-Sung , Lee Myoungsoo , Kim Seokjoong , Lee Jungmin
Published: April 2023

DGK KO in CAR-T and TCR-T cells enhances anti-tumor functions and resistance to TGF-β and PGE2.
Figure S3 from Patient-Derived Xenograft Models Reveal Intratumor Heterogeneity and Temporal Stability in Neuroblastoma
Authors: Braekeveldt Noémie , von Stedingk Kristoffer , Fransson Susanne , Martinez-Monleon Angela , Lindgren David , Axelson Håkan , Levander Fredrik , Willforss Jakob , Hansson Karin , Øra Ingrid , Backman Torbjörn , Börjesson Anna , Beckman Siv , Esfandyari Javanshir , Berbegall Ana P. , Noguera Rosa , Karlsson Jenny , Koster Jan , Martinsson Tommy , Gisselsson David , Påhlman Sven , Bexell Daniel
Published: April 2023

Supplementary Figure S3. Related to Figure 5. Proteomic analysis of multiple samples derived from Patient #5.
Figure S1 from Patient-Derived Xenograft Models Reveal Intratumor Heterogeneity and Temporal Stability in Neuroblastoma
Authors: Braekeveldt Noémie , von Stedingk Kristoffer , Fransson Susanne , Martinez-Monleon Angela , Lindgren David , Axelson Håkan , Levander Fredrik , Willforss Jakob , Hansson Karin , Øra Ingrid , Backman Torbjörn , Börjesson Anna , Beckman Siv , Esfandyari Javanshir , Berbegall Ana P. , Noguera Rosa , Karlsson Jenny , Koster Jan , Martinsson Tommy , Gisselsson David , Påhlman Sven , Bexell Daniel
Published: April 2023

Supplementary Figure S1. Related to Figure 3. Correlation of PDOX gene signatures to overall survival.
Supplementary Fig. S2 from CAMKK2 Promotes Prostate Cancer Independently of AMPK via Increased Lipogenesis
Authors: Penfold Lucy , Woods Angela , Muckett Phillip , Nikitin Alexander Yu. , Kent Tera R. , Zhang Shuai , Graham Rebecca , Pollard Alice , Carling David
Published: April 2023

Representative images of histology for prostate sections from Pten and Pten;Camkk2 mice
Table S1 from Influence of Smoking, Body Mass Index, and Other Factors on the Preventive Effect of Nonsteroidal Anti-Inflammatory Drugs on Colorectal Cancer Risk
Authors: Wang Xiaoliang , Chan Andrew T. , Slattery Martha L. , Chang-Claude Jenny , Potter John D. , Gallinger Steven , Caan Bette , Lampe Johanna W. , Newcomb Polly A. , Zubair Niha , Hsu Li , Schoen Robert E. , Hoffmeister Michael , Brenner Hermann , Le Marchand Loic , Peters Ulrike , White Emily
Published: April 2023

Table S1 shows similar results of interactions between BMI/smoking and NSAID use, using multiple imputation for missing values.
Supplemental Figure S2 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 S2. Schematic representation of treatment groups and experimental timeline to measure the impact of PtdSer liposomes on the TME of 4T1 mouse mammary tumors IHC to detect CD3, and FoxP3 in tumors collected on treatment day 7. Quantitation of the number of positive cells per 200X field is shown. Each data point is the average of 5 random fields per tumor, midlines are the average of N = 3 samples, {plus minus}S.D. P values, Student's unpaired 2-tailed T-test.
Figure S8 from Mammary Precancerous Stem and Non-Stem Cells Evolve into Cancers of Distinct Subtypes
Authors: Bu Wen , Liu Zhenyu , Jiang Weiyu , Nagi Chandandeep , Huang Shixia , Edwards Dean P. , Jo Eunji , Mo Qianxing , Creighton Chad J. , Hilsenbeck Susan G. , Leavitt Andrew D. , Lewis Michael T. , Wong Stephen T. C. , Li Yi
Published: April 2023

Additional information on the histopathological characteristics of tumors originated from KRT6A+ and WAP+ cells.
Table S12 from Transcriptomic Differences between Primary Colorectal Adenocarcinomas and Distant Metastases Reveal Metastatic Colorectal Cancer Subtypes
Authors: Kamal Yasmin , Schmit Stephanie L. , Hoehn Hannah J. , Amos Christopher I. , Frost H. Robert
Published: April 2023

Table S12. Pathway enrichment differences between M1 and M2 clusters in the MCC and Consortium datasets: Hallmark, Reactome, and entire C2 Collections
Figure S5 from Mammary Precancerous Stem and Non-Stem Cells Evolve into Cancers of Distinct Subtypes
Authors: Bu Wen , Liu Zhenyu , Jiang Weiyu , Nagi Chandandeep , Huang Shixia , Edwards Dean P. , Jo Eunji , Mo Qianxing , Creighton Chad J. , Hilsenbeck Susan G. , Leavitt Andrew D. , Lewis Michael T. , Wong Stephen T. C. , Li Yi
Published: April 2023

RCAS-KrasG12D can induce tumors from KRT6A+ cells in K6a-tva/MMTV-Wnt1 mouse precancerous lesions.
Figure S4 from Mammary Precancerous Stem and Non-Stem Cells Evolve into Cancers of Distinct Subtypes
Authors: Bu Wen , Liu Zhenyu , Jiang Weiyu , Nagi Chandandeep , Huang Shixia , Edwards Dean P. , Jo Eunji , Mo Qianxing , Creighton Chad J. , Hilsenbeck Susan G. , Leavitt Andrew D. , Lewis Michael T. , Wong Stephen T. C. , Li Yi
Published: April 2023

