bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplemental Figures S1-7, Tables S1-3, and Materials and Methods from Oncogenic G Protein GNAQ Induces Uveal Melanoma and Intravasation in Mice
Authors: Huang Jenny Li-Ying , Urtatiz Oscar , Van Raamsdonk Catherine D.
Published: March 2023

Supplemental Figures S1-7, Tables S1-3, and Materials and Methods. Figure S1. Body weight of 3 month old mice. Figure S2. Melanocytic proliferation in the skin of Rosa26-fs-GNAQQ209L/+; Mitf-cre/+ animals. Figure S3. Loss of hair pigmentation in 5 month-old Rosa26-fs-GNAQQ209L/+; Mitf-cre/+ mice. Figure S4. Gross eye phenotypes in study mice. Figure S5. RNA expression from the Rosa26 promoter compared to the Gnaq promoter in mouse melanocytes. Figure S6. Additional controls for Rosa26-fs-GNAQQ209L/+; Tyr-creER/+ experiments. Figure S7. Hyper-pigmentation of meninges in trunk. Table S1. Efficiency of Mitf-cre at P40. Table S2. Individual results of auditory brainstem response (ABR) testing. Table S3. Efficiency of Tyrosinase-creER using a 5 day tamoxifen treatment in adult mice. Supplemental Materials and Methods: GNAQ/Gnaq Pyrosequencing primers.
Supplementary Figure S3 from Bortezomib Improves Adoptive T-cell Therapy by Sensitizing Cancer Cells to FasL Cytotoxicity
Authors: Shanker Anil , Pellom Samuel T. , Dudimah Duafalia F. , Thounaojam Menaka C. , de Kluyver Rachel L. , Brooks Alan D. , Yagita Hideo , McVicar Daniel W. , Murphy William J. , Longo Dan L. , Sayers Thomas J.
Published: March 2023

Calreticulin expression on bortezomib-treated tumor cells.
Supplementary Figure S4 from Targeting a Plk1-Controlled Polarity Checkpoint in Therapy-Resistant Glioblastoma-Propagating Cells
Authors: Lerner Robin G. , Grossauer Stefan , Kadkhodaei Banafsheh , Meyers Ian , Sidorov Maxim , Koeck Katharina , Hashizume Rintaro , Ozawa Tomoko , Phillips Joanna J. , Berger Mitchel S. , Nicolaides Theodore , James C. David , Petritsch Claudia K.
Published: March 2023

PLK1 control of mitotic entry and cell polarity in CD133+ cells.
Supplementary Figure S2 from Bortezomib Improves Adoptive T-cell Therapy by Sensitizing Cancer Cells to FasL Cytotoxicity
Authors: Shanker Anil , Pellom Samuel T. , Dudimah Duafalia F. , Thounaojam Menaka C. , de Kluyver Rachel L. , Brooks Alan D. , Yagita Hideo , McVicar Daniel W. , Murphy William J. , Longo Dan L. , Sayers Thomas J.
Published: March 2023

Lasting immunosuppressive effect on lung metastases following the suppressive regimen of bortezomib.
Supplementary Figure S3 from Targeting a Plk1-Controlled Polarity Checkpoint in Therapy-Resistant Glioblastoma-Propagating Cells
Authors: Lerner Robin G. , Grossauer Stefan , Kadkhodaei Banafsheh , Meyers Ian , Sidorov Maxim , Koeck Katharina , Hashizume Rintaro , Ozawa Tomoko , Phillips Joanna J. , Berger Mitchel S. , Nicolaides Theodore , James C. David , Petritsch Claudia K.
Published: March 2023

Polarization, asymmetric divisions, PLK1 activity and G2/M phase in CD133+ GBM cells.
Supplemental figure legends from Membrane IL1α Inhibits the Development of Hepatocellular Carcinoma via Promoting T- and NK-cell Activation
Authors: Lin Dandan , Lei Lei , Liu Yonghao , Zhang Yinsheng , Hu Bo , Bao Guangming , Song Yuan , Jin Ziqi , Liu Chunliang , Mei Yu , Sandikin Dedy , Wu Yan , Zhao Lixiang , Yu Xiao , Liu Haiyan
Published: March 2023

Supplemental figure legends
Supplementary Table S6 from CLK2 Is an Oncogenic Kinase and Splicing Regulator in Breast Cancer
Authors: Yoshida Taku , Kim Jee Hyun , Carver Kristopher , Su Ying , Weremowicz Stanislawa , Mulvey Laura , Yamamoto Shoji , Brennan Cameron , Mei Shenglin , Long Henry , Yao Jun , Polyak Kornelia
Published: March 2023

Supplementary Table S6. List of top 275 genes with changes in splice variants following downregulation of CLK2.
Supplementary Table S4 from CLK2 Is an Oncogenic Kinase and Splicing Regulator in Breast Cancer
Authors: Yoshida Taku , Kim Jee Hyun , Carver Kristopher , Su Ying , Weremowicz Stanislawa , Mulvey Laura , Yamamoto Shoji , Brennan Cameron , Mei Shenglin , Long Henry , Yao Jun , Polyak Kornelia
Published: March 2023

Supplementary Table S4. List of genes differentially expressed following shCLK2 expression in MCF7 cells.
Supplementary Table S3 from CLK2 Is an Oncogenic Kinase and Splicing Regulator in Breast Cancer
Authors: Yoshida Taku , Kim Jee Hyun , Carver Kristopher , Su Ying , Weremowicz Stanislawa , Mulvey Laura , Yamamoto Shoji , Brennan Cameron , Mei Shenglin , Long Henry , Yao Jun , Polyak Kornelia
Published: March 2023

Supplementary Table S3. Copy number gain and expression of selected kinases in breast cancer cell lines based on qPCR.
Supplemental Table S1 from Generation of a Mouse Model of Atypical Teratoid/Rhabdoid Tumor of the Central Nervous System through Combined Deletion of Snf5 and p53
Authors: Ng Jessica M.Y. , Martinez Daniel , Marsh Eric D. , Zhang Zhe , Rappaport Eric , Santi Mariarita , Curran Tom
Published: March 2023

Primer sequences of qRT-PCR.
Supplemental Figure and Table Legends from Generation of a Mouse Model of Atypical Teratoid/Rhabdoid Tumor of the Central Nervous System through Combined Deletion of Snf5 and p53
Authors: Ng Jessica M.Y. , Martinez Daniel , Marsh Eric D. , Zhang Zhe , Rappaport Eric , Santi Mariarita , Curran Tom
Published: March 2023

Legends for Supplemental Figures S1-S5 and Supplemental Table S1.
Supplementary Table S1 from CLK2 Is an Oncogenic Kinase and Splicing Regulator in Breast Cancer
Authors: Yoshida Taku , Kim Jee Hyun , Carver Kristopher , Su Ying , Weremowicz Stanislawa , Mulvey Laura , Yamamoto Shoji , Brennan Cameron , Mei Shenglin , Long Henry , Yao Jun , Polyak Kornelia
Published: March 2023

Supplementary Table S1. Kinases with copy number gain and overexpression in breast cancer tested in shRNA screen.
Supplemental Figure S2 from Generation of a Mouse Model of Atypical Teratoid/Rhabdoid Tumor of the Central Nervous System through Combined Deletion of Snf5 and p53
Authors: Ng Jessica M.Y. , Martinez Daniel , Marsh Eric D. , Zhang Zhe , Rappaport Eric , Santi Mariarita , Curran Tom
Published: March 2023

Snf5/Baf47 expression in Snf5F/F p53L/L GFAP-Cre mutant brain tissue.
Table S3 from Whole-Exome Sequencing Reveals Frequent Genetic Alterations in BAP1, NF2, CDKN2A, and CUL1 in Malignant Pleural Mesothelioma
Authors: Guo Guangwu , Chmielecki Juliann , Goparaju Chandra , Heguy Adriana , Dolgalev Igor , Carbone Michele , Seepo Sara , Meyerson Matthew , Pass Harvey I.
Published: March 2023

Table S3. A list of all somatic mutations detected in 22 MPMs
Supplementary Figure S1 from SND1 Acts Downstream of TGFβ1 and Upstream of Smurf1 to Promote Breast Cancer Metastasis
Authors: Yu Lin , Liu Xin , Cui Kang , Di Yanbo , Xin Lingbiao , Sun Xiaoming , Zhang Wei , Yang Xi , Wei Minxin , Yao Zhi , Yang Jie
Published: March 2023

Supplementary Figure S1. Gain-of-function of SND1 in stable SND1-knockdown cell line could reverse the phenotype induced by lacking of SND1.
Supplemental Figure 2 from Glioblastomas Require Integrin αvβ3/PAK4 Signaling to Escape Senescence
Authors: Franovic Aleksandra , Elliott Kathryn C. , Seguin Laetitia , Camargo M. Fernanda , Weis Sara M. , Cheresh David A.
Published: March 2023

Cell cycle analysis
Supplementary Table 1 from miR-29b Mediates NF-κB Signaling in KRAS-Induced Non–Small Cell Lung Cancers
Authors: Langsch Stephanie , Baumgartner Ulrich , Haemmig Stefan , Schlup Cornelia , Schäfer Stephan C. , Berezowska Sabina , Rieger Gregor , Dorn Patrick , Tschan Mario P. , Vassella Erik
Published: March 2023

Patient characteristics.
Supplementary Methods from Accumulated Metabolites of Hydroxybutyric Acid Serve as Diagnostic and Prognostic Biomarkers of Ovarian High-Grade Serous Carcinomas
Authors: Hilvo Mika , de Santiago Ines , Gopalacharyulu Peddinti , Schmitt Wolfgang D. , Budczies Jan , Kuhberg Marc , Dietel Manfred , Aittokallio Tero , Markowetz Florian , Denkert Carsten , Sehouli Jalid , Frezza Christian , Darb-Esfahani Silvia , Braicu Elena Ioana
Published: March 2023

R scripts to reproduce the statistical tests for the TCGA survival analyses.
Supplementary Figures and Tables from Accumulated Metabolites of Hydroxybutyric Acid Serve as Diagnostic and Prognostic Biomarkers of Ovarian High-Grade Serous Carcinomas
Authors: Hilvo Mika , de Santiago Ines , Gopalacharyulu Peddinti , Schmitt Wolfgang D. , Budczies Jan , Kuhberg Marc , Dietel Manfred , Aittokallio Tero , Markowetz Florian , Denkert Carsten , Sehouli Jalid , Frezza Christian , Darb-Esfahani Silvia , Braicu Elena Ioana
Published: March 2023

Supplementary Tables related to clinicopathological data (S1), metabolomics results (S3, S5, S6), gene expression and copy number survival analyses (S7-S8) and gene set enrichment analyses (S9-10) as well as Supplementary Figures (S1-S6) related to metabolomics results.
Supplementary Figure Legends from PDGF Engages an E2F-USP1 Signaling Pathway to Support ID2-Mediated Survival of Proneural Glioma Cells
Authors: Rahme Gilbert J. , Zhang Zhonghua , Young Alison L. , Cheng Chao , Bivona Eric J. , Fiering Steven N. , Hitoshi Yasuyuki , Israel Mark A.
Published: March 2023

Legend for Supplementary Figures S1-S7.
Supplementary materials and methods from The Deubiquitinase USP9X Maintains DNA Replication Fork Stability and DNA Damage Checkpoint Responses by Regulating CLASPIN during S-Phase
Authors: McGarry Edel , Gaboriau David , Rainey Michael D. , Restuccia Umberto , Bachi Angela , Santocanale Corrado
Published: March 2023

Supplementary materials and methods.
Supplementary Materials and Methods from NADPH Oxidase 1 Activity and ROS Generation Are Regulated by Grb2/Cbl-Mediated Proteasomal Degradation of NoxO1 in Colon Cancer Cells
Authors: Joo Jung Hee , Oh Hyunjin , Kim Myungjin , An Eun Jung , Kim Rae-Kwon , Lee So-Young , Kang Dong Hoon , Kang Sang Won , Keun Park Cheol , Kim Hoguen , Lee Su-Jae , Lee Daekee , Seol Jae Hong , Bae Yun Soo
Published: March 2023

Supplementary Materials and Methods
Supplementary Table S2 from Effects of Anticancer Drugs on Chromosome Instability and New Clinical Implications for Tumor-Suppressing Therapies
Authors: Lee Hee-Sheung , Lee Nicholas C.O. , Kouprina Natalay , Kim Jung-Hyun , Kagansky Alex , Bates Susan , Trepel Jane B. , Pommier Yves , Sackett Dan , Larionov Vladimir
Published: March 2023

Comparison between FISH and FACS data to evaluate HAC loss induced by drug treatment.
Supplementary Methods and Reference from Dicer Elicits Paclitaxel Chemosensitization and Suppresses Cancer Stemness in Breast Cancer by Repressing AXL
Authors: Chang Ting-Yu , Chen Hsin-An , Chiu Ching-Feng , Chang Yi-Wen , Kuo Tsang-Chih , Tseng Po-Chun , Wang Weu , Hung Mien-Chie , Su Jen-Liang
Published: March 2023

Description of additional methods and procedures used in the study. Also includes Supplementary Reference.
Supplementary Figure Legends from Dicer Elicits Paclitaxel Chemosensitization and Suppresses Cancer Stemness in Breast Cancer by Repressing AXL
Authors: Chang Ting-Yu , Chen Hsin-An , Chiu Ching-Feng , Chang Yi-Wen , Kuo Tsang-Chih , Tseng Po-Chun , Wang Weu , Hung Mien-Chie , Su Jen-Liang
Published: March 2023

Legend for Supplementary Figures S1-S8.
Supplementary Table S2 from Novel Morphologic and Genetic Analysis of Cancer Cells in a 3D Microenvironment Identifies STAT3 as a Regulator of Tumor Permeability Barrier Function
Authors: Park Min Chul , Jeong Hyobin , Son Sung Hwa , Kim YounHa , Han Daeyoung , Goughnour Peter C. , Kang Taehee , Kwon Nam Hoon , Moon Hyo Eun , Paek Sun Ha , Hwang Daehee , Seol Ho Jun , Nam Do-Hyun , Kim Sunghoon
Published: March 2023

Percent variance explained by PLS model of 560 type specific discriminatory genes
Supplementary data from The Prosurvival IKK-Related Kinase IKKϵ Integrates LPS and IL17A Signaling Cascades to Promote Wnt-Dependent Tumor Development in the Intestine
Authors: Göktuna Serkan Ismail , Shostak Kateryna , Chau Tieu-Lan , Heukamp Lukas C. , Hennuy Benoit , Duong Hong-Quan , Ladang Aurélie , Close Pierre , Klevernic Iva , Olivier Fabrice , Florin Alexandra , Ehx Grégory , Baron Frédéric , Vandereyken Maud , Rahmouni Souad , Vereecke Lars , van Loo Geert , Büttner Reinhard , Greten Florian R. , Chariot Alain
Published: March 2023

This file includes some material and methods with corresponding references, Supplementary figure legends as well as 14 supplementary figures
Supplementary Movie S1A from Novel Morphologic and Genetic Analysis of Cancer Cells in a 3D Microenvironment Identifies STAT3 as a Regulator of Tumor Permeability Barrier Function
Authors: Park Min Chul , Jeong Hyobin , Son Sung Hwa , Kim YounHa , Han Daeyoung , Goughnour Peter C. , Kang Taehee , Kwon Nam Hoon , Moon Hyo Eun , Paek Sun Ha , Hwang Daehee , Seol Ho Jun , Nam Do-Hyun , Kim Sunghoon
Published: March 2023

Spheroid formation of cancer cells - H1650 (R)
Supplementary Tables and Figures from Elucidation and Pharmacological Targeting of Novel Molecular Drivers of Follicular Lymphoma Progression
Authors: Bisikirska Brygida , Bansal Mukesh , Shen Yao , Teruya-Feldstein Julie , Chaganti Raju , Califano Andrea
Published: March 2023

1.Supplementary Table S1. Master Regulators of FL transformation to DLBCL. 2.Supplementary Table S2. qRT-PCR analysis of MR mRNA expression after silencing of in SUDHL6. 3.Supplementary Table S3. Selected drugs based on the similarity of drug treatment signatures vs siRNA knockdown. 4.Supplementary Table S4. Primers used for qRT-PCR. 5.Supplementary Figure S1. Unsupervised hierarchal clustering using gene expression data for FL, t-DLBCL samples (based on BCL2 translocation information), and cell lines SUDHL4, SUDHL6, VAL and CB33 obtained from (28). 6.Supplementary Figure S2. Expression and silencing of MRs in B-lymphoma cell lines 7.Supplementary Figure S3. Expression of activated MRs at the protein level in DLBCL patients and B-lymphoma cell lines 8.Supplementary Figure S4. Drug dose dependent cell viability in B-lymphoma cell lines.
Supplementary Table S7 from Identification of Patients with Recurrent Glioblastoma Who May Benefit from Combined Bevacizumab and CCNU Therapy: A Report from the BELOB Trial
Authors: Erdem-Eraslan Lale , van den Bent Martin J. , Hoogstrate Youri , Naz-Khan Hina , Stubbs Andrew , van der Spek Peter , Böttcher René , Gao Ya , de Wit Maurice , Taal Walter , Oosterkamp Hendrika M. , Walenkamp Annemiek , Beerepoot Laurens V. , Hanse Monique C.J. , Buter Jan , Honkoop Aafke H. , van der Holt Bronno , Vernhout René M. , Smitt Peter A.E. Sillevis , Kros Johan M. , French Pim J.
Published: March 2023

Reclassification of Phillips dataset primary v recurrent samples.
Supplementary Table S4 from Identification of Patients with Recurrent Glioblastoma Who May Benefit from Combined Bevacizumab and CCNU Therapy: A Report from the BELOB Trial
Authors: Erdem-Eraslan Lale , van den Bent Martin J. , Hoogstrate Youri , Naz-Khan Hina , Stubbs Andrew , van der Spek Peter , Böttcher René , Gao Ya , de Wit Maurice , Taal Walter , Oosterkamp Hendrika M. , Walenkamp Annemiek , Beerepoot Laurens V. , Hanse Monique C.J. , Buter Jan , Honkoop Aafke H. , van der Holt Bronno , Vernhout René M. , Smitt Peter A.E. Sillevis , Kros Johan M. , French Pim J.
Published: March 2023

Ingenuity IGS-18 pathway analysis.
Supplemental Methods and References from Guidance Molecule SEMA3A Restricts Tumor Growth by Differentially Regulating the Proliferation of Tumor-Associated Macrophages
Authors: Wallerius Majken , Wallmann Tatjana , Bartish Margarita , Östling Jeanette , Mezheyeuski Artur , Tobin Nicholas P. , Nygren Emma , Pangigadde Pradeepa , Pellegrini Paola , Squadrito Mario Leonardo , Pontén Fredrik , Hartman Johan , Bergh Jonas , De Milito Angelo , De Palma Michele , Östman Arne , Andersson John , Rolny Charlotte
Published: March 2023

Description of additional methods and procedures used in the study. Also includes Supplemental References.
Supplemental Figure S5 from Guidance Molecule SEMA3A Restricts Tumor Growth by Differentially Regulating the Proliferation of Tumor-Associated Macrophages
Authors: Wallerius Majken , Wallmann Tatjana , Bartish Margarita , Östling Jeanette , Mezheyeuski Artur , Tobin Nicholas P. , Nygren Emma , Pangigadde Pradeepa , Pellegrini Paola , Squadrito Mario Leonardo , Pontén Fredrik , Hartman Johan , Bergh Jonas , De Milito Angelo , De Palma Michele , Östman Arne , Andersson John , Rolny Charlotte
Published: March 2023

SEMA3A DOES NOT REGULATE THE GENE SIGNATURE IN M0-, M1- OR M2-EDUCATED BMDMS.
Supplementary Figure S3 from Identification of Patients with Recurrent Glioblastoma Who May Benefit from Combined Bevacizumab and CCNU Therapy: A Report from the BELOB Trial
Authors: Erdem-Eraslan Lale , van den Bent Martin J. , Hoogstrate Youri , Naz-Khan Hina , Stubbs Andrew , van der Spek Peter , Böttcher René , Gao Ya , de Wit Maurice , Taal Walter , Oosterkamp Hendrika M. , Walenkamp Annemiek , Beerepoot Laurens V. , Hanse Monique C.J. , Buter Jan , Honkoop Aafke H. , van der Holt Bronno , Vernhout René M. , Smitt Peter A.E. Sillevis , Kros Johan M. , French Pim J.
Published: March 2023

Correlation between DASL beadchips and RNA-seq on two individual Belob trial samples.
Supplementary Figure S2 from Identification of Patients with Recurrent Glioblastoma Who May Benefit from Combined Bevacizumab and CCNU Therapy: A Report from the BELOB Trial
Authors: Erdem-Eraslan Lale , van den Bent Martin J. , Hoogstrate Youri , Naz-Khan Hina , Stubbs Andrew , van der Spek Peter , Böttcher René , Gao Ya , de Wit Maurice , Taal Walter , Oosterkamp Hendrika M. , Walenkamp Annemiek , Beerepoot Laurens V. , Hanse Monique C.J. , Buter Jan , Honkoop Aafke H. , van der Holt Bronno , Vernhout René M. , Smitt Peter A.E. Sillevis , Kros Johan M. , French Pim J.
Published: March 2023

Performance of DASL and RNA-seq on RNA isolated from FFPE tissues, correlation with snap frozen samples.
Supplementary Figure S12 from Identification of Patients with Recurrent Glioblastoma Who May Benefit from Combined Bevacizumab and CCNU Therapy: A Report from the BELOB Trial
Authors: Erdem-Eraslan Lale , van den Bent Martin J. , Hoogstrate Youri , Naz-Khan Hina , Stubbs Andrew , van der Spek Peter , Böttcher René , Gao Ya , de Wit Maurice , Taal Walter , Oosterkamp Hendrika M. , Walenkamp Annemiek , Beerepoot Laurens V. , Hanse Monique C.J. , Buter Jan , Honkoop Aafke H. , van der Holt Bronno , Vernhout René M. , Smitt Peter A.E. Sillevis , Kros Johan M. , French Pim J.
Published: March 2023

Correlation between the 5' - 3' pre-mRNA slope and the level of expression of the mature (spliced) transcript.
Supplementary Figure S11 from Identification of Patients with Recurrent Glioblastoma Who May Benefit from Combined Bevacizumab and CCNU Therapy: A Report from the BELOB Trial
Authors: Erdem-Eraslan Lale , van den Bent Martin J. , Hoogstrate Youri , Naz-Khan Hina , Stubbs Andrew , van der Spek Peter , Böttcher René , Gao Ya , de Wit Maurice , Taal Walter , Oosterkamp Hendrika M. , Walenkamp Annemiek , Beerepoot Laurens V. , Hanse Monique C.J. , Buter Jan , Honkoop Aafke H. , van der Holt Bronno , Vernhout René M. , Smitt Peter A.E. Sillevis , Kros Johan M. , French Pim J.
Published: March 2023

Examples of two genes where introns are spliced out prior to transcription of the entire intron.
Supplementary Figure S10 from Identification of Patients with Recurrent Glioblastoma Who May Benefit from Combined Bevacizumab and CCNU Therapy: A Report from the BELOB Trial
Authors: Erdem-Eraslan Lale , van den Bent Martin J. , Hoogstrate Youri , Naz-Khan Hina , Stubbs Andrew , van der Spek Peter , Böttcher René , Gao Ya , de Wit Maurice , Taal Walter , Oosterkamp Hendrika M. , Walenkamp Annemiek , Beerepoot Laurens V. , Hanse Monique C.J. , Buter Jan , Honkoop Aafke H. , van der Holt Bronno , Vernhout René M. , Smitt Peter A.E. Sillevis , Kros Johan M. , French Pim J.
Published: March 2023

RNA seq can identify regions with LOH.
Supplementary Figure Legends from Identification of Patients with Recurrent Glioblastoma Who May Benefit from Combined Bevacizumab and CCNU Therapy: A Report from the BELOB Trial
Authors: Erdem-Eraslan Lale , van den Bent Martin J. , Hoogstrate Youri , Naz-Khan Hina , Stubbs Andrew , van der Spek Peter , Böttcher René , Gao Ya , de Wit Maurice , Taal Walter , Oosterkamp Hendrika M. , Walenkamp Annemiek , Beerepoot Laurens V. , Hanse Monique C.J. , Buter Jan , Honkoop Aafke H. , van der Holt Bronno , Vernhout René M. , Smitt Peter A.E. Sillevis , Kros Johan M. , French Pim J.
Published: March 2023

Legends for Supplementary Figures S1-S13.
Supplementary Figure 5 from Activation of Hematopoietic Stem/Progenitor Cells Promotes Immunosuppression Within the Pre–metastatic Niche
Authors: Giles Amber Jin , Reid Caitlin Marie , Evans Justin DeWayne , Murgai Meera , Vicioso Yorleny , Highfill Steven Lorenz , Kasai Miki , Vahdat Linda , Mackall Crystal Lee , Lyden David , Wexler Leonard , Kaplan Rosandra Natasha
Published: March 2023

Myeloid subsets in pre/early metastatic lung
Supplementary Figure 4 from Activation of Hematopoietic Stem/Progenitor Cells Promotes Immunosuppression Within the Pre–metastatic Niche
Authors: Giles Amber Jin , Reid Caitlin Marie , Evans Justin DeWayne , Murgai Meera , Vicioso Yorleny , Highfill Steven Lorenz , Kasai Miki , Vahdat Linda , Mackall Crystal Lee , Lyden David , Wexler Leonard , Kaplan Rosandra Natasha
Published: March 2023

Phenotypic and functionally immunosuppressive MDSCs in the primary tumor and spleen of tumor-bearing mice
Supplementary Figure 2 from Activation of Hematopoietic Stem/Progenitor Cells Promotes Immunosuppression Within the Pre–metastatic Niche
Authors: Giles Amber Jin , Reid Caitlin Marie , Evans Justin DeWayne , Murgai Meera , Vicioso Yorleny , Highfill Steven Lorenz , Kasai Miki , Vahdat Linda , Mackall Crystal Lee , Lyden David , Wexler Leonard , Kaplan Rosandra Natasha
Published: March 2023

Analysis of the bone marrow microenvironment and CXCR4 expression on E0771 BCA Tumor cells
Supplementary Table S3 from miR-146b-5p within BCR-ABL1–Positive Microvesicles Promotes Leukemic Transformation of Hematopoietic Cells
Authors: Zhang Hong-Mei , Li Qing , Zhu Xiaojian , Liu Wei , Hu Hui , Liu Teng , Cheng Fanjun , You Yong , Zhong Zhaodong , Zou Ping , Li Qiubai , Chen Zhichao , Guo An-Yuan
Published: March 2023

Supplementary Table S3. GO enrichment for DEGs in three stages
Supplemental Figures from Aberrant Notch Signaling in the Bone Marrow Microenvironment of Acute Lymphoid Leukemia Suppresses Osteoblast-Mediated Support of Hematopoietic Niche Function
Authors: Wang Weihuan , Zimmerman Grant , Huang Xiaoran , Yu Shuiliang , Myers Jay , Wang Yiwei , Moreton Stephen , Nthale Joseph , Awadallah Amad , Beck Rose , Xin Wei , Wald David , Huang Alex Y. , Zhou Lan
Published: March 2023

Supplemental Figures. This file contains supplemental figures concerning analysis of megakaryocyte progenitor and erythroid progenitor analysis in the leukemia marrow, platelet and megakaryocyte progenitor analysis after DBZ treatment of leukemia mice, as well as CXCL12 promoter CHIP analysis
Supplementary Figure 7 from Galectin-3 Cleavage Alters Bone Remodeling: Different Outcomes in Breast and Prostate Cancer Skeletal Metastasis
Authors: Nakajima Kosei , Kho Dhong Hyo , Yanagawa Takashi , Harazono Yosuke , Hogan Victor , Chen Wei , Ali-Fehmi Rouba , Mehra Rohit , Raz Avraham
Published: March 2023

Results of immunohistochemistry in breast and prostate cancer patients with metastasis.
Supplementary Figure 1 from Galectin-3 Cleavage Alters Bone Remodeling: Different Outcomes in Breast and Prostate Cancer Skeletal Metastasis
Authors: Nakajima Kosei , Kho Dhong Hyo , Yanagawa Takashi , Harazono Yosuke , Hogan Victor , Chen Wei , Ali-Fehmi Rouba , Mehra Rohit , Raz Avraham
Published: March 2023

Gal-3 is involved in osteoclastogenesis in bone tumor microenvironment.
Supplementary Table S1 from Activation of the Lin28/let-7 Axis by Loss of ESE3/EHF Promotes a Tumorigenic and Stem-like Phenotype in Prostate Cancer
Authors: Albino Domenico , Civenni Gianluca , Dallavalle Cecilia , Roos Martina , Jahns Hartmut , Curti Laura , Rossi Simona , Pinton Sandra , D'Ambrosio Gioacchino , Sessa Fausto , Hall Jonathan , Catapano Carlo V. , Carbone Giuseppina M.
Published: March 2023

Primer sets for qRT-PCR and ChIP experiments.
Supplementary Figure Legends from Maximizing the Efficacy of MAPK-Targeted Treatment in PTENLOF/BRAFMUT Melanoma through PI3K and IGF1R Inhibition
Authors: Herkert Barbara , Kauffmann Audrey , Mollé Sandra , Schnell Christian , Ferrat Thomas , Voshol Hans , Juengert Janina , Erasimus Hélène , Marszalek Grégory , Kazic-Legueux Malika , Billy Eric , Ruddy David , Stump Mark , Guthy Daniel , Ristov Mitko , Calkins Keith , Maira Sauveur-Michel , Sellers William R. , Hofmann Francesco , Hall Michael N. , Brachmann Saskia M.
Published: March 2023

Supplementary figure legends.
Supplementary Figure 7 from Maximizing the Efficacy of MAPK-Targeted Treatment in PTENLOF/BRAFMUT Melanoma through PI3K and IGF1R Inhibition
Authors: Herkert Barbara , Kauffmann Audrey , Mollé Sandra , Schnell Christian , Ferrat Thomas , Voshol Hans , Juengert Janina , Erasimus Hélène , Marszalek Grégory , Kazic-Legueux Malika , Billy Eric , Ruddy David , Stump Mark , Guthy Daniel , Ristov Mitko , Calkins Keith , Maira Sauveur-Michel , Sellers William R. , Hofmann Francesco , Hall Michael N. , Brachmann Saskia M.
Published: March 2023

Concomitant inhibition of PI3Kβ, IGF1R and MAPK signaling are leading to induction of cell death. A) Effects of treatment with the indicated inhibitors as single-agents in RVH-421 were evaluated by immunoblotting using phospho-specific or total target protein antibodies. B) Fractions of living (A-/PI-), necrotic (A-/PI+), early (A+/PI-) and late (A+/PI+) apoptotic cells was measured upon treatment of A101D and C32 with the indicated compounds for 72h. Data are represented as mean ({plus minus}SD) of triplicates. PI3Kβi=rac-KIN-193, PI3Kαi=BYL719, IGF1Ri=AEW541, panPI3Ki=GDC0941, BRAFi=LGX818, MEKi=MEK162
Supplementary Table 1 from Phosphatase PTP4A3 Promotes Triple-Negative Breast Cancer Growth and Predicts Poor Patient Survival
Authors: den Hollander Petra , Rawls Kathryn , Tsimelzon Anna , Shepherd Jonathan , Mazumdar Abhijit , Hill Jamal , Fuqua Suzanne A.W. , Chang Jenny C. , Osborne C. Kent , Hilsenbeck Susan G. , Mills Gordon B. , Brown Powel H.
Published: March 2023

Supp Tab 1 - Tissue samples used for this study were obtained from the Lester and Sue Smith Breast Cancer Tumor bank at Baylor College of Medicine. We studied 102 breast tumors from this bank that were collected from sites in the US and Europe. Study demographics define the majority of the population to be postmenopausal women, 97% Caucasian, and the median subject age to be 53 years. In this cohort, 95% of the tumors were invasive ductal carcinomas, 47% presented no lymph node involvement, all were without metastasis, and 76% of study participants had tumors {greater than or equal to}2cm3 at the time of diagnosis. The ER and PR status of each tissue sample was determined through immunohistochemistry (IHC) analysis, and HER2 status by fluorescent in-situ hybridization (FISH). This identified 49 ER-positive tumors and 53 triple-negative tumors. Of the ER-positive breast cancers, 12 tumors were also HER2-positive (24%), and 42 PR positive (86%).
Supplementary Figure 1 from Phosphatase PTP4A3 Promotes Triple-Negative Breast Cancer Growth and Predicts Poor Patient Survival
Authors: den Hollander Petra , Rawls Kathryn , Tsimelzon Anna , Shepherd Jonathan , Mazumdar Abhijit , Hill Jamal , Fuqua Suzanne A.W. , Chang Jenny C. , Osborne C. Kent , Hilsenbeck Susan G. , Mills Gordon B. , Brown Powel H.
Published: March 2023

Supp Fig 1 - Hierarchical clustering analysis of phosphatase expression (shown on the vertical axis) in 102 human breast cancers (shown on horizontal axis) demonstrates differential expression that distinguishes triple-negative from ER-positive human breast tumors. Gene expression analysis of 102 human breast tumors reveals 276 probe sets representing phosphatases and phosphatase-associated genes that are differentially expressed between triple-negative and ER-positive human breast tumors (FDR = 0.05).
Supplementary Figure 3 from PDLIM1 Stabilizes the E-Cadherin/β-Catenin Complex to Prevent Epithelial–Mesenchymal Transition and Metastatic Potential of Colorectal Cancer Cells
Authors: Chen Hai-Ning , Yuan Kefei , Xie Na , Wang Kui , Huang Zhao , Chen Yan , Dou Qianhui , Wu Min , Nice Edouard C. , Zhou Zong-Guang , Huang Canhua
Published: March 2023

Supplementary Figure 3: PDLIM1 binds E-cadherin/β-catenin complex and attenuates EGF-induced EMT.
Supplementary Table 1 from Cystine Deprivation Triggers Programmed Necrosis in VHL-Deficient Renal Cell Carcinomas
Authors: Tang Xiaohu , Wu Jianli , Ding Chien-Kuang , Lu Min , Keenan Melissa M. , Lin Chao-Chieh , Lin Chih-An , Wang Charles C. , George Daniel , Hsu David S. , Chi Jen-Tsan
Published: March 2023

Supplementary Table 1. GSEA analysis report on gene profile of RCC4 VHL-deficient and -restored cells
Supplementary Figure Legends from A Preclinical Model of Malignant Peripheral Nerve Sheath Tumor-like Melanoma Is Characterized by Infiltrating Mast Cells
Authors: Hölzel Michael , Landsberg Jennifer , Glodde Nicole , Bald Tobias , Rogava Meri , Riesenberg Stefanie , Becker Albert , Jönsson Göran , Tüting Thomas
Published: March 2023

Supplementary Figure Legends
Table S3 from Integrative Genome-Scale Analysis Identifies Epigenetic Mechanisms of Transcriptional Deregulation in Unfavorable Neuroblastomas
Authors: Henrich Kai-Oliver , Bender Sebastian , Saadati Maral , Dreidax Daniel , Gartlgruber Moritz , Shao Chunxuan , Herrmann Carl , Wiesenfarth Manuel , Parzonka Martha , Wehrmann Lea , Fischer Matthias , Duffy David J. , Bell Emma , Torkov Alica , Schmezer Peter , Plass Christoph , Höfer Thomas , Benner Axel , Pfister Stefan M. , Westermann Frank
Published: March 2023

Neuroblastoma-specific mutations in genes whose hypermethylation and downregulation are associated with high-risk neuroblastoma disease (HyperDownHR)
Supplementary Table S2 from Low Levels of Circulating Adiponectin Are Associated with Multiple Myeloma Risk in Overweight and Obese Individuals
Authors: Hofmann Jonathan N. , Birmann Brenda M. , Teras Lauren R. , Pfeiffer Ruth M. , Wang Ye , Albanes Demetrius , Baris Dalsu , Colditz Graham A. , De Roos Anneclaire J. , Giles Graham G. , Hosgood H. Dean , Lan Qing , Landgren Ola , Liao Linda M. , Rothman Nathaniel , Weinstein Stephanie J. , Pollak Michael N. , Neuhouser Marian L. , Purdue Mark P.
Published: March 2023

Circulating levels of high-molecular-weight adiponectin and risk of multiple myeloma.
Table S2 from Integrative Genome-Scale Analysis Identifies Epigenetic Mechanisms of Transcriptional Deregulation in Unfavorable Neuroblastomas
Authors: Henrich Kai-Oliver , Bender Sebastian , Saadati Maral , Dreidax Daniel , Gartlgruber Moritz , Shao Chunxuan , Herrmann Carl , Wiesenfarth Manuel , Parzonka Martha , Wehrmann Lea , Fischer Matthias , Duffy David J. , Bell Emma , Torkov Alica , Schmezer Peter , Plass Christoph , Höfer Thomas , Benner Axel , Pfister Stefan M. , Westermann Frank
Published: March 2023

CpGs and genes associated with differential methylation and expression with respect to high-risk (HR) neuroblastoma disease
Supplemental Figures S1-S6 from EPHA2 Blockade Overcomes Acquired Resistance to EGFR Kinase Inhibitors in Lung Cancer
Authors: Amato Katherine R. , Wang Shan , Tan Li , Hastings Andrew K. , Song Wenqiang , Lovly Christine M. , Meador Catherine B. , Ye Fei , Lu Pengcheng , Balko Justin M. , Colvin Daniel C. , Cates Justin M. , Pao William , Gray Nathanael S. , Chen Jin
Published: March 2023

Localization of EPHA2 in erlotinib resistant cells (S1); Validation of EPHA2 antibody specificity in patient tumor specimens (S2); EPHA2 kinase activity is required in maintaining cell viability of erlotinib resistant lung cancer (S3); Biochemical analysis of TKI-Â­â€�resistant tumors from EGFRL858R+T790MEphA2-Â­â€�/-Â­â€� and control mice (S4); Signaling analysis in EPHA2 knockdown cells by siRNA-Â­â€�mediated gene silencing (S5); Localization of EPHA2 upon ligand or EPHA2 inhibitor treatment (S6).
Supplemental Figure 7 from Herbacetin Is a Novel Allosteric Inhibitor of Ornithine Decarboxylase with Antitumor Activity
Authors: Kim Dong Joon , Roh Eunmiri , Lee Mee-Hyun , Oi Naomi , Lim Do Young , Kim Myoung Ok , Cho Yong-Yeon , Pugliese Angelo , Shim Jung-Hyun , Chen Hanyong , Cho Eun Jin , Kim Jong-Eun , Kang Sun Chul , Paul Souren , Kang Hee Eun , Jung Ji Won , Lee Sung-Young , Kim Sung-Hyun , Reddy Kanamata , Yeom Young Il , Bode Ann M. , Dong Zigang
Published: March 2023

The effect of putrescine re-addition on intracellular polyamine levels in herbacetin- or DFMO-treated cells. Colon cancer cells were treated with herbacetin or DFMO for 24 h and then putresine was or was not added for 30 min and intracellular polyamines were extracted and analyzed. All data are represented as means {plus minus} S.D. of triplicate values from 3 independent experiments. The asterisk (*) indicates a significant effect (p < 0.05) of herbacetin or DFMO alone compared to cells with added putrescine treatment.
Supplementary Figure S7 from Inhibition of PAI-1 Limits Tumor Angiogenesis Regardless of Angiogenic Stimuli in Malignant Pleural Mesothelioma
Authors: Takayama Yusuke , Hattori Noboru , Hamada Hironobu , Masuda Takeshi , Omori Keitaro , Akita Shin , Iwamoto Hiroshi , Fujitaka Kazunori , Kohno Nobuoki
Published: March 2023

Effects of PAI-1 silencing on the degrees of proliferation, migration, and tube formation of HUVECs
Supplementary Figure S1 from Long Noncoding RNA MALAT1 Promotes Aggressive Renal Cell Carcinoma through Ezh2 and Interacts with miR-205
Authors: Hirata Hiroshi , Hinoda Yuji , Shahryari Varahram , Deng Guoren , Nakajima Koichi , Tabatabai Z. Laura , Ishii Nobuhisa , Dahiya Rajvir
Published: March 2023

E-Cadherin expression in cell lines (HK-2, A-498, 786-O).
Supplemental Table S1 from Cancer Cell Dissemination and Homing to the Bone Marrow in a Zebrafish Model
Authors: Sacco Antonio , Roccaro Aldo M. , Ma Dongdong , Shi Jiantao , Mishima Yuji , Moschetta Michele , Chiarini Marco , Munshi Nikhil , Handin Robert I. , Ghobrial Irene M.
Published: March 2023

Quality control of RNA after human exon enrichement.
Supplementary Methods from Redirecting Transport of Nanoparticle Albumin-Bound Paclitaxel to Macrophages Enhances Therapeutic Efficacy against Liver Metastases
Authors: Tanei Tomonori , Leonard Fransisca , Liu Xuewu , Alexander Jenolyn F. , Saito Yuki , Ferrari Mauro , Godin Biana , Yokoi Kenji
Published: March 2023

Description of additional methods and procedures used in the study.
Supplemental Figure S3 from Cancer Cell Dissemination and Homing to the Bone Marrow in a Zebrafish Model
Authors: Sacco Antonio , Roccaro Aldo M. , Ma Dongdong , Shi Jiantao , Mishima Yuji , Moschetta Michele , Chiarini Marco , Munshi Nikhil , Handin Robert I. , Ghobrial Irene M.
Published: March 2023

Efficacy of CXCR4-, VLA4- and FAK-silencing in MM cells. Efficacy of CXCR4 silencing and CXCR4 over-expression in WM cells.
Supplemental Figure S1 from Cancer Cell Dissemination and Homing to the Bone Marrow in a Zebrafish Model
Authors: Sacco Antonio , Roccaro Aldo M. , Ma Dongdong , Shi Jiantao , Mishima Yuji , Moschetta Michele , Chiarini Marco , Munshi Nikhil , Handin Robert I. , Ghobrial Irene M.
Published: March 2023

DiD- and DiO-labeled MM.1S cells do not differ for their ability to migrate to the CHT niches.
Supplementary Tables from miR-892b Silencing Activates NF-κB and Promotes Aggressiveness in Breast Cancer
Authors: Jiang Lili , Yu Liang , Zhang Xin , Lei Fangyong , Wang Lan , Liu Xiangxia , Wu Shu , Zhu Jinrong , Wu Geyan , Cao Lixue , Liu Aibin , Song Libing , Li Jun
Published: March 2023

Clinical information on the samples and Correlation between the clinicopathological features and expression of miR-892b
Supplementary Figure 3 from miR-892b Silencing Activates NF-κB and Promotes Aggressiveness in Breast Cancer
Authors: Jiang Lili , Yu Liang , Zhang Xin , Lei Fangyong , Wang Lan , Liu Xiangxia , Wu Shu , Zhu Jinrong , Wu Geyan , Cao Lixue , Liu Aibin , Song Libing , Li Jun
Published: March 2023

Supplementary Figure 3. Downregulation of miR-892b promotes the aggressiveness of breast cancer cells in vivo.
Supplementary table 2 from Estrogen Receptor α Promotes Breast Cancer by Reprogramming Choline Metabolism
Authors: Jia Min , Andreassen Trygve , Jensen Lasse , Bathen Tone Frost , Sinha Indranil , Gao Hui , Zhao Chunyan , Haldosen Lars-Arne , Cao Yihai , Girnita Leonard , Moestue Siver Andreas , Dahlman-Wright Karin
Published: March 2023

The metabolites levels identified by NMR, which are normalized by protein amount
Supplementary table 1 from Estrogen Receptor α Promotes Breast Cancer by Reprogramming Choline Metabolism
Authors: Jia Min , Andreassen Trygve , Jensen Lasse , Bathen Tone Frost , Sinha Indranil , Gao Hui , Zhao Chunyan , Haldosen Lars-Arne , Cao Yihai , Girnita Leonard , Moestue Siver Andreas , Dahlman-Wright Karin
Published: March 2023

The core set of direct ERalpha regulated genes in breast cancer cells
Supplementary Figures S1-S12 from Expansion of a BDCA1+CD14+ Myeloid Cell Population in Melanoma Patients May Attenuate the Efficacy of Dendritic Cell Vaccines
Authors: Bakdash Ghaith , Buschow Sonja I. , Gorris Mark A.J. , Halilovic Altuna , Hato Stanleyson V. , Sköld Annette E. , Schreibelt Gerty , Sittig Simone P. , Torensma Ruurd , Duiveman-de Boer Tjitske , Schröder Christoph , Smits Evelien L. , Figdor Carl G. , de Vries I. Jolanda M.
Published: March 2023

The gating strategy applied to isolate and determine the frequency of BDCA1+ DCs, BDCA1+ CD14+ cells, monocytes and MDSCs from PBMCS of melanoma patients or healthy donors by FACS (S1); The distribution of potentially "missed genes" over the RPKM value spectrum in all samples that underwent RNA sequencing (S2); A Venn diagram displaying the overlap between the four gene sets used in GSEA analysis: Mono high, infDC high, MoDC sig and BDCA1+ DC high (S3); The T cell suppressive capacity of BDCA1+ DCs, BDCA1+ CD14+ cells, monocytes and MDSCs (S4); Quantification of immunofluorescence stainings performed on sections of paraffin-embedded resection specimens of healthy and melanoma metastasized lymph nodes or healthy and melanoma metastasized colon (S5); Large view, showing multiple cells, of May-Grunwald/Giemsa-stained healthy donor-derived, FACS-sorted BDCA1+ DCs, BDCA1+CD14+ cells and monocytes (S6); GSEA enrichment plots (S7); BDCA1+ DCs, BDCA1+CD14+ cells and monocytes respond to TLR2 and TLR8 stimulation (S8); IL-12 levels determined in overnight supernatants of BDCA1+ DCs, BDCA1+ CD14+ cells and monocytes cultures following stimulation with pIC and R848 (S9); The T cell polarizing capacity of BDCA1+ DCs, BDCA1+ CD14+ cells and monocytes (S10); The effect of IL-10 on BDCA1+ CD14+ cell-induced T cell proliferation was determined by performing an MLR with allogenic naïve CD4+ T cells in the presence or absence of anit-IL-10 and anti-IL10 receptor or the matching isotype controls (S11); The suppressive capacity of BDCA1+ CD14+ cells is not reversed by PD-L1 blocking (S12).
Supplementary Figures 1 and 2 and Supplementary Table 1 from Enfortumab Vedotin Antibody–Drug Conjugate Targeting Nectin-4 Is a Highly Potent Therapeutic Agent in Multiple Preclinical Cancer Models
Authors: Challita-Eid Pia M. , Satpayev Daulet , Yang Peng , An Zili , Morrison Karen , Shostak Yuriy , Raitano Arthur , Nadell Rossana , Liu Wendy , Lortie Dawn Ratay , Capo Linnette , Verlinsky Alla , Leavitt Monica , Malik Faisal , Aviña Hector , Guevara Claudia I. , Dinh Nick , Karki Sher , Anand Banmeet S. , Pereira Daniel S. , Joseph Ingrid B.J. , Doñate Fernando , Morrison Kendall , Stover David R.
Published: March 2023

Figure 1: ADC Localization in tumor xenografts Figure 2: PK profile in mice Table 1: Toxicokinetic parameters
Supplementary Table 1 from Dynamic Patterns of Clonal Evolution in Tumor Vasculature Underlie Alterations in Lymphocyte–Endothelial Recognition to Foster Tumor Immune Escape
Authors: Corey Daniel M. , Rinkevich Yuval , Weissman Irving L.
Published: March 2023

Normalized Gene Expression Values from FACS-isolated Lin- FSC low, CD144+ CD31+ clones.
Supplementary Table 1 from Evolutionary Action Score of TP53 Coding Variants Is Predictive of Platinum Response in Head and Neck Cancer Patients
Authors: Osman Abdullah A. , Neskey David M. , Katsonis Panagiotis , Patel Ameeta A. , Ward Alexandra M. , Hsu Teng-Kuei , Hicks Stephanie C. , McDonald Thomas O. , Ow Thomas J. , Alves Marcus Ortega , Pickering Curtis R. , Skinner Heath D. , Zhao Mei , Sturgis Eric M. , Kies Merrill S. , El-Naggar Adel , Perrone Federica , Licitra Lisa , Bossi Paolo , Kimmel Marek , Frederick Mitchell J. , Lichtarge Olivier , Myers Jeffrey N.
Published: March 2023

Supplementary Table 1: TP53 mutations scored and stratified by EAp53 and Poeta classification in the platinum based induction chemotherapy cohort.
Supplementary Figures S1-S7 from A CDK4/6-Dependent Epigenetic Mechanism Protects Cancer Cells from PML-induced Senescence
Authors: Acevedo Mariana , Vernier Mathieu , Mignacca Lian , Lessard Frédéric , Huot Geneviève , Moiseeva Olga , Bourdeau Véronique , Ferbeyre Gerardo
Published: March 2023

Disabling RB bypasses PML-induced senescence in normal human fibroblasts (S1); Cyclin-dependent kinase inhibitors p21 and p16INK4A cooperate with PML to inhibit cancer cell proliferation (S2); CDK inhibitors enhance PML-mediated growth arrest and senescence in tumor cell lines (S3); Gene Set Enrichment Analysis (GSEA) showing homology to our gene expression profiling (S4); Gene Set Enrichment Analysis (GSEA) showing homology to our gene expression profiling (S5); Palbociclib or 5-Aza-dC sensitise cells to PML-induced irreversible growth arrest (S6); palbociclib decreased DNMT1 levels in a dose dependent manner (S7).
Supplementary Figure Legends from A CDK4/6-Dependent Epigenetic Mechanism Protects Cancer Cells from PML-induced Senescence
Authors: Acevedo Mariana , Vernier Mathieu , Mignacca Lian , Lessard Frédéric , Huot Geneviève , Moiseeva Olga , Bourdeau Véronique , Ferbeyre Gerardo
Published: March 2023

Legend for Supplementary Figures S1-S7.
Supplementary Tables S1-S6 from Bereavement Is Associated with an Increased Risk of HPV Infection and Cervical Cancer: An Epidemiological Study in Sweden
Authors: Lu Donghao , Sundström Karin , Sparén Pär , Fall Katja , Sjölander Arvid , Dillner Joakim , Helm Nathalie Ylitalo , Adami Hans-Olov , Valdimarsdóttir Unnur , Fang Fang
Published: March 2023

Supplementary Tables S1-S6: Table S1:Methodological and Descriptive Characteristics of Three Analyses on Abnormal Cytology, Cervical Cancer and HPV16 Infection. Tables S2:Bereavement and Cytology of Atypical, Low-Grade, and High-Grade Abnormalities, a Nested Case-Control Study in Sweden, 1969-2011. Table S3:Bereavement and Abnormal Cytology after Excluding Potentially Prevalent Cervical Cancer, a Nested Case-Control Study in Sweden, 1969-2011. Table S4:Bereavement and In Situ/Invasive Cervical Cancer, a Nested Case-Control Study in Sweden, 1969-2011. Table S5:Bereavement and HPV16 Infection, a Case-Control Study in Sweden, 1969-2002. Table S6:Bereavement and Lifestyle Factors.
Supplemental Table 2 from Jak1–STAT3 Signals Are Essential Effectors of the USP6/TRE17 Oncogene in Tumorigenesis
Authors: Quick Laura , Young Robert , Henrich Ian C. , Wang Xiaoke , Asmann Yan W. , Oliveira Andre M. , Chou Margaret M.
Published: March 2023

IHC Quantitation
Supplemental Table 1 from Jak1–STAT3 Signals Are Essential Effectors of the USP6/TRE17 Oncogene in Tumorigenesis
Authors: Quick Laura , Young Robert , Henrich Ian C. , Wang Xiaoke , Asmann Yan W. , Oliveira Andre M. , Chou Margaret M.
Published: March 2023

GEO Accession numbers
Supplementary Figures 1 through 17 and Supplementary Tables 1 and 2 from Activating Mutations in PIK3CB Confer Resistance to PI3K Inhibition and Define a Novel Oncogenic Role for p110β
Authors: Nakanishi Yoshito , Walter Kimberly , Spoerke Jill M. , O'Brien Carol , Huw Ling Y. , Hampton Garret M. , Lackner Mark R.
Published: March 2023

Supplementary Figure S1. Inhibition of AKT and S6 phosphorylation. Supplementary Figure S2. Cell growth inhibition by a panel of compounds. Supplementary Figure S3. Effect of GDC-0980 on AKT and S6 phosphorylation. Supplementary Figure S4. Cell growth inhibition by a panel of compounds. Supplementary Figure S5. Inhibition of AKT phosphorylation. Supplementary Figure S6. Cell growth inhibition by a panel of anti-cancer agents. Supplementary Figure S7. The alignment of C-terminus of Human p110 family. Supplementary Figure S8. Droplet digital PCR (ddPCR) detection of PIK3CB D1067Y mutation. Supplementary Figure S9. Detection of copy number variation. Supplementary Figure S10. A. Cell growth inhibition by GDC-0941. B. Droplet digital PCR (ddPCR) analysis of PTEN-null GDC-0941 resistant cell lines. Supplementary Figure S11. Droplet digital PCR detection of PIK3CB D1067V mutation. Supplementary Figure S12. PIK3CB mutant expressing EVSA-T cells are less sensitive to PI3K inhibitors. Supplementary Figure S13. Inhibition of AKT and S6 phosphorylation. Supplementary Figure S14. p110β dependency of A498. Supplementary Figure S15. ATP competition assay. Supplementary Figure S16. Relative quantification of baseline AKT phosphorylation levels in EVSA-T parental cells and resistant clones. Supplementary Figure S17. Signal profile in Rat-2 stable cell lines. Supplementary Table S1 Compound list. Supplementary Table S2 Whole exome sequencing list of genes mutated in EVSA-T GDC-0941 resistant cells.
Supplemental Figure 2 from Jak1–STAT3 Signals Are Essential Effectors of the USP6/TRE17 Oncogene in Tumorigenesis
Authors: Quick Laura , Young Robert , Henrich Ian C. , Wang Xiaoke , Asmann Yan W. , Oliveira Andre M. , Chou Margaret M.
Published: March 2023

GSEA plots
Supplementary figures legends from S-nitrosylation of the Mitochondrial Chaperone TRAP1 Sensitizes Hepatocellular Carcinoma Cells to Inhibitors of Succinate Dehydrogenase
Authors: Rizza Salvatore , Montagna Costanza , Cardaci Simone , Maiani Emiliano , Di Giacomo Giuseppina , Sanchez-Quiles Virginia , Blagoev Blagoy , Rasola Andrea , De Zio Daniela , Stamler Jonathan S. , Cecconi Francesco , Filomeni Giuseppe
Published: March 2023

Supplementary figures legends
Figure S5 from S-nitrosylation of the Mitochondrial Chaperone TRAP1 Sensitizes Hepatocellular Carcinoma Cells to Inhibitors of Succinate Dehydrogenase
Authors: Rizza Salvatore , Montagna Costanza , Cardaci Simone , Maiani Emiliano , Di Giacomo Giuseppina , Sanchez-Quiles Virginia , Blagoev Blagoy , Rasola Andrea , De Zio Daniela , Stamler Jonathan S. , Cecconi Francesco , Filomeni Giuseppe
Published: March 2023

Mitochondrial content of HCC cells and overexpression of mitochondrial antioxidants.
Supplemental Figure S2 from Mesenchymal Tumorigenesis Driven by TSC2 Haploinsufficiency Requires HMGA2 and Is Independent of mTOR Pathway Activation
Authors: D'Armiento Jeanine , Shiomi Takayuki , Marks Sarah , Geraghty Patrick , Sankarasharma Devipriya , Chada Kiran
Published: March 2023

Tuberin is present in all Tsc2+/- mesenchymal tumors.
Supplementary Table and Supplementary Figures 1 through 6 from Control of PD-L1 Expression by Oncogenic Activation of the AKT–mTOR Pathway in Non–Small Cell Lung Cancer
Authors: Lastwika Kristin J. , Wilson Willie , Li Qing Kay , Norris Jeffrey , Xu Haiying , Ghazarian Sharon R. , Kitagawa Hiroshi , Kawabata Shigeru , Taube Janis M. , Yao Sheng , Liu Linda N. , Gills Joell J. , Dennis Phillip A.
Published: March 2023

Supplemental Table 1. Clinical and pathologic characteristics of patients included in tissue microarrays Supplementary Figure 1. B7-H4 expression is low in human and mouse lung cancer cell lines in vitro Supplementary Figure 2. B7-H1 expression does not change with MAPK or proliferation inhibition Supplementary Figure 3. Scoring of PD-L1 and pS6 staining in lung adenocarcinoma and squamous cell carcinoma TMAs Supplementary Figure 4. Co-expression of pS6 and PD-L1 staining in TMAs Supplemental Figure 5. The combination of rapamycin and anti-PD-1 antibody decreases KRAS-driven lung tumor growth Supplementary Figure 6. The combination of rapamycin and αPD-1 blockade decreases NNK-derived syngeneic lung tumor growth.