bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figures and legends from Targeting PAK4 Inhibits Ras-Mediated Signaling and Multiple Oncogenic Pathways in High-Risk Rhabdomyosarcoma
Authors: Dasgupta Atreyi , Sierra Laura , Tsang Susan V. , Kurenbekova Lyazat , Patel Tajhal , Rajapakse Kimal , Shuck Ryan L. , Rainusso Nino , Landesman Yosef , Unger Thaddeus , Coarfa Cristian , Yustein Jason T.
Published: April 2023

Contains supplementary figures and tables with corresponding legends. Figure S1: PAK expression and signaling in RMS. Figure S2: Generation of PAK4 knock down stable clones and phenotypic effects on tumorigenicity. Figure S3: Knockdown of PAK4 inhibits tumor growth in vivo. Figure S4: Phenotypic effects of small molecule inhibitors of PAK4. Figure S5: Pharmacological inhibition of PAK4 in vitro attenuating invasion and migration of cells. Figure S6: Target validation and body weight measurement upon treatment. Figure S7: Molecular analysis of PAK4 targeted proteome. Figure S8: Transcriptomic Analysis of KPT-9274 treated RMS tumors indicating immune modulation. Supplementary table 1: Sequence of primers. Supplementary table 2: Patient annotations.
Supplementary Figure S7 from YAP Orchestrates Heterotypic Endothelial Cell Communication via HGF/c-MET Signaling in Liver Tumorigenesis
Authors: Thomann Stefan , Weiler Sofia M.E. , Marquard Simone , Rose Fabian , Ball Claudia R. , Tóth Marcell , Wei Teng , Sticht Carsten , Fritzsche Sarah , Roessler Stephanie , De La Torre Carolina , Ryschich Eduard , Ermakova Olga , Mogler Carolin , Kazdal Daniel , Gretz Norbert , Glimm Hanno , Rempel Eugen , Schirmacher Peter , Breuhahn Kai
Published: April 2023

Spatial orientation of CECs and LSECs in tumorigenesis
Supplementary Table 1 from Combined Inhibition of SHP2 and MEK Is Effective in Models of NF1-Deficient Malignant Peripheral Nerve Sheath Tumors
Authors: Wang Jiawan , Pollard Kai , Allen Amy N. , Tomar Tushar , Pijnenburg Dirk , Yao Zhan , Rodriguez Fausto J. , Pratilas Christine A.
Published: April 2023

Supplementary Table 1 shows raw data values corresponding to PamChip analysis.
Supplementary Materials from Combined Inhibition of SHP2 and MEK Is Effective in Models of NF1-Deficient Malignant Peripheral Nerve Sheath Tumors
Authors: Wang Jiawan , Pollard Kai , Allen Amy N. , Tomar Tushar , Pijnenburg Dirk , Yao Zhan , Rodriguez Fausto J. , Pratilas Christine A.
Published: April 2023

Supplementary Materials include Supplementary Tables and Supplementary Figures and Legends.
Supplementary Figure S3 from YAP Orchestrates Heterotypic Endothelial Cell Communication via HGF/c-MET Signaling in Liver Tumorigenesis
Authors: Thomann Stefan , Weiler Sofia M.E. , Marquard Simone , Rose Fabian , Ball Claudia R. , Tóth Marcell , Wei Teng , Sticht Carsten , Fritzsche Sarah , Roessler Stephanie , De La Torre Carolina , Ryschich Eduard , Ermakova Olga , Mogler Carolin , Kazdal Daniel , Gretz Norbert , Glimm Hanno , Rempel Eugen , Schirmacher Peter , Breuhahn Kai
Published: April 2023

Analysis of scRNA-seq data derived from healthy liver tissues
Figure S7 from Genomic and Epigenomic Landscaping Defines New Therapeutic Targets for Adenosquamous Carcinoma of the Pancreas
Authors: Lenkiewicz Elizabeth , Malasi Smriti , Hogenson Tara L. , Flores Luis F. , Barham Whitney , Phillips William J. , Roesler Alexander S. , Chambers Kendall R. , Rajbhandari Nirakar , Hayashi Akimasa , Antal Corina E. , Downes Michael , Grandgenett Paul M. , Hollingsworth Michael A. , Cridebring Derek , Xiong Yuning , Lee Jeong-Heon , Ye Zhenqing , Yan Huihuang , Hernandez Matthew C. , Leiting Jennifer L. , Evans Ronald M. , Ordog Tamas , Truty Mark J. , Borad Mitesh J. , Reya Tannishtha , Von Hoff Daniel D. , Fernandez-Zapico Martin E. , Barrett Michael T.
Published: April 2023

Whole genome CNV landscape of PDX models profiled by ATAC-seq. A) ASCPs PAX139, PAX217, and PAX265. Vertical arrows highlight CDK6 amplicons and horizontal arrows highlight CDKN2A homozygous deletions. B) PDACs PAX295, PAX297, and PAX300. The X and Y axes in the CGH plots represent chromosome and log2 ratios for each genome. IGV views of ATAC-seq profiles of C) KRAS; D) MYC and ; E) CDK6 in ASCP (top rows) and PDAC (bottom rows) PDX models. F) Dose response profiles of PAX139 organoids to Palbociclib (left panel) and Abemaciclib (right panel). Organoids were seeded in 96-well plate coated with Matrigel (5,000 cells /well) in organoid media. After 2-3 days of growth, fresh organoid media and DMSO or drug (10 wells/condition) was added. Fresh media and drug was added every 2-3 days. MTT assay were done on day 7 to measure proliferation. The absorbance listed for each drug is the average of the 10 wells per condition. Each experiment was performed in triplicate.
Supplementary Data from Decitabine Induces Gene Derepression on Monosomic Chromosomes: In Vitro and In Vivo Effects in Adverse-Risk Cytogenetics AML
Authors: Greve Gabriele , Schüler Julia , Grüning Björn A. , Berberich Bettina , Stomper Julia , Zimmer Dennis , Gutenkunst Lea , Bönisch Ulrike , Meier Ruth , Blagitko-Dorfs Nadja , Grishina Olga , Pfeifer Dietmar , Weichenhan Dieter , Plass Christoph , Lübbert Michael
Published: April 2023

Supplementary Information: Supplementary Figures 1-11, Supplementary Figure Legends, Supplementary Tables 1-4
Supplementary Figure 3 from Hormonal Regulation of Semaphorin 7a in ER+ Breast Cancer Drives Therapeutic Resistance
Authors: Crump Lyndsey S. , Wyatt Garhett L. , Rutherford Taylor R. , Richer Jennifer K. , Porter Weston W. , Lyons Traci R.
Published: April 2023

Characterization of the endocrine resistant phenotype promoted by SEMA7A
Table S5 from SCIRT lncRNA Restrains Tumorigenesis by Opposing Transcriptional Programs of Tumor-Initiating Cells
Authors: Zagorac Sladjana , de Giorgio Alex , Dabrowska Aleksandra , Kalisz Mark , Casas-Vila Nuria , Cathcart Paul , Yiu Angela , Ottaviani Silvia , Degani Neta , Lombardo Ylenia , Tweedie Alistair , Nissan Tracy , Vance Keith W. , Ulitsky Igor , Stebbing Justin , Castellano Leandro
Published: April 2023

Differential gene expression DESeq2 analysis for siEZH2 vs siNC.
Table S1 from SCIRT lncRNA Restrains Tumorigenesis by Opposing Transcriptional Programs of Tumor-Initiating Cells
Authors: Zagorac Sladjana , de Giorgio Alex , Dabrowska Aleksandra , Kalisz Mark , Casas-Vila Nuria , Cathcart Paul , Yiu Angela , Ottaviani Silvia , Degani Neta , Lombardo Ylenia , Tweedie Alistair , Nissan Tracy , Vance Keith W. , Ulitsky Igor , Stebbing Justin , Castellano Leandro
Published: April 2023

Differential gene expression DESeq2 analysis for 16h Spheres vs Adh (Sheet #1) and 5d Spheres vs Adh
Supplementary Data from PKCϵ Is Required for KRAS-Driven Lung Tumorigenesis
Authors: Garg Rachana , Cooke Mariana , Benavides Fernando , Abba Martín C. , Cicchini Michelle , Feldser David M. , Kazanietz Marcelo G.
Published: April 2023

Supplemental data
Supplementary Tables from E7386, a Selective Inhibitor of the Interaction between β-Catenin and CBP, Exerts Antitumor Activity in Tumor Models with Activated Canonical Wnt Signaling
Authors: Yamada Kazuhiko , Hori Yusaku , Inoue Satoshi , Yamamoto Yuji , Iso Kentaro , Kamiyama Hiroshi , Yamaguchi Atsumi , Kimura Takayuki , Uesugi Mai , Ito Junichi , Matsuki Masahiro , Nakamoto Kazutaka , Harada Hitoshi , Yoneda Naoki , Takemura Atsushi , Kushida Ikuo , Wakayama Naomi , Kubara Kenji , Kato Yu , Semba Taro , Yokoi Akira , Matsukura Masayuki , Odagami Takenao , Iwata Masao , Tsuruoka Akihiko , Uenaka Toshimitsu , Matsui Junji , Matsushima Tomohiro , Nomoto Kenichi , Kouji Hiroyuki , Owa Takashi , Funahashi Yasuhiro , Ozawa Yoichi
Published: April 2023

Supplementary Table S1, Table S4, Table S5, Table S6, Table S7. Supplementary Table S1: The list of DEGs by nCounter analysis (|Fold change| > 1.25, P < 0.1). Supplementary Table S4: Top 10 enriched pathways identified by RNA-Seq analysis in MMTV-Wnt1 model. Supplementary Table S5: The result of CIBERSORT analysis. Supplementary Table S6: The lists of antibody for flow cytometry analysis. Supplementary Table S7: Comparison of Physicochemical property between E7386 and C-82.
Source data of blots and gel from Acute Kidney Injury Instigates Malignant Renal Cell Carcinoma via CXCR2 in Mice with Inactivated Trp53 and Pten in Proximal Tubular Kidney Epithelial Cells
Authors: Zhou Xunian , Xiao Fei , Sugimoto Hikaru , Li Bingrui , McAndrews Kathleen M. , Kalluri Raghu
Published: April 2023

source data of blots and gel
FigS5 from Single-Cell Transcriptomic Heterogeneity in Invasive Ductal and Lobular Breast Cancer Cells
Authors: Chen Fangyuan , Ding Kai , Priedigkeit Nolan , Elangovan Ashuvinee , Levine Kevin M. , Carleton Neil , Savariau Laura , Atkinson Jennifer M. , Oesterreich Steffi , Lee Adrian V.
Published: April 2023

FigS5
FigS1 from Single-Cell Transcriptomic Heterogeneity in Invasive Ductal and Lobular Breast Cancer Cells
Authors: Chen Fangyuan , Ding Kai , Priedigkeit Nolan , Elangovan Ashuvinee , Levine Kevin M. , Carleton Neil , Savariau Laura , Atkinson Jennifer M. , Oesterreich Steffi , Lee Adrian V.
Published: April 2023

FigS1
Supplementary Table S1 from Targeting p300/CBP Attenuates Hepatocellular Carcinoma Progression through Epigenetic Regulation of Metabolism
Authors: Cai Ling-Yan , Chen Shi-Jie , Xiao Sen-Hao , Sun Qin-Juan , Ding Chen-Hong , Zheng Bai-Nan , Zhu Xin-Yan , Liu Shu-Qing , Yang Feng , Yang Ya-Xi , Zhou Bing , Luo Cheng , Zhang Xin , Xie Wei-Fen
Published: April 2023

Supplementary Table S1. Primer and siRNA sequences
Video 5 from PLK1 Induces Chromosomal Instability and Overrides Cell-Cycle Checkpoints to Drive Tumorigenesis
Authors: Gheghiani Lilia , Wang Lei , Zhang Youwei , Moore Xavier T.R. , Zhang Jinglei , Smith Steven C. , Tian Yijun , Wang Liang , Turner Kristi , Jackson-Cook Colleen K. , Mukhopadhyay Nitai D. , Fu Zheng
Published: April 2023

Video 5 from PLK1 Induces Chromosomal Instability and Overrides Cell-Cycle Checkpoints to Drive Tumorigenesis
Supplemental Figures from The miR–181a–SFRP4 Axis Regulates Wnt Activation to Drive Stemness and Platinum Resistance in Ovarian Cancer
Authors: Belur Nagaraj Anil , Knarr Matthew , Sekhar Sreeja , Connor R. Shae , Joseph Peronne , Kovalenko Olga , Fleming Alexis , Surti Arshia , Nurmemmedov Elmar , Beltrame Luca , Marchini Sergio , Kahn Michael , DiFeo Analisa
Published: April 2023

Supplemental Figures 1-8.
Supplementary Figure S4 from Nedd9 Restrains Autophagy to Limit Growth of Early Stage Non–Small Cell Lung Cancer
Authors: Deneka Alexander Y. , Kopp Meghan C. , Nikonova Anna S. , Gaponova Anna V. , Kiseleva Anna A. , Hensley Harvey H. , Flieder Douglas B. , Serebriiskii Ilya G. , Golemis Erica A.
Published: April 2023

IHC asessment of dKP and KPN lungs from drug-treated mice
Table S4 from Tumor-Derived Pericytes Driven by EGFR Mutations Govern the Vascular and Immune Microenvironment of Gliomas
Authors: Segura-Collar Berta , Garranzo-Asensio María , Herranz Beatriz , Hernández-SanMiguel Esther , Cejalvo Teresa , Casas Bárbara S. , Matheu Ander , Pérez-Núñez Ángel , Sepúlveda-Sánchez Juan Manuel , Hernández-Laín Aurelio , Palma Verónica , Gargini Ricardo , Sánchez-Gómez Pilar
Published: April 2023

Primers
Supplementary Methods from Tumor-Derived Pericytes Driven by EGFR Mutations Govern the Vascular and Immune Microenvironment of Gliomas
Authors: Segura-Collar Berta , Garranzo-Asensio María , Herranz Beatriz , Hernández-SanMiguel Esther , Cejalvo Teresa , Casas Bárbara S. , Matheu Ander , Pérez-Núñez Ángel , Sepúlveda-Sánchez Juan Manuel , Hernández-Laín Aurelio , Palma Verónica , Gargini Ricardo , Sánchez-Gómez Pilar
Published: April 2023

Supplementary Materials and Methods
Figure S6 from Tumor-Derived Pericytes Driven by EGFR Mutations Govern the Vascular and Immune Microenvironment of Gliomas
Authors: Segura-Collar Berta , Garranzo-Asensio María , Herranz Beatriz , Hernández-SanMiguel Esther , Cejalvo Teresa , Casas Bárbara S. , Matheu Ander , Pérez-Núñez Ángel , Sepúlveda-Sánchez Juan Manuel , Hernández-Laín Aurelio , Palma Verónica , Gargini Ricardo , Sánchez-Gómez Pilar
Published: April 2023

Correlation of SOX9 expression with EGFR mutations in gliomas.
Figure S4 from Cancer-Associated Fibroblasts in Pancreatic Ductal Adenocarcinoma Determine Response to SLC7A11 Inhibition
Authors: Sharbeen George , McCarroll Joshua A. , Akerman Anouschka , Kopecky Chantal , Youkhana Janet , Kokkinos John , Holst Jeff , Boyer Cyrille , Erkan Mert , Goldstein David , Timpson Paul , Cox Thomas R. , Pereira Brooke A. , Chitty Jessica L. , Fey Sigrid K. , Najumudeen Arafath K. , Campbell Andrew D. , Sansom Owen J. , Ignacio Rosa Mistica C. , Naim Stephanie , Liu Jie , Russia Nelson , Lee Julia , Chou Angela , Johns Amber , Gill Anthony J. , Gonzales-Aloy Estrella , Gebski Val , Guan Yi Fang , Pajic Marina , Turner Nigel , Apte Minoti V. , Davis Thomas P. , Morton Jennifer P. , Haghighi Koroush S. , Kasparian Jorjina , McLean Benjamin J. , Setargew Yordanos F. , Phillips Phoebe A.
Published: April 2023

Confirmation of SLC7A11 knockdown in KPC tumour cells and CAFs and collagen fibril analysis in tumour sections at therapeutic model endpoint.
Supplementary Table 5 from The Proteomic Landscape of Growth Factor Signaling Networks Associated with FAT1 Mutations in Head and Neck Cancers
Authors: Chen Zhengjia , Zhang Chao , Chen Jianhong , Wang Dongsheng , Tu Jieqi , Van Waes Carter , Saba Nabil F. , Chen Zhuo G. , Chen Zhong
Published: April 2023

Table S5.1-5.2
Supplementary Figures from The Proteomic Landscape of Growth Factor Signaling Networks Associated with FAT1 Mutations in Head and Neck Cancers
Authors: Chen Zhengjia , Zhang Chao , Chen Jianhong , Wang Dongsheng , Tu Jieqi , Van Waes Carter , Saba Nabil F. , Chen Zhuo G. , Chen Zhong
Published: April 2023

Figures S1-S11
Supplementary Figures from The Proteomic Landscape of Growth Factor Signaling Networks Associated with FAT1 Mutations in Head and Neck Cancers
Authors: Chen Zhengjia , Zhang Chao , Chen Jianhong , Wang Dongsheng , Tu Jieqi , Van Waes Carter , Saba Nabil F. , Chen Zhuo G. , Chen Zhong
Published: April 2023

Figures S12&S13
Supplementary Data from The Proteomic Landscape of Growth Factor Signaling Networks Associated with FAT1 Mutations in Head and Neck Cancers
Authors: Chen Zhengjia , Zhang Chao , Chen Jianhong , Wang Dongsheng , Tu Jieqi , Van Waes Carter , Saba Nabil F. , Chen Zhuo G. , Chen Zhong
Published: April 2023

Revision FAT1 Suppl.V4
Supplementary Figures from Long Noncoding RNA NIHCOLE Promotes Ligation Efficiency of DNA Double-Strand Breaks in Hepatocellular Carcinoma
Authors: Unfried Juan P. , Marín-Baquero Mikel , Rivera-Calzada Ángel , Razquin Nerea , Martín-Cuevas Eva M. , de Bragança Sara , Aicart-Ramos Clara , McCoy Christopher , Prats-Mari Laura , Arribas-Bosacoma Raquel , Lee Linda , Caruso Stefano , Zucman-Rossi Jessica , Sangro Bruno , Williams Gareth , Moreno-Herrero Fernando , Llorca Oscar , Lees-Miller Susan P. , Fortes Puri
Published: April 2023

Supplementary Figures S1-S7
Supplementary Figure S3 from E2A Modulates Stemness, Metastasis, and Therapeutic Resistance of Breast Cancer
Authors: López-Menéndez Celia , Vázquez-Naharro Alberto , Santos Vanesa , Dubus Pierre , Santamaría Patricia G. , Martínez-Ramírez Ángel , Portillo Francisco , Moreno-Bueno Gema , Faraldo Marisa M. , Cano Amparo
Published: April 2023

Figure S3 and legends
Supplementary Figure 7 from Hedgehog Signaling Regulates Metabolism and Polarization of Mammary Tumor-Associated Macrophages
Authors: Hinshaw Dominique C. , Hanna Ann , Lama-Sherpa Tshering , Metge Brandon , Kammerud Sarah C. , Benavides Gloria A. , Kumar Atul , Alsheikh Heba Allah , Mota Mateus , Chen Dongquan , Ballinger Scott W. , Rathmell Jeffrey C. , Ponnazhagan Selvarangan , Darley-Usmar Victor , Samant Rajeev S. , Shevde Lalita A.
Published: April 2023

Supplementary Figure 7
Supplementary Figure 2 from Hedgehog Signaling Regulates Metabolism and Polarization of Mammary Tumor-Associated Macrophages
Authors: Hinshaw Dominique C. , Hanna Ann , Lama-Sherpa Tshering , Metge Brandon , Kammerud Sarah C. , Benavides Gloria A. , Kumar Atul , Alsheikh Heba Allah , Mota Mateus , Chen Dongquan , Ballinger Scott W. , Rathmell Jeffrey C. , Ponnazhagan Selvarangan , Darley-Usmar Victor , Samant Rajeev S. , Shevde Lalita A.
Published: April 2023

Supplementary Figure 2
Supplementary Data from EGFR Activates a TAZ-Driven Oncogenic Program in Glioblastoma
Authors: Gao Minling , Fu Yi , Zhou Weiqiang , Gui Gege , Lal Bachuchu , Li Yunqing , Xia Shuli , Ji Hongkai , Eberhart Charles G. , Laterra John , Ying Mingyao
Published: April 2023

Figure S1-S8 and legend for Table S1-S8
Table S2 from Loss of SDHB Promotes Dysregulated Iron Homeostasis, Oxidative Stress, and Sensitivity to Ascorbate
Authors: Goncalves Judith , Moog Sophie , Morin Aurélie , Gentric Géraldine , Müller Sebastian , Morrell Alexander P. , Kluckova Katarina , Stewart Theodora J. , Andoniadou Cynthia L. , Lussey-Lepoutre Charlotte , Bénit Paule , Thakker Alpesh , Vettore Lisa , Roberts Jennie , Rodriguez Raphaël , Mechta-Grigoriou Fatima , Gimenez-Roqueplo Anne-Paule , Letouzé Eric , Tennant Daniel A. , Favier Judith
Published: April 2023

Supplementary Table 2 Related to Figure 2. Differentially methylated gene-based features in Sdhb-/- versus Sdhd-/- imCCs
Supplementary Movie S1C from Treatment with HIV-Protease Inhibitor Nelfinavir Identifies Membrane Lipid Composition and Fluidity as a Therapeutic Target in Advanced Multiple Myeloma
Authors: Besse Lenka , Besse Andrej , Stolze Sara C. , Sobh Amin , Zaal Esther A. , van der Ham Alwin J. , Ruiz Mario , Phuyal Santosh , Büchler Lorina , Sathianathan Marc , Florea Bogdan I. , Borén Jan , Ståhlman Marcus , Huber Julia , Bolomsky Arnold , Ludwig Heinz , Hannich J. Thomas , Loguinov Alex , Everts Bart , Berkers Celia R. , Pilon Marc , Farhan Hesso , Vulpe Christopher D. , Overkleeft Herman S. , Driessen Christoph
Published: April 2023

Cells pre-treated for 3h with 20 µM nelfinavir.
Supplementary Figures from SHP2-Mediated Inhibition of DNA Repair Contributes to cGAS–STING Activation and Chemotherapeutic Sensitivity in Colon Cancer
Authors: Wei Bin , Xu Lingyan , Guo Wenjie , Wang Yuanyuan , Wu Jingjing , Li Xiaofei , Cai Xiaomin , Hu Jinbo , Wang Meijing , Xu Qiang , Liu Wen , Gu Yanhong
Published: April 2023

Supplementary Figure S1-5.
Supplementary movie 4 from Serine-Threonine Kinase TAO3-Mediated Trafficking of Endosomes Containing the Invadopodia Scaffold TKS5α Promotes Cancer Invasion and Tumor Growth
Authors: Iizuka Shinji , Quintavalle Manuela , Navarro Jose C. , Gribbin Kyle P. , Ardecky Robert J. , Abelman Matthew M. , Ma Chen-Ting , Sergienko Eduard , Zeng Fu-Yue , Pass Ian , Thomas George V. , McWeeney Shannon K. , Hassig Christian A. , Pinkerton Anthony B. , Courtneidge Sara A.
Published: April 2023

Effect of SU11333 on TKS5alpha vesicle trafficking
Supplementary movie 1 from Serine-Threonine Kinase TAO3-Mediated Trafficking of Endosomes Containing the Invadopodia Scaffold TKS5α Promotes Cancer Invasion and Tumor Growth
Authors: Iizuka Shinji , Quintavalle Manuela , Navarro Jose C. , Gribbin Kyle P. , Ardecky Robert J. , Abelman Matthew M. , Ma Chen-Ting , Sergienko Eduard , Zeng Fu-Yue , Pass Ian , Thomas George V. , McWeeney Shannon K. , Hassig Christian A. , Pinkerton Anthony B. , Courtneidge Sara A.
Published: April 2023

Trafficking of TKS5alpha vesicles
Supplementary Data from Spectral Endoscopy Enhances Contrast for Neoplasia in Surveillance of Barrett's Esophagus
Authors: Waterhouse Dale J. , Januszewicz Wladyslaw , Ali Sharib , Fitzgerald Rebecca C. , di Pietro Massimiliano , Bohndiek Sarah E.
Published: April 2023

Supplementary Data from Spectral Endoscopy Enhances Contrast for Neoplasia in Surveillance of Barrett's Esophagus
Supplementary Figure S6 from α1-Acid Glycoprotein Enhances the Immunosuppressive and Protumor Functions of Tumor-Associated Macrophages
Authors: Matsusaka Kotaro , Fujiwara Yukio , Pan Cheng , Esumi Shigeyuki , Saito Yoichi , Bi Jing , Nakamura Yuka , Mukunoki Ayumi , Takeo Toru , Nakagata Naomi , Yoshii Daiki , Fukuda Ryo , Nagasaki Taisei , Tanaka Ryusei , Komori Hisakazu , Maeda Hitoshi , Watanabe Hiroshi , Tamada Koji , Komohara Yoshihiro , Maruyama Toru
Published: April 2023

Effect of AGP on PD-L1 expression and STAT3 activation in both mouse macrophages and mouse tumor cells. Mouse peritoneal macrophages were incubated with AGP (1 mg/mL) for 24 h, followed by the determination of PD-L1 expression by western blot analysis and flow cytometry (A). Mouse tumor cells were incubated with AGP (1 mg/mL) for 24 h, followed by the determination of PD-L1 and β-actin expression by western blot analysis (B). Mouse peritoneal macrophages from AGP KO mice (C) and LLC cells (D) were incubated with serum derived from MC38-bearing AGP-KO mice treated with or without AGP for 24 h, followed by the determination of PD-L1 and β-actin expression by western blot analysis. LLC cells were incubated with AGP (1 mg/mL) (n=5 per group) for 24 h, followed by the determination of tumor proliferation by Cell Counting Kit-8 (E). MC38 cells were incubated with macrophages culture supernatant prepared from peritoneal macrophages of AGP-KO mice stimulated with serum derived from MC38-bearing AGP-KO mice treated with or without AGP for 24 h (F). IL-6 production in macrophages culture supernatant were evaluated by ELISA (F and G). pSTAT3, STAT3, and β-actin expression in the lysate of MC38 cells were evaluated by western blot analysis (F and H).
Supplementary Figure S3 from α1-Acid Glycoprotein Enhances the Immunosuppressive and Protumor Functions of Tumor-Associated Macrophages
Authors: Matsusaka Kotaro , Fujiwara Yukio , Pan Cheng , Esumi Shigeyuki , Saito Yoichi , Bi Jing , Nakamura Yuka , Mukunoki Ayumi , Takeo Toru , Nakagata Naomi , Yoshii Daiki , Fukuda Ryo , Nagasaki Taisei , Tanaka Ryusei , Komori Hisakazu , Maeda Hitoshi , Watanabe Hiroshi , Tamada Koji , Komohara Yoshihiro , Maruyama Toru
Published: April 2023

Involvement of IL-6R in AGP-MCM-induced STAT3 activation in tumor cells. IL-6R expression in macrophages and several tumor cells were determined by western blot analysis (A). HMDMs were incubated with IL-6 (10 ng/mL) and soluble IL-6R (20 ng/ml) for 24 h, followed by the determination of p-STAT3, STAT3, and β-actin expression by western blot analysis (B).
Supplementary Figure S2 from α1-Acid Glycoprotein Enhances the Immunosuppressive and Protumor Functions of Tumor-Associated Macrophages
Authors: Matsusaka Kotaro , Fujiwara Yukio , Pan Cheng , Esumi Shigeyuki , Saito Yoichi , Bi Jing , Nakamura Yuka , Mukunoki Ayumi , Takeo Toru , Nakagata Naomi , Yoshii Daiki , Fukuda Ryo , Nagasaki Taisei , Tanaka Ryusei , Komori Hisakazu , Maeda Hitoshi , Watanabe Hiroshi , Tamada Koji , Komohara Yoshihiro , Maruyama Toru
Published: April 2023

RNA-seq transcriptome analysis of macrophages vs macrophages with AGP samples. The heat map represents the normalized gene level RNA-Seq expression data in TPM (Transcripts per Million) for 1204 significant genes (q-value < 0.05) between macrophages vs macrophages with AGP samples (A). The Scatter blot represents the normalized gene level RNA-Seq expression data for all genes. Grey circle represented non-significant genes. Magenta circle represented significantly up-regulated genes. Cian circle represented down-regulated genes. In total 1204 genes were up- or down regulated, of which 503 genes were up-regulated genes (macrophages > macrophages with AGP, P<0.05) and 700 genes were down-regulated genes (macrophages < macrophages with AGP, P<0.05). Black circle represented IL6 gene, red circle represented PD-L1 (CD274). IL6 and PD-L1 (CD274) gene were both up regulated significantly (B). Chart of enriched ontology clusters of up- and down-regulated genes between macrophages vs macrophages with AGP samples using Metascape. Bar graph of enriched terms across up-regulated and down-regulated gene lists, colored by p-values. Top 20 best p-value terms were represented. Ontology including genes are described supplementary table (C). Network analysis by enriched terms between macrophages vs macrophages with AGP samples using Metascape. Colored by cluster ID, where nodes that share the same cluster ID are typically close to each other (D).
Figure S1-S12, Table S1-S4 from Alteration of MDM2 by the Small Molecule YF438 Exerts Antitumor Effects in Triple-Negative Breast Cancer
Authors: Shan Peipei , Yang Feifei , Qi Hongzhao , Hu Yunjie , Zhu Sujie , Sun Zhenqing , Zhang Zhe , Wang Chuanxiao , Hou Caixia , Yu Jie , Wang Lirong , Zhou Zhixia , Li Peifeng , Zhang Hua , Wang Kun
Published: April 2023

Including Figure S1-S12 and Table S1-S4
Table S1 from Loss-of-Function Mutations in TRAF7 and KLF4 Cooperatively Activate RAS-Like GTPase Signaling and Promote Meningioma Development
Authors: Najm Paul , Zhao Peihua , Steklov Mikhail , Sewduth Raj Nayan , Baietti Maria Francesca , Pandolfi Silvia , Criem Nathan , Lechat Benoit , Maia Teresa Mendes , Van Haver Delphi , Corthout Nikky , Eyckerman Sven , Impens Francis , Sablina Anna A.
Published: April 2023

Key Resources
Supplementary Data from mTOR Activation Initiates Renal Cell Carcinoma Development by Coordinating ERK and p38MAPK
Authors: Wu Hongguang , He Dan , Biswas Soma , Shafiquzzaman Md , Zhou Xin , Charron Jean , Wang Yibin , Nayak Bijaya K. , Habib Samy L. , Liu Huijuan , Li Baojie
Published: April 2023

Supplementary Figures
EV real time image from Mesenchymal Stem Cell–Secreted Extracellular Vesicles Instruct Stepwise Dedifferentiation of Breast Cancer Cells into Dormancy at the Bone Marrow Perivascular Region
Authors: Sandiford Oleta A. , Donnelly Robert J. , El-Far Markos H. , Burgmeyer Lisa M. , Sinha Garima , Pamarthi Sri Harika , Sherman Lauren S. , Ferrer Alejandra I. , DeVore Dariana E. , Patel Shyam A. , Naaldijk Yahaira , Alonso Sara , Barak Pradeep , Bryan Margarette , Ponzio Nicholas M. , Narayanan Ramaswamy , Etchegaray Jean-Pierre , Kumar Rakesh , Rameshwar Pranela
Published: April 2023

Shows EVs moving inside the cell
Supplementary Table 7 from Cancer-Associated Fibroblasts Promote Aggressive Gastric Cancer Phenotypes via Heat Shock Factor 1–Mediated Secretion of Extracellular Vesicles
Authors: Grunberg Nil , Pevsner-Fischer Meirav , Goshen-Lago Tal , Diment Judith , Stein Yaniv , Lavon Hagar , Mayer Shimrit , Levi-Galibov Oshrat , Friedman Gil , Ofir-Birin Yifat , Syu Li-Jyun , Migliore Cristina , Shimoni Eyal , Stemmer Salomon M. , Brenner Baruch , Dlugosz Andrzej A. , Lyden David , Regev-Rudzki Neta , Ben-Aharon Irit , Scherz-Shouval Ruth
Published: April 2023

Gene set enrichment analysis (GSEA) using MSigDB (Hallmark gene sets) on the full stromal patient RNA-seq data
Supplementary Table 4 from Cancer-Associated Fibroblasts Promote Aggressive Gastric Cancer Phenotypes via Heat Shock Factor 1–Mediated Secretion of Extracellular Vesicles
Authors: Grunberg Nil , Pevsner-Fischer Meirav , Goshen-Lago Tal , Diment Judith , Stein Yaniv , Lavon Hagar , Mayer Shimrit , Levi-Galibov Oshrat , Friedman Gil , Ofir-Birin Yifat , Syu Li-Jyun , Migliore Cristina , Shimoni Eyal , Stemmer Salomon M. , Brenner Baruch , Dlugosz Andrzej A. , Lyden David , Regev-Rudzki Neta , Ben-Aharon Irit , Scherz-Shouval Ruth
Published: April 2023

Pathway analysis of stroma from gastric cancer patients
Supplementary Table 3 from Cancer-Associated Fibroblasts Promote Aggressive Gastric Cancer Phenotypes via Heat Shock Factor 1–Mediated Secretion of Extracellular Vesicles
Authors: Grunberg Nil , Pevsner-Fischer Meirav , Goshen-Lago Tal , Diment Judith , Stein Yaniv , Lavon Hagar , Mayer Shimrit , Levi-Galibov Oshrat , Friedman Gil , Ofir-Birin Yifat , Syu Li-Jyun , Migliore Cristina , Shimoni Eyal , Stemmer Salomon M. , Brenner Baruch , Dlugosz Andrzej A. , Lyden David , Regev-Rudzki Neta , Ben-Aharon Irit , Scherz-Shouval Ruth
Published: April 2023

RNA-seq results of stroma and cancer from gastric cancer patients
Supplementary Table 10 from Cancer-Associated Fibroblasts Promote Aggressive Gastric Cancer Phenotypes via Heat Shock Factor 1–Mediated Secretion of Extracellular Vesicles
Authors: Grunberg Nil , Pevsner-Fischer Meirav , Goshen-Lago Tal , Diment Judith , Stein Yaniv , Lavon Hagar , Mayer Shimrit , Levi-Galibov Oshrat , Friedman Gil , Ofir-Birin Yifat , Syu Li-Jyun , Migliore Cristina , Shimoni Eyal , Stemmer Salomon M. , Brenner Baruch , Dlugosz Andrzej A. , Lyden David , Regev-Rudzki Neta , Ben-Aharon Irit , Scherz-Shouval Ruth
Published: April 2023

Pathway analysis of PDPN+cancer-associated fibroblasts (CAFs) from triple-transgenic gastric cancer mice
Figure S4 from Gut Microbiota–Derived Short-Chain Fatty Acids Promote Prostate Cancer Growth via IGF1 Signaling
Authors: Matsushita Makoto , Fujita Kazutoshi , Hayashi Takuji , Kayama Hisako , Motooka Daisuke , Hase Hiroaki , Jingushi Kentaro , Yamamichi Gaku , Yumiba Satoru , Tomiyama Eisuke , Koh Yoko , Hayashi Yujiro , Nakano Kosuke , Wang Cong , Ishizuya Yu , Kato Taigo , Hatano Koji , Kawashima Atsunari , Ujike Takeshi , Uemura Motohide , Imamura Ryoichi , Rodriguez Pena Maria D.C. , Gordetsky Jennifer B. , Netto George J. , Tsujikawa Kazutake , Nakamura Shota , Takeda Kiyoshi , Nonomura Norio
Published: April 2023

Abx-induced changes in phosphorylation MEK and S6RP in cancer cells of CD and HFD mice.
Supplementary Figure from Suppression of Endothelial Cell FAK Expression Reduces Pancreatic Ductal Adenocarcinoma Metastasis after Gemcitabine Treatment
Authors: Roy-Luzarraga Marina , Reynolds Louise E. , de Luxán-Delgado Beatriz , Maiques Oscar , Wisniewski Laura , Newport Emma , Rajeeve Vinothini , Drake Rebecca J.G. , Gómez-Escudero Jesús , Richards Frances M. , Weller Céline , Dormann Christof , Meng Ya-Ming , Vermeulen Peter B. , Saur Dieter , Sanz-Moreno Victoria , Wong Ping-Pui , Géraud Cyrill , Cutillas Pedro R. , Hodivala-Dilke Kairbaan
Published: April 2023

Supplementary Figure from Suppression of Endothelial Cell FAK Expression Reduces Pancreatic Ductal Adenocarcinoma Metastasis after Gemcitabine Treatment
Supplementary Table 6 from Estrogen Receptor β-Mediated Inhibition of Actin-Based Cell Migration Suppresses Metastasis of Inflammatory Breast Cancer
Authors: Thomas Christoforos , Karagounis Ilias V. , Srivastava Ratnesh K. , Vrettos Nicholas , Nikolos Fotis , Francois Noëlle , Huang Menggui , Gong Siliang , Long Qi , Kumar Sushil , Koumenis Constantinos , Krishnamurthy Savitri , Ueno Naoto T. , Chakrabarti Rumela , Maity Amit
Published: April 2023

Table with altered genes from microarray analysis
Supplementary Data from Estrogen Receptor β-Mediated Inhibition of Actin-Based Cell Migration Suppresses Metastasis of Inflammatory Breast Cancer
Authors: Thomas Christoforos , Karagounis Ilias V. , Srivastava Ratnesh K. , Vrettos Nicholas , Nikolos Fotis , Francois Noëlle , Huang Menggui , Gong Siliang , Long Qi , Kumar Sushil , Koumenis Constantinos , Krishnamurthy Savitri , Ueno Naoto T. , Chakrabarti Rumela , Maity Amit
Published: April 2023

Supplemental Tables 1-3, with primers, siRNA sequences and reagents.
Supplementary Data from E2F1 and E2F2-Mediated Repression of CPT2 Establishes a Lipid-Rich Tumor-Promoting Environment
Authors: González-Romero Francisco , Mestre Daniela , Aurrekoetxea Igor , O'Rourke Colm J. , Andersen Jesper B. , Woodhoo Ashwin , Tamayo-Caro Miguel , Varela-Rey Marta , Palomo-Irigoyen Marta , Gómez-Santos Beatriz , de Urturi Diego Sáenz , Núñez-García Maitane , García-Rodríguez Juan L. , Fernández-Ares Larraitz , Buqué Xabier , Iglesias-Ara Ainhoa , Bernales Irantzu , De Juan Virginia Gutierrez , Delgado Teresa C. , Goikoetxea-Usandizaga Naroa , Lee Richard , Bhanot Sanjay , Delgado Igotz , Perugorria Maria J. , Errazti Gaizka , Mosteiro Lorena , Gaztambide Sonia , Martinez de la Piscina Idoia , Iruzubieta Paula , Crespo Javier , Banales Jesus M. , Martínez-Chantar Maria L. , Castaño Luis , Zubiaga Ana M. , Aspichueta Patricia
Published: April 2023

Full unedited blots
Supplementary Information and Figure Legends from YAP and β-Catenin Cooperate to Drive Oncogenesis in Basal Breast Cancer
Authors: Quinn Hazel M. , Vogel Regina , Popp Oliver , Mertins Philipp , Lan Linxiang , Messerschmidt Clemens , Landshammer Alexandro , Lisek Kamil , Château-Joubert Sophie , Marangoni Elisabetta , Koren Elle , Fuchs Yaron , Birchmeier Walter
Published: April 2023

Supplementary material and methods and Supplementary Figure Legends
Supplementary Figure 5 from YAP and β-Catenin Cooperate to Drive Oncogenesis in Basal Breast Cancer
Authors: Quinn Hazel M. , Vogel Regina , Popp Oliver , Mertins Philipp , Lan Linxiang , Messerschmidt Clemens , Landshammer Alexandro , Lisek Kamil , Château-Joubert Sophie , Marangoni Elisabetta , Koren Elle , Fuchs Yaron , Birchmeier Walter
Published: April 2023

Supplementary figure related to figure 5. Supplementary Fig. 5. Stem cell-enriched spheres recapitulate in vivo cell phenotypes.
Supplementary Figure from Phosphorylation of SHP2 at Tyr62 Enables Acquired Resistance to SHP2 Allosteric Inhibitors in FLT3-ITD–Driven AML
Authors: Pfeiffer Anamarija , Franciosa Giulia , Locard-Paulet Marie , Piga Ilaria , Reckzeh Kristian , Vemulapalli Vidyasiri , Blacklow Stephen C. , Theilgaard-Mönch Kim , Jensen Lars J. , Olsen Jesper V.
Published: April 2023

Supplementary Figure from Phosphorylation of SHP2 at Tyr62 Enables Acquired Resistance to SHP2 Allosteric Inhibitors in FLT3-ITD–Driven AML
Supplementary Figure 2 from YAP and β-Catenin Cooperate to Drive Oncogenesis in Basal Breast Cancer
Authors: Quinn Hazel M. , Vogel Regina , Popp Oliver , Mertins Philipp , Lan Linxiang , Messerschmidt Clemens , Landshammer Alexandro , Lisek Kamil , Château-Joubert Sophie , Marangoni Elisabetta , Koren Elle , Fuchs Yaron , Birchmeier Walter
Published: April 2023

Supplementary figure related to figure 2. Supplementary Fig. 2. Pharmacological evidence of YAP dependency in Wnt-Met tumours.
Supplementary Data from Fat Induces Glucose Metabolism in Nontransformed Liver Cells and Promotes Liver Tumorigenesis
Authors: Broadfield Lindsay A. , Duarte João André Gonçalves , Schmieder Roberta , Broekaert Dorien , Veys Koen , Planque Mélanie , Vriens Kim , Karasawa Yasuaki , Napolitano Francesco , Fujita Suguru , Fujii Masashi , Eto Miki , Holvoet Bryan , Vangoitsenhoven Roman , Fernandez-Garcia Juan , Van Elsen Joke , Dehairs Jonas , Zeng Jia , Dooley James , Rubio Rebeca Alba , van Pelt Jos , Grünewald Thomas G.P. , Liston Adrian , Mathieu Chantal , Deroose Christophe M. , Swinnen Johannes V. , Lambrechts Diether , di Bernardo Diego , Kuroda Shinya , De Bock Katrien , Fendt Sarah-Maria
Published: April 2023

Supplemental tables 1-10.
Movie S5 from Cytoplasmic Localization of Prostate-Specific Membrane Antigen Inhibitors May Confer Advantages for Targeted Cancer Therapies
Authors: Matthias Jessica , Engelhardt Johann , Schäfer Martin , Bauder-Wüst Ulrike , Meyer Philipp T. , Haberkorn Uwe , Eder Matthias , Kopka Klaus , Hell Stefan W. , Eder Ann-Christin
Published: April 2023

STED LNCaP PSMA-STAR 600 LysoTracker Green DND-26 and STED LNCaP PSMA-STAR 600 SiR-lysosome 5um
Movie S3 from Cytoplasmic Localization of Prostate-Specific Membrane Antigen Inhibitors May Confer Advantages for Targeted Cancer Therapies
Authors: Matthias Jessica , Engelhardt Johann , Schäfer Martin , Bauder-Wüst Ulrike , Meyer Philipp T. , Haberkorn Uwe , Eder Matthias , Kopka Klaus , Hell Stefan W. , Eder Ann-Christin
Published: April 2023

LNCaP Glu-urea-Lys-HBED-STAR RED holographic
Supplemental Methods from Fc-Optimized Anti-CCR8 Antibody Depletes Regulatory T Cells in Human Tumor Models
Authors: Campbell Joseph R. , McDonald Bryan R. , Mesko Paul B. , Siemers Nathan O. , Singh Priti B. , Selby Mark , Sproul Tim W. , Korman Alan J. , Vlach Logan M. , Houser Jeff , Sambanthamoorthy Sharmila , Lu Kai , Hatcher Sandra V. , Lohre Jack , Jain Renu , Lan Ruth Y.
Published: April 2023

Supplemental materials and methods
Figure S8 from Fc-Optimized Anti-CCR8 Antibody Depletes Regulatory T Cells in Human Tumor Models
Authors: Campbell Joseph R. , McDonald Bryan R. , Mesko Paul B. , Siemers Nathan O. , Singh Priti B. , Selby Mark , Sproul Tim W. , Korman Alan J. , Vlach Logan M. , Houser Jeff , Sambanthamoorthy Sharmila , Lu Kai , Hatcher Sandra V. , Lohre Jack , Jain Renu , Lan Ruth Y.
Published: April 2023

Figure S8 shows binding and CD16 cross-linking characteristics of anti-human CCR8 antibodies
Figure S5 from A Dual PI3K/HDAC Inhibitor Induces Immunogenic Ferroptosis to Potentiate Cancer Immune Checkpoint Therapy
Authors: Fan Fushun , Liu Pei , Bao Rudi , Chen Jian , Zhou Minhua , Mo Zhenxian , Ma Yaru , Liu Haiqi , Zhou Yiping , Cai Xiong , Qian Changgeng , Liu Xinjian
Published: April 2023

BEBT-908-induced MHC I expression and pro-inflammatory microenvironment in treated tumors.
Figure S5 from Fc-Optimized Anti-CCR8 Antibody Depletes Regulatory T Cells in Human Tumor Models
Authors: Campbell Joseph R. , McDonald Bryan R. , Mesko Paul B. , Siemers Nathan O. , Singh Priti B. , Selby Mark , Sproul Tim W. , Korman Alan J. , Vlach Logan M. , Houser Jeff , Sambanthamoorthy Sharmila , Lu Kai , Hatcher Sandra V. , Lohre Jack , Jain Renu , Lan Ruth Y.
Published: April 2023

Figure S5 shows human splenic and skin expressions of CCR8
Figure S3 from A Dual PI3K/HDAC Inhibitor Induces Immunogenic Ferroptosis to Potentiate Cancer Immune Checkpoint Therapy
Authors: Fan Fushun , Liu Pei , Bao Rudi , Chen Jian , Zhou Minhua , Mo Zhenxian , Ma Yaru , Liu Haiqi , Zhou Yiping , Cai Xiong , Qian Changgeng , Liu Xinjian
Published: April 2023

Transcriptional profiling, cell cycle arrest and apoptosis of BEBT-908 treated tumor cells.
Figure S3 from Fc-Optimized Anti-CCR8 Antibody Depletes Regulatory T Cells in Human Tumor Models
Authors: Campbell Joseph R. , McDonald Bryan R. , Mesko Paul B. , Siemers Nathan O. , Singh Priti B. , Selby Mark , Sproul Tim W. , Korman Alan J. , Vlach Logan M. , Houser Jeff , Sambanthamoorthy Sharmila , Lu Kai , Hatcher Sandra V. , Lohre Jack , Jain Renu , Lan Ruth Y.
Published: April 2023

Binding, blocking and Fc engaging characteristics of anti-mouse CCR8 antibodies
Figure S1 from A Dual PI3K/HDAC Inhibitor Induces Immunogenic Ferroptosis to Potentiate Cancer Immune Checkpoint Therapy
Authors: Fan Fushun , Liu Pei , Bao Rudi , Chen Jian , Zhou Minhua , Mo Zhenxian , Ma Yaru , Liu Haiqi , Zhou Yiping , Cai Xiong , Qian Changgeng , Liu Xinjian
Published: April 2023

The synthesis scheme of BEBT-908.
Figure S2 from Fc-Optimized Anti-CCR8 Antibody Depletes Regulatory T Cells in Human Tumor Models
Authors: Campbell Joseph R. , McDonald Bryan R. , Mesko Paul B. , Siemers Nathan O. , Singh Priti B. , Selby Mark , Sproul Tim W. , Korman Alan J. , Vlach Logan M. , Houser Jeff , Sambanthamoorthy Sharmila , Lu Kai , Hatcher Sandra V. , Lohre Jack , Jain Renu , Lan Ruth Y.
Published: April 2023

Figure S2 shows single cell RNAseq analysis of CCR8+ and CCR8- subpopulations of tumor CD4+FOXP3+ T cells
Supplementary Table from Phosphatidylserine Synthase PTDSS1 Shapes the Tumor Lipidome to Maintain Tumor-Promoting Inflammation
Authors: Sekar Divya , Dillmann Christina , Sirait-Fischer Evelyn , Fink Annika F. , Zivkovic Aleksandra , Baum Natalie , Strack Elisabeth , Klatt Stephan , Zukunft Sven , Wallner Stefan , Descot Arnaud , Olesch Catherine , da Silva Priscila , von Knethen Andreas , Schmid Tobias , Grösch Sabine , Savai Rajkumar , Ferreirós Nerea , Fleming Ingrid , Ghosh Sourav , Rothlin Carla V. , Stark Holger , Medyouf Hind , Brüne Bernhard , Weigert Andreas
Published: April 2023

Supplementary Table from Phosphatidylserine Synthase PTDSS1 Shapes the Tumor Lipidome to Maintain Tumor-Promoting Inflammation
Figure S4 from Targeting the IRE1α/XBP1 Endoplasmic Reticulum Stress Response Pathway in ARID1A-Mutant Ovarian Cancers
Authors: Zundell Joseph A. , Fukumoto Takeshi , Lin Jianhuang , Fatkhudinov Nail , Nacarelli Timothy , Kossenkov Andrew V. , Liu Qin , Cassel Joel , Hu Chih-Chi Andrew , Wu Shuai , Zhang Rugang
Published: April 2023

Figure S4 demonstrates Xbp1 knockout in Arid1a-/-/Pik3caH1047R genetic OCCC model.
Supplementary Figure from Phosphatidylserine Synthase PTDSS1 Shapes the Tumor Lipidome to Maintain Tumor-Promoting Inflammation
Authors: Sekar Divya , Dillmann Christina , Sirait-Fischer Evelyn , Fink Annika F. , Zivkovic Aleksandra , Baum Natalie , Strack Elisabeth , Klatt Stephan , Zukunft Sven , Wallner Stefan , Descot Arnaud , Olesch Catherine , da Silva Priscila , von Knethen Andreas , Schmid Tobias , Grösch Sabine , Savai Rajkumar , Ferreirós Nerea , Fleming Ingrid , Ghosh Sourav , Rothlin Carla V. , Stark Holger , Medyouf Hind , Brüne Bernhard , Weigert Andreas
Published: April 2023

Supplementary Figure from Phosphatidylserine Synthase PTDSS1 Shapes the Tumor Lipidome to Maintain Tumor-Promoting Inflammation
Figure S3 from Targeting the IRE1α/XBP1 Endoplasmic Reticulum Stress Response Pathway in ARID1A-Mutant Ovarian Cancers
Authors: Zundell Joseph A. , Fukumoto Takeshi , Lin Jianhuang , Fatkhudinov Nail , Nacarelli Timothy , Kossenkov Andrew V. , Liu Qin , Cassel Joel , Hu Chih-Chi Andrew , Wu Shuai , Zhang Rugang
Published: April 2023

Figure S3 demonstrates a correlation between ARID1A mutational status and response to IRE1a inhibition.
Figure S1 from Targeting the IRE1α/XBP1 Endoplasmic Reticulum Stress Response Pathway in ARID1A-Mutant Ovarian Cancers
Authors: Zundell Joseph A. , Fukumoto Takeshi , Lin Jianhuang , Fatkhudinov Nail , Nacarelli Timothy , Kossenkov Andrew V. , Liu Qin , Cassel Joel , Hu Chih-Chi Andrew , Wu Shuai , Zhang Rugang
Published: April 2023

Figure S1 shows that ARID1A regulates the IRE1a/XBP1 pathway.
Supplementary Table S5 from A Combinatorial CRISPR–Cas9 Screen Identifies Ifenprodil as an Adjunct to Sorafenib for Liver Cancer Treatment
Authors: Xu Feng , Tong Man , Tong Cindy S.W. , Chan Becky K.C. , Chu Hoi Yee , Wong Tin Lok , Fong John H.C. , Cheung Maggie S.H. , Mak Kylie Hin-Man , Pardeshi Lakhansing , Huang Yuanhua , Wong Koon Ho , Choi Gigi C.G. , Ma Stephanie , Wong Alan S.L.
Published: April 2023

Supplementary Table S5
Table S7 from Exogenous and Endogenous Sources of Serine Contribute to Colon Cancer Metabolism, Growth, and Resistance to 5-Fluorouracil
Authors: Montrose David C. , Saha Suchandrima , Foronda Miguel , McNally Erin M. , Chen Justin , Zhou Xi Kathy , Ha Taehoon , Krumsiek Jan , Buyukozkan Mustafa , Verma Akanksha , Elemento Olivier , Yantiss Rhonda K. , Chen Qiuying , Gross Steven S. , Galluzzi Lorenzo , Dow Lukas E. , Dannenberg Andrew J.
Published: April 2023

Summary of metabolite profiling results from HCT116 EV cells cultured in complete medium and PSAT1 KO cells cultured in serine deficient medium and treated with vehicle or 5-FU.
Supplementary Table S2 from A Combinatorial CRISPR–Cas9 Screen Identifies Ifenprodil as an Adjunct to Sorafenib for Liver Cancer Treatment
Authors: Xu Feng , Tong Man , Tong Cindy S.W. , Chan Becky K.C. , Chu Hoi Yee , Wong Tin Lok , Fong John H.C. , Cheung Maggie S.H. , Mak Kylie Hin-Man , Pardeshi Lakhansing , Huang Yuanhua , Wong Koon Ho , Choi Gigi C.G. , Ma Stephanie , Wong Alan S.L.
Published: April 2023

Supplementary Table S2
Table S5 from Exogenous and Endogenous Sources of Serine Contribute to Colon Cancer Metabolism, Growth, and Resistance to 5-Fluorouracil
Authors: Montrose David C. , Saha Suchandrima , Foronda Miguel , McNally Erin M. , Chen Justin , Zhou Xi Kathy , Ha Taehoon , Krumsiek Jan , Buyukozkan Mustafa , Verma Akanksha , Elemento Olivier , Yantiss Rhonda K. , Chen Qiuying , Gross Steven S. , Galluzzi Lorenzo , Dow Lukas E. , Dannenberg Andrew J.
Published: April 2023

Summary of metabolite profiling results from HCT116 EV and PSAT1 KO cells cultured in complete or serine deficient medium.
Supplementary Table S1 from A Combinatorial CRISPR–Cas9 Screen Identifies Ifenprodil as an Adjunct to Sorafenib for Liver Cancer Treatment
Authors: Xu Feng , Tong Man , Tong Cindy S.W. , Chan Becky K.C. , Chu Hoi Yee , Wong Tin Lok , Fong John H.C. , Cheung Maggie S.H. , Mak Kylie Hin-Man , Pardeshi Lakhansing , Huang Yuanhua , Wong Koon Ho , Choi Gigi C.G. , Ma Stephanie , Wong Alan S.L.
Published: April 2023

Supplementary Table S1
Table S3 from Exogenous and Endogenous Sources of Serine Contribute to Colon Cancer Metabolism, Growth, and Resistance to 5-Fluorouracil
Authors: Montrose David C. , Saha Suchandrima , Foronda Miguel , McNally Erin M. , Chen Justin , Zhou Xi Kathy , Ha Taehoon , Krumsiek Jan , Buyukozkan Mustafa , Verma Akanksha , Elemento Olivier , Yantiss Rhonda K. , Chen Qiuying , Gross Steven S. , Galluzzi Lorenzo , Dow Lukas E. , Dannenberg Andrew J.
Published: April 2023

Primers used for T7 surveyor assays.
Table S1 from Exogenous and Endogenous Sources of Serine Contribute to Colon Cancer Metabolism, Growth, and Resistance to 5-Fluorouracil
Authors: Montrose David C. , Saha Suchandrima , Foronda Miguel , McNally Erin M. , Chen Justin , Zhou Xi Kathy , Ha Taehoon , Krumsiek Jan , Buyukozkan Mustafa , Verma Akanksha , Elemento Olivier , Yantiss Rhonda K. , Chen Qiuying , Gross Steven S. , Galluzzi Lorenzo , Dow Lukas E. , Dannenberg Andrew J.
Published: April 2023

Composition of experimental diets.
Supplementary Data from Targeting IGF Perturbs Global Replication through Ribonucleotide Reductase Dysfunction
Authors: Rieunier Guillaume , Wu Xiaoning , Harris Letitia E. , Mills Jack V. , Nandakumar Ashwin , Colling Laura , Seraia Elena , Hatch Stephanie B. , Ebner Daniel V. , Folkes