HrasQ61L is not sufficient to induce tumors from KRT6a+ cells in normal mammary glands.
Supplementary Data - Publication Only from The Hippo Pathway Component TAZ Promotes Immune Evasion in Human Cancer through PD-L1
Authors: Janse van Rensburg Helena J. , Azad Taha , Ling Min , Hao Yawei , Snetsinger Brooke , Khanal Prem , Minassian Lori M. , Graham Charles H. , Rauh Michael J. , Yang Xiaolong
Published: April 2023

This file contains supplementary figures summarizing control experiments that support conclusions from the main text. Figure S1: Candidates from our NanoString screen are not upregulated due to EMT or doxycycline treatment. Figure S2: CYR61 mRNA expression is regulated by modulation of the Hippo pathway. Figure S3: Clinical datasets support a relationship between TAZ, YAP and PD-L1. Figure S4: Pd-l1, Pd-l2, S1pr1 and Nlrp3 are differentially regulated by YAP/TAZ in human and mouse cell lines. Figure S5: Candidates from our mouse NanoString screen are not upregulated due to doxycycline treatment. This file also contains Supplementary Methods.
Supplemental Information from An Inhibitor of the Pleckstrin Homology Domain of CNK1 Selectively Blocks the Growth of Mutant KRAS Cells and Tumors
Authors: Indarte Martin , Puentes Roisin , Maruggi Marco , Ihle Nathan T. , Grandjean Geoffrey , Scott Michael , Ahmed Zamal , Meuillet Emmanuelle J. , Zhang Shuxing , Lemos Robert , Du-Cuny Lei , Layng Fabiana I.A.L. , Correa Ricardo G. , Bankston Laurie A. , Liddington Robert C. , Kirkpatrick Lynn , Powis Garth
Published: April 2023

An inhibitor of the pleckstrin homology domain of CNK1 selectively blocks the growth of mutant KRAS cells and tumors Supplemental Information
Supplementary Data from A Near-Infrared Phosphorescent Nanoprobe Enables Quantitative, Longitudinal Imaging of Tumor Hypoxia Dynamics during Radiotherapy
Authors: Zheng Xianchuang , Cui Liyang , Chen Min , Soto Luis A. , Graves Edward E. , Rao Jianghong
Published: April 2023

SF1: Zeta-potential of the nanoprobe; SF2: Absorption spectrum; SF3: Specificity test; SF4&5: Cytotoxicity test in HeLa and RWPE-1 cells; SF6: Validating probe response to tumor hypoxia; SF7: Bio-distribution study; SF8: Immunofluorescence study on H460 tumor; SF9&10: Hypoxia measurement at different tumor sizes and types; SF11: Reversible response of the nanoprobe to hypoxia; SF12: Stability of the nanoprobe upon radiation; SF13-15: Imaging tumor hypoxia dynamics during RT at different tumor sizes and types; SF16: Correlation between tumor hypoxia and treatment efficacy; SF17&18: Imaging tumor hypoxia dynamics during RT on H1299 tumor; SF19: Monitoring the response of tumor hypoxia upon drug treatment; Supplementary methods: materials, instrument, and procedures for cell uptake and cytotoxicity test, immunofluorescence staining, and in vivo hypoxia imaging.
Supplementary Table from Cholesterol Induces Epithelial-to-Mesenchymal Transition of Prostate Cancer Cells by Suppressing Degradation of EGFR through APMAP
Authors: Jiang Siyuan , Wang Xuetong , Song Dalong , Liu XiaoJun , Gu Yinmin , Xu Zhiyuan , Wang Xiaodong , Zhang Xiaolu , Ye Qinong , Tong Zhou , Yan BingXue , Yu Jie , Chen Yunzhao , Sun Minxuan , Wang Yang , Gao Shan
Published: April 2023

Supplementary Table S1-S8, the first line of each table contains the description of the table.
Supplementary Data from DFMO and 5-Azacytidine Increase M1 Macrophages in the Tumor Microenvironment of Murine Ovarian Cancer
Authors: Travers Meghan , Brown Stephen M. , Dunworth Matthew , Holbert Cassandra E. , Wiehagen Karla R. , Bachman Kurtis E. , Foley Jackson R. , Stone Meredith L. , Baylin Stephen B. , Casero Robert A. , Zahnow Cynthia A.
Published: April 2023

Supplementary data including polyamine levels, addition of anti-PD-1 to therapy, and flow cytometry plots.
Table S2 from Single-Cell Analysis Reveals a Preexisting Drug-Resistant Subpopulation in the Luminal Breast Cancer Subtype
Authors: Prieto-Vila Marta , Usuba Wataru , Takahashi Ryou-u , Shimomura Iwao , Sasaki Hideo , Ochiya Takahiro , Yamamoto Yusuke
Published: April 2023

Table S2. Characteristic of clinical samples
Table S1 from Single-Cell Analysis Reveals a Preexisting Drug-Resistant Subpopulation in the Luminal Breast Cancer Subtype
Authors: Prieto-Vila Marta , Usuba Wataru , Takahashi Ryou-u , Shimomura Iwao , Sasaki Hideo , Ochiya Takahiro , Yamamoto Yusuke
Published: April 2023

Table S1. List of TaqMan probes used for the 95-primer set.
Supplementary Figures S1-S7 from Single-Cell Analysis Reveals a Preexisting Drug-Resistant Subpopulation in the Luminal Breast Cancer Subtype
Authors: Prieto-Vila Marta , Usuba Wataru , Takahashi Ryou-u , Shimomura Iwao , Sasaki Hideo , Ochiya Takahiro , Yamamoto Yusuke
Published: April 2023

Figure S1. Schematic representation of workflow for single-cell isolation and sc-qPCR. Figure S2. Violin plot of each individual gene expression along drug resistance acquisition. Figure S3. Correlation of several genes expressed at the single-cell level, separated by cell type as represented by the color of each dot. Figure S4. Lef1, Vim and Cav1 protein expression in several Luminal breast cancer cell lines. Figure S5. Larger visual fields showing immunostaining in tissue samples. Figure S6. Clinical information regarding the role of Lef1 in stained tissue samples. Figure S7. Comparison of Lef1 protein levels in MCF7 and derivatives.
Supplementary Figures and Tables from Integrative Pharmacogenomics Analysis of Patient-Derived Xenografts
Authors: Mer Arvind S. , Ba-Alawi Wail , Smirnov Petr , Wang Yi X. , Brew Ben , Ortmann Janosch , Tsao Ming-Sound , Cescon David W. , Goldenberg Anna , Haibe-Kains Benjamin
Published: April 2023

Supplementary figures and tables
Supplementary Data File 5 from Integrative Pharmacogenomics Analysis of Patient-Derived Xenografts
Authors: Mer Arvind S. , Ba-Alawi Wail , Smirnov Petr , Wang Yi X. , Brew Ben , Ortmann Janosch , Tsao Ming-Sound , Cescon David W. , Goldenberg Anna , Haibe-Kains Benjamin
Published: April 2023

Analysis of drug response predicting biomarkers in PDXE dataset. For each tissue type and drug, association between genomic features (mutation copy number variation and gene expression) and drug response in PDXs are reported.
Figure S5 from PGC1α Inhibits Polyamine Synthesis to Suppress Prostate Cancer Aggressiveness
Authors: Kaminski Lisa , Torrino Stéphanie , Dufies Maeva , Djabari Zied , Haider Romain , Roustan François-René , Jaune Emilie , Laurent Kathiane , Nottet Nicolas , Michiels Jean-François , Gesson Maeva , Rocchi Stéphane , Mazure Nathalie M. , Durand Matthieu , Tanti Jean-François , Ambrosetti Damien , Clavel Stephan , Ben-Sahra Issam , Bost Frédéric
Published: April 2023

PGC-1a, c-MYC and ODC1 expression in the Taylor database
Figure S4 from PGC1α Inhibits Polyamine Synthesis to Suppress Prostate Cancer Aggressiveness
Authors: Kaminski Lisa , Torrino Stéphanie , Dufies Maeva , Djabari Zied , Haider Romain , Roustan François-René , Jaune Emilie , Laurent Kathiane , Nottet Nicolas , Michiels Jean-François , Gesson Maeva , Rocchi Stéphane , Mazure Nathalie M. , Durand Matthieu , Tanti Jean-François , Ambrosetti Damien , Clavel Stephan , Ben-Sahra Issam , Bost Frédéric
Published: April 2023

Lung micrometastasis
Figure S1 from PGC1α Inhibits Polyamine Synthesis to Suppress Prostate Cancer Aggressiveness
Authors: Kaminski Lisa , Torrino Stéphanie , Dufies Maeva , Djabari Zied , Haider Romain , Roustan François-René , Jaune Emilie , Laurent Kathiane , Nottet Nicolas , Michiels Jean-François , Gesson Maeva , Rocchi Stéphane , Mazure Nathalie M. , Durand Matthieu , Tanti Jean-François , Ambrosetti Damien , Clavel Stephan , Ben-Sahra Issam , Bost Frédéric
Published: April 2023

PGC-1a suppresses PCa cell aggressiveness and polyamine synthesis
Supplementary Table 1 from Loss of the BCR-FGFR1 GEF Domain Suppresses RHOA Activation and Enhances B-Lymphomagenesis in Mice
Authors: Hu Tianxiang , Chong Yating , Lu Sumin , Qin Haiyan , Ren Mingqiang , Savage Natasha M. , Chang Chang-Sheng , Cowell John K
Published: April 2023

Normalized RPPA data for BaF3 cells transformed with BCR-FGFR1 and Del GEF showing relative fold changes >1.2.
Figure S3 from Poly (ADP) Ribose Glycohydrolase Can Be Effectively Targeted in Pancreatic Cancer
Authors: Jain Aditi , Agostini Lebaron C. , McCarthy Grace A. , Chand Saswati N. , Ramirez AnnJosette , Nevler Avinoam , Cozzitorto Joseph , Schultz Christopher W. , Lowder Cinthya Yabar , Smith Kate M. , Waddell Ian D. , Raitses-Gurevich Maria , Stossel Chani , Gorman Yulia Glick , Atias Dikla , Yeo Charles J. , Winter Jordan M. , Olive Kenneth P. , Golan Talia , Pishvaian Michael J. , Ogilvie Donald , James Dominic I. , Jordan Allan M. , Brody Jonathan R.
Published: April 2023

Supplementary Figure S3 describes synthetic lethality of olaparib with siDDR in PDAC.
Supplementary Data from Targeting BCR-ABL1 in Chronic Myeloid Leukemia by PROTAC-Mediated Targeted Protein Degradation
Authors: Burslem George M. , Schultz Anna Reister , Bondeson Daniel P. , Eide Christopher A. , Savage Stevens Samantha L. , Druker Brian J. , Crews Craig M.
Published: April 2023

Synthetic procedures and characterization for the preparation of compounds used within this study.
Supplementary Video 2 from A Direct Podocalyxin–Dynamin-2 Interaction Regulates Cytoskeletal Dynamics to Promote Migration and Metastasis in Pancreatic Cancer Cells
Authors: Wong Bin Sheng , Shea Daniel J. , Mistriotis Panagiotis , Tuntithavornwat Soontorn , Law Robert A. , Bieber Jake M. , Zheng Lei , Konstantopoulos Konstantinos
Published: April 2023

PODXL knockdown suppresses chemotactic migration of pancreatic cancer cells inside PDMS-based microchannels of prescribed widths. Representative scramble control (top) and PODXL-KD (bottom) cells migrating inside microchannels of 200 µm in length, 10µm in height, and either 6, 10, 20 or 50 µm in width. Scale bar represents 50µm. Related to Fig. 1E.
Figure S2 from Glutamate Decarboxylase 65 Signals through the Androgen Receptor to Promote Castration Resistance in Prostate Cancer
Authors: Gao Yi , Chen Lu , Du ZunGuo , Gao WenChao , Wu ZhengMing , Liu XiuJuan , Huang Hai , Xu DanFeng , Li QingQuan
Published: April 2023

Figure S2 shows increased GAD65 enzymatic activity caused by phosphorylation at serine 6
Supplementary Figure S1-S10 from Long Noncoding RNA ELIT-1 Acts as a Smad3 Cofactor to Facilitate TGFβ/Smad Signaling and Promote Epithelial–Mesenchymal Transition
Authors: Sakai Satoshi , Ohhata Tatsuya , Kitagawa Kyoko , Uchida Chiharu , Aoshima Takuya , Niida Hiroyuki , Suzuki Tetsuro , Inoue Yasumichi , Miyazawa Keiji , Kitagawa Masatoshi
Published: April 2023

FS1:Representative photographs of Fig. 1A; FS2:EMT-related gene expression; FS3:Snail induction by TGF-ÃŸ; FS4:Contribution of ELIT-1 on Snail expression; FS5:Effects on cell proliferation; FS6: EMT-related gene expression by ELIT-1; FS7:Smad3 binding to promoters; FS8:Effects of ELIT-1 overexpression (expression); FS9:Effect of ELIT-1 on heterodimer formation and translocation; FS10: Effects of ELIT-1 overexpression (ChIP)
Table S2 from Genetic Variants of VEGFA and FLT4 Are Determinants of Survival in Renal Cell Carcinoma Patients Treated with Sorafenib
Authors: Crona Daniel J. , Skol Andrew D. , Leppänen Veli-Matti , Glubb Dylan M. , Etheridge Amy S. , Hilliard Eleanor , Peña Carol E. , Peterson Yuri K. , Klauber-DeMore Nancy , Alitalo Kari K. , Innocenti Federico
Published: April 2023

Bioinformatic analyses.
Supplementary Methods and Materials from Genetic Variants of VEGFA and FLT4 Are Determinants of Survival in Renal Cell Carcinoma Patients Treated with Sorafenib
Authors: Crona Daniel J. , Skol Andrew D. , Leppänen Veli-Matti , Glubb Dylan M. , Etheridge Amy S. , Hilliard Eleanor , Peña Carol E. , Peterson Yuri K. , Klauber-DeMore Nancy , Alitalo Kari K. , Innocenti Federico
Published: April 2023

SNP selection criteria, imputation and bioinformatic analyses
Table S2 from Gaussian Mixture Models for Probabilistic Classification of Breast Cancer
Authors: Prabakaran Indira , Wu Zhengdong , Lee Changgun , Tong Brian , Steeman Samantha , Koo Gabriel , Zhang Paul J. , Guvakova Marina A.
Published: April 2023

Table S2. Summary of ESR1, PGR, ERBB2, and IGF1R gene expression levels in human breast cancer cell lines.
Supplementary Figures S1-S9 from Activation of PP2A and Inhibition of mTOR Synergistically Reduce MYC Signaling and Decrease Tumor Growth in Pancreatic Ductal Adenocarcinoma
Authors: Allen-Petersen Brittany L. , Risom Tyler , Feng Zipei , Wang Zhiping , Jenny Zina P. , Thoma Mary C. , Pelz Katherine R. , Morton Jennifer P. , Sansom Owen J. , Lopez Charles D. , Sheppard Brett , Christensen Dale J. , Ohlmeyer Michael , Narla Goutham , Sears Rosalie C.
Published: April 2023

Supplemental Figures S1-S9. S1: Kinase inhibitor screen and response of OP449 and INK128. S2: CI values for DT1154 combined with INK128 and viability curves. S3: Kmeans clusters and signaling in response to PP2A activators and INK128. S4: Oncoprint and survival curves of patients with alterations in the MYC/mTOR pathway. S5: pT58 MYC expression levels in PDA cells treated with DT1154 and INK128. S6: Signaling with B56a knockdown or T58A MYC overexpression in response to DT1154 and INK128 treatment. S7: Signaling showing decreased expression of MYC increases the efficacy of INK128. S8: Treatment of KPC and KPCM/+ cell lines with BEZ235, Dasatinib, and Sunitinib. S9: Endpoint analysis of long- and short-term in vivo treatment with DT1154 and INK128.
Supplementary Table S5 from Multiparametric MRI and Coregistered Histology Identify Tumor Habitats in Breast Cancer Mouse Models
Authors: Jardim-Perassi Bruna V. , Huang Suning , Dominguez-Viqueira William , Poleszczuk Jan , Budzevich Mikalai M. , Abdalah Mahmoud A. , Pillai Smitha R. , Ruiz Epifanio , Bui Marilyn M. , Zuccari Debora A.P.C. , Gillies Robert J. , Martinez Gary V.
Published: April 2023

Similarity index based on the weighted moving/sliding window was used to quantify the agreement between the habitat-maps derived from MRI and histology. MRI-habitat maps were generated by clustering five MRI-parameters ((T2-map, T2*-map, Slope, Area under the curve (AUC) and time to max (TTM)).
Supplementary Table S2 from Deletion of the Miz-1 POZ Domain Increases Efficacy of Cytarabine Treatment in T- and B-ALL/Lymphoma Mouse Models
Authors: Ross Julie , Rashkovan Marissa , Fraszczak Jennifer , Joly-Beauparlant Charles , Vadnais Charles , Winkler René , Droit Arnaud , Kosan Christian , Möröy Tarik
Published: April 2023

GSEA replication
Supplemental tables from LINE-1 Retrotransposition Promotes the Development and Progression of Lung Squamous Cell Carcinoma by Disrupting the Tumor-Suppressor Gene FGGY
Authors: Zhang Rui , Zhang Fan , Sun Zeguo , Liu Pengpeng , Zhang Xiao , Ye Yingnan , Cai Beiqi , Walsh Martin J. , Ren Xiubao , Hao Xishan , Zhang Weijia , Yu Jinpu
Published: April 2023

Table S1. The sequences of primers for detection of the candidate LINE-1 RTs and other related genes in RT-qPCR analysis. Table S2. Distributions of clinical pathological parameters of patients with different expression levels of LINE-1 RTs. Table S3. Distributions of clinical pathological parameters of patients with FGGY+ and FGGY-.
Figure S5 from LINE-1 Retrotransposition Promotes the Development and Progression of Lung Squamous Cell Carcinoma by Disrupting the Tumor-Suppressor Gene FGGY
Authors: Zhang Rui , Zhang Fan , Sun Zeguo , Liu Pengpeng , Zhang Xiao , Ye Yingnan , Cai Beiqi , Walsh Martin J. , Ren Xiubao , Hao Xishan , Zhang Weijia , Yu Jinpu
Published: April 2023

Validation of the oncogenic role of L1-FGGY and FGGY in SK-MES-1.
sFigure 6 from KRAS Oncoprotein Expression Is Regulated by a Self-Governing eIF5A-PEAK1 Feed-Forward Regulatory Loop
Authors: Fujimura Ken , Wang Huawei , Watson Felicia , Klemke Richard L.
Published: April 2023

Schematic of proposed working model for feedback regulation of KRas expression in PDAC cells by eIF5A-PEAK1
Supplementary Figure 2 from 2-Hydroxyglutarate-Mediated Autophagy of the Endoplasmic Reticulum Leads to an Unusual Downregulation of Phospholipid Biosynthesis in Mutant IDH1 Gliomas
Authors: Viswanath Pavithra , Radoul Marina , Izquierdo-Garcia Jose Luis , Ong Wei Qiang , Luchman Hema Artee , Cairncross J. Gregory , Huang Bo , Pieper Russell O. , Phillips Joanna J. , Ronen Sabrina M.
Published: April 2023

2-HG inhibits PtdCho and PtdE biosynthesis.
Supplementary Figure 1 from 2-Hydroxyglutarate-Mediated Autophagy of the Endoplasmic Reticulum Leads to an Unusual Downregulation of Phospholipid Biosynthesis in Mutant IDH1 Gliomas
Authors: Viswanath Pavithra , Radoul Marina , Izquierdo-Garcia Jose Luis , Ong Wei Qiang , Luchman Hema Artee , Cairncross J. Gregory , Huang Bo , Pieper Russell O. , Phillips Joanna J. , Ronen Sabrina M.
Published: April 2023

Phospholipid biosynthesis is down-regulated in IDHmut glioma cells.
Supplementary methods from TTPAL Promotes Colorectal Tumorigenesis by Stabilizing TRIP6 to Activate Wnt/β-Catenin Signaling
Authors: Gou Hongyan , Liang Jessie Qiaoyi , Zhang Lijing , Chen Huarong , Zhang Yanquan , Li Rui , Wang Xiaohong , Ji Jiafu , Tong Joanna H. , To Ka-Fai , Sung Joseph J.Y. , Chan Francis K.L. , Fang Jing-Yuan , Yu Jun
Published: April 2023

Supplementary methods
Movie S6 from A Human Organotypic Microfluidic Tumor Model Permits Investigation of the Interplay between Patient-Derived Fibroblasts and Breast Cancer Cells
Authors: Truong Danh D. , Kratz Alexander , Park Jin G. , Barrientos Eric S. , Saini Harpinder , Nguyen Toan , Pockaj Barbara , Mouneimne Ghassan , LaBaer Joshua , Nikkhah Mehdi
Published: April 2023

Time-lapse imaging of shG #4 line migrating through the 3D stroma.
Table S1 from The Transcriptional Regulator Sin3A Contributes to the Oncogenic Potential of STAT3
Authors: Gambi Giovanni , Di Simone Elisabetta , Basso Veronica , Ricci Luisa , Wang Rui , Verma Akanksha , Elemento Olivier , Ponzoni Maurilio , Inghirami Giorgio , Icardi Laura , Mondino Anna
Published: April 2023

Primer pairs used in qRT-PCR and ChIP-PCR assays
Methods from A Human Organotypic Microfluidic Tumor Model Permits Investigation of the Interplay between Patient-Derived Fibroblasts and Breast Cancer Cells
Authors: Truong Danh D. , Kratz Alexander , Park Jin G. , Barrientos Eric S. , Saini Harpinder , Nguyen Toan , Pockaj Barbara , Mouneimne Ghassan , LaBaer Joshua , Nikkhah Mehdi
Published: April 2023

This files includes detailed methods used in this study. It contains method on Microfluidic design and fabrication; Fibroblast isolation and characterization; Proliferation assay; Immunofluorescent staining; Western blotting; Gene expression profiling; Breast Cancer dataset analysis; Vectors and Gene transduction; qPCR; Imaging analysis.
Supplementary Data from Magnetic Resonance Imaging Is More Sensitive Than PET for Detecting Treatment-Induced Cell Death–Dependent Changes in Glycolysis
Authors: Hesketh Richard L. , Wang Jiazheng , Wright Alan J. , Lewis David Y. , Denton Alice E. , Grenfell Richard , Miller Jodi L. , Bielik Robert , Gehrung Marcel , Fala Maria , Ros Susana , Xie Bangwen , Hu De-en , Brindle Kevin M.
Published: April 2023

Figure S1. Timeline of injections and imaging for the main treatment-response study. Figure S2. Tumor volume measurements for (a) Colo205 and (b) MDA-MB-231 tumors (b & e) before and (c & f) 24 h after MEDI3039 treatment. Figure S3. Confirmation that [18F]FDG uptake was similar before and 24 h after treatment. Examples of autoradiography of whole-body axial sections of Colo205 tumor-bearing mice (the tumors are outlined) before (a - c) and 24 h after treatment (d - f). Figure S4. Dynamic contrast enhanced MRI measurements of perfusion in Colo205 tumors before and 24 h after treatment with MEDI3039. Figure S5. RadioHPLC measurements of [18F]FDG metabolism in Colo205 tumors 24 h after control (drug vehicle) or MEDI3039 treatment. Table S1. Colo205 mice that underwent fluorescence, bioluminescence, hyperpolarized MR and PET-CT imaging and reasons for their exclusion. Table S2. MDA-MB-231 mice that underwent fluorescence, bioluminescence, hyperpolarized MR and PET-CT imaging and reasons for their exclusion. Table S3. Antibodies used for Western blotting. Table S4. Expression of the transporters and enzymes and the activities of the enzymes involved in [18F]FDG and [1-13C]pyruvate uptake and metabolism in Colo205 tumors.
Supplementary Data from Transketolase Deficiency Protects the Liver from DNA Damage by Increasing Levels of Ribose 5-Phosphate and Nucleotides
Authors: Li Minle , Lu Ying , Li Yakui , Tong Lingfeng , Gu Xiao-chuan , Meng Jian , Zhu Yemin , Wu Lifang , Feng Ming , Tian Na , Zhang Ping , Xu Tianle , Lin Shu-Hai , Tong Xuemei
Published: April 2023

Supplementary materials, methods and figures
Supplementary Figure S1-S5, and Tables S1-S8 from DIS3L2 Promotes Progression of Hepatocellular Carcinoma via hnRNP U-Mediated Alternative Splicing
Authors: Xing Songge , Li Zhaoyong , Ma Wenhao , He Xiaoping , Shen Shengqi , Wei Haoran , Li Shi-Ting , Shu Ying , Sun Linchong , Zhong Xiuying , Huangfu Yuhao , Su Lanhong , Feng Junru , Zhang Xiaozhang , Gao Ping , Jia Wei-Dong , Zhang Huafeng
Published: April 2023

Supplementary Figures: SF1, DIS3L2 promotes cell growth in Hep3B and HepG2 cells. SF2, DIS3L2 interacts hnRNP U in Hep3B and HepG2 hepatocellular carcinoma cells. SF3, DIS3L2 and hnRNP U promote exon 3b inclusion during pre-Rac1 splicing. SF14, The effect of knockdown of pre-Rac1. SF5, DIS3L2 promotes HCC growth via Rac1b. Supplementary Tables: Table S1, clinicopathological characteristics of clinical samples. Table S2, the expression of DIS3L2 in relation to clinicopathological characteristics of liver cancer patients by the chi-square test. Table S3, the correlation between DIS3L2 and clinicopathological characteristics of clinical samples by Spearman analysis. Table S4, Univariate analysis and multivariate analyses of parameters associated with overall survival of HCC patients. Table S5-S7, Nucleotide sequences of primers used for semi-RT-PCR, RIP assays, quantitative real-time RT-PCR. Table S8, Sequences of the oligonucleotides for shRNA.
Supplementary Figures from MDM2 Derived from Dedifferentiated Liposarcoma Extracellular Vesicles Induces MMP2 Production from Preadipocytes
Authors: Casadei Lucia , Calore Federica , Braggio Danielle A. , Zewdu Abeba , Deshmukh Ameya A. , Fadda Paolo , Lopez Gonzalo , Wabitsch Martin , Song Chi , Leight Jennifer L. , Grignol Valerie P. , Lev Dina , Croce Carlo M. , Pollock Raphael E.
Published: April 2023

Supplemental Figures are: SF1: Determination of number of molecules of MDM2 in the serum-EVs using Standard Curve Methodology. SF2: Quality control of cell line-isolated vesicles, performed through nanosight and western blot analyses. SF3: Nanosight analysis performed on serum-derived EVs. SF4: Original film corresponding to Figure 3. SF5: WB showing a compensatory increase in MDM2 expression depending on SAR405838 treatment. SF6: WB showing MDM2 protein levels in Lipo863 and Lipo863 OE. SF7: Number of MDM2 molecules assessed in healthy serum EVs versus DDLPS serum EVs.
Supplementary Figure 5 from Exosomes from Nischarin-Expressing Cells Reduce Breast Cancer Cell Motility and Tumor Growth
Authors: Maziveyi Mazvita , Dong Shengli , Baranwal Somesh , Mehrnezhad Ali , Rathinam Rajamani , Huckaba Thomas M. , Mercante Donald E. , Park Kidong , Alahari Suresh K.
Published: April 2023

Schematic Representation of the Effects of Nischarin on Breast Cancer Cell Motility through Exosomes
Supplementary Figure 3 from Exosomes from Nischarin-Expressing Cells Reduce Breast Cancer Cell Motility and Tumor Growth
Authors: Maziveyi Mazvita , Dong Shengli , Baranwal Somesh , Mehrnezhad Ali , Rathinam Rajamani , Huckaba Thomas M. , Mercante Donald E. , Park Kidong , Alahari Suresh K.
Published: April 2023

Exosomes from Nischarin Tumors Reduce Focal Adhesions and Cell Spreading
Supplementary Figure 1 from Exosomes from Nischarin-Expressing Cells Reduce Breast Cancer Cell Motility and Tumor Growth
Authors: Maziveyi Mazvita , Dong Shengli , Baranwal Somesh , Mehrnezhad Ali , Rathinam Rajamani , Huckaba Thomas M. , Mercante Donald E. , Park Kidong , Alahari Suresh K.
Published: April 2023

Nischarin Decreases the Attachment of Breast Cancer Cells
Supplemental materials and methods from Epithelial-to-Mesenchymal Transition Is a Mechanism of ALK Inhibitor Resistance in Lung Cancer Independent of ALK Mutation Status
Authors: Fukuda Koji , Takeuchi Shinji , Arai Sachiko , Katayama Ryohei , Nanjo Shigeki , Tanimoto Azusa , Nishiyama Akihiro , Nakagawa Takayuki , Taniguchi Hirokazu , Suzuki Takeshi , Yamada Tadaaki , Nishihara Hiroshi , Ninomiya Hironori , Ishikawa Yuichi , Baba Satoko , Takeuchi Kengo , Horiike Atsushi , Yanagitani Noriko , Nishio Makoto , Yano Seiji
Published: April 2023

Methods of immunofluorescence assay, wound healing assay and study approval.
FigureS1-S9, TableS1 from Epithelial-to-Mesenchymal Transition Is a Mechanism of ALK Inhibitor Resistance in Lung Cancer Independent of ALK Mutation Status
Authors: Fukuda Koji , Takeuchi Shinji , Arai Sachiko , Katayama Ryohei , Nanjo Shigeki , Tanimoto Azusa , Nishiyama Akihiro , Nakagawa Takayuki , Taniguchi Hirokazu , Suzuki Takeshi , Yamada Tadaaki , Nishihara Hiroshi , Ninomiya Hironori , Ishikawa Yuichi , Baba Satoko , Takeuchi Kengo , Horiike Atsushi , Yanagitani Noriko , Nishio Makoto , Yano Seiji
Published: April 2023

FigureS1 show that epithelial-pehotype-and mesenchymal-phenotype-tumor cells were detected in the brain lesion of clinical samples from EML4-ALK lung cancer patients treated with crizotinib. FigureS2 show analysis of bypass signaling pathways in the crizotinib resistant clones. FigureS3 show that TGF-β1 treatmend did not induce crizotinib-resistance in A925LPE3 cells. FigureS4 show effect of ZEB1 knockdown on restoring sensitivity to crizotinib in #3 cells. FIgureS5 show that a nano-luc expression vector for the miR-200c/141 reporter assay was constructed. FIgureS6 show that quisinostat reduced the motility and induced epithelial morphology in #4 cels. FigureS7 show that pre-treatment of quisinostat restored sensitivity to the second generation ALK-TKIs. FigureS8 show that pretreatment of quisinostat reverted EMT and restored sensitivity to EGFR-TKI in the EGFR-mutated NSCLC cell lines. FigureS9 show that sequential therapy with quisinostat reverted EMT and desapeared pleural in vivo. TableS1 show compounds of a 200 kinase inhibitor library.
Supplementary Figure 3 from Inhibitor of Differentiation-1 Sustains Mutant KRAS-Driven Progression, Maintenance, and Metastasis of Lung Adenocarcinoma via Regulation of a FOSL1 Network
Authors: Román Marta , López Inés , Guruceaga Elisabeth , Baraibar Iosune , Ecay Margarita , Collantes María , Nadal Ernest , Vallejo Adrián , Cadenas Silvia , Miguel Marta Echavarri-de , Jang Jae Hwi , Martin-Uriz Patxi San , Castro-Labrador Laura , Vilas-Zornoza Amaia , Lara-Astiaso David , Ponz-Sarvise Mariano , Rolfo Christian , Santos Edgardo S. , Raez Luis E. , Taverna Simona , Behrens Carmen , Weder Walter , Wistuba Ignacio I. , Vicent Silvestre , Gil-Bazo Ignacio
Published: April 2023

An Id1 gene signature is dependent of KEAP1-related genes and a FOSL1 network.
Supplementary Figure 1 from Inhibitor of Differentiation-1 Sustains Mutant KRAS-Driven Progression, Maintenance, and Metastasis of Lung Adenocarcinoma via Regulation of a FOSL1 Network
Authors: Román Marta , López Inés , Guruceaga Elisabeth , Baraibar Iosune , Ecay Margarita , Collantes María , Nadal Ernest , Vallejo Adrián , Cadenas Silvia , Miguel Marta Echavarri-de , Jang Jae Hwi , Martin-Uriz Patxi San , Castro-Labrador Laura , Vilas-Zornoza Amaia , Lara-Astiaso David , Ponz-Sarvise Mariano , Rolfo Christian , Santos Edgardo S. , Raez Luis E. , Taverna Simona , Behrens Carmen , Weder Walter , Wistuba Ignacio I. , Vicent Silvestre , Gil-Bazo Ignacio
Published: April 2023

Clinical implication of Id1 expression in LUAD patients.
Supplementary Figure S1-S8 from Low-Dose IFNγ Induces Tumor Cell Stemness in Tumor Microenvironment of Non–Small Cell Lung Cancer
Authors: Song Mengjia , Ping Yu , Zhang Kai , Yang Li , Li Feng , Zhang Chaoqi , Cheng Shaoyan , Yue Dongli , Maimela Nomathamsanqa Resegofetse , Qu Jiao , Liu Shasha , Sun Ting , Li Zihai , Xia Jianchuan , Zhang Bin , Wang Liping , Zhang Yi
Published: April 2023

The source of IFN-γ and its correlation with tumor stemness in NSCLC TME, the effects of IFN-γ on NSCLC cell apoptosis, proliferation and stemness in vitro, the effects of anti-IFN-γ antibody on ICAM1, IFNGR1 and IFNGR2 expression induced by IFN-γ, ICAM1 expression by NSCLC CSCs, the function of silibinin on the tumor growth induced by low-dose IFN-γ in nude mice, the percentage of CD133+ cells in each group before i.v. injection and the correlation of ICAM1 with tumor stemness in NSCLC patients from TCGA.
Supplementary File 4 from Modeling Cellular Response in Large-Scale Radiogenomic Databases to Advance Precision Radiotherapy
Authors: Manem Venkata SK. , Lambie Meghan , Smith Ian , Smirnov Petr , Kofia Victor , Freeman Mark , Koritzinsky Marianne , Abazeed Mohamed E. , Haibe-Kains Benjamin , Bratman Scott V.
Published: April 2023

Supplementary File 4 shows transcriptional pathways associated with radioresponse within distinct tissue types.
Supplementary Material from Tumor pH and Protein Concentration Contribute to the Signal of Amide Proton Transfer Magnetic Resonance Imaging
Authors: Ray Kevin J. , Simard Manon A. , Larkin James R. , Coates James , Kinchesh Paul , Smart Sean C. , Higgins Geoff S. , Chappell Michael A. , Sibson Nicola R.
Published: April 2023

Supplementary Material, including Supplementary Methods describing the Random Effects Model. Supplementary Results showing example quantitative T1/T2 maps from the rat tumour model (Supplementary Figure S1), the standard curve for making quantitative protein concentration measurements using Coomassie staining (Supplementary Figure S2), the result of a conventional MTRasym APT analysis approach in the rat tumour model (Supplementary Figure S3), and the histological validation that areas of high protein concentration correlate with areas of increased hypoxia, increased vessel area and higher cellularity in the rat tumour model (Supplementary Figure S4). Supplementary Table S1 shows the mean {plus minus} standard deviation of T1 and T2 relaxation times measured in different tissue ROIs from both the rat tumour and mouse tumour models.
Supplementary File 3 from Modeling Cellular Response in Large-Scale Radiogenomic Databases to Advance Precision Radiotherapy
Authors: Manem Venkata SK. , Lambie Meghan , Smith Ian , Smirnov Petr , Kofia Victor , Freeman Mark , Koritzinsky Marianne , Abazeed Mohamed E. , Haibe-Kains Benjamin , Bratman Scott V.
Published: April 2023

Supplementary File 3 shows gene expression correlation with radioresponse under simulated oxic and hypoxic conditions.
Supplementary File 1 from Modeling Cellular Response in Large-Scale Radiogenomic Databases to Advance Precision Radiotherapy
Authors: Manem Venkata SK. , Lambie Meghan , Smith Ian , Smirnov Petr , Kofia Victor , Freeman Mark , Koritzinsky Marianne , Abazeed Mohamed E. , Haibe-Kains Benjamin , Bratman Scott V.
Published: April 2023

Supplementary File 1 shows transcriptional pathways associated with the radioresponse indicators SF2 or AUC.
Supplementary Data from BET Inhibitors Potentiate Chemotherapy and Killing of SPOP-Mutant Colon Cancer Cells via Induction of DR5
Authors: Tan Xiao , Tong Jingshan , Wang Yi-Jun , Fletcher Rochelle , Schoen Robert E. , Yu Jian , Shen Liangfang , Zhang Lin
Published: April 2023

Table S1. Key reagents used in the experiments described in this manuscript are listed. Table S2. Major driver mutations in colon cancer cell lines described in this manuscript are listed. Figure S1. BETi induced expression of DR5, DCR1, and DCR2, but not DR4, in HCT116 colon cancer cells. The induction of DR5 by BETi did not require p53, but involved CHOP induction and eIF2-alpha phosphorylation. Figure S2. BRD4 knockdown or inhibition in combination with 5-FU or oxaliplatin markedly suppressed the growth of colon cancer cells. The combination treatments strongly induced apoptosis and caspase activation. Caspase inhibition by z-VAD-fmk suppressed the effects of the combination treatments. Figure S3. DR5-KO in HCT116 and RKO colon cancer cells abrogated the chemosensitization effects of BRD4 knockdown and BETi. Apoptosis and caspase activation were suppressed in DR5-KO HCT116 and RKO cells. Figure S4. Transfecting BRD4 siRNA induced DR5 and CHOP expression in SPOP-mutant SNU-407 and NCI-H508 cells. Figure S5. Transfecting HCT116 and RKO cells with E47A or E50K mutant SPOP increased BETi sensitivity, and enhanced BETi-induced apoptosis and caspase activation. The effects of SPOP mutants were suppressed in DR5-KO HCT116 and RKO cells. Figure S6. 5-FU/JQ1 combination suppressed the growth of PDX tumors without affecting animal weight. The combination treatment enhanced cell death analyzed by TUNEL staining.
Figure S4 from mTORC2 Suppresses GSK3-Dependent Snail Degradation to Positively Regulate Cancer Cell Invasion and Metastasis
Authors: Zhang Shuo , Qian Guoqing , Zhang Qian-Qian , Yao Yuying , Wang Dongsheng , Chen Zhuo G. , Wang Li-Jing , Chen Mingwei , Sun Shi-Yong
Published: April 2023

GSK3 inhibitors at a non-toxic concentration range (C) prevent Snail reduction and E-Cad elevation induced by INK128 (A) and reverse inhibitory effects of INK128 on suppressing cell migration (B)
Fig S7 from Frizzled-7 Is Required for Wnt Signaling in Gastric Tumors with and Without Apc Mutations
Authors: Flanagan Dustin J. , Barker Nick , Costanzo Natasha S. Di , Mason Elizabeth A. , Gurney Austin , Meniel Valerie S. , Koushyar Sarah , Austin Chloe R. , Ernst Matthias , Pearson Helen B. , Boussioutas Alex , Clevers Hans , Phesse Toby J. , Vincan Elizabeth
Published: April 2023

Figure S7. Molecular and phenotypic characterisation of conditional deletion of Myc in Apc-mutant gastric adenomas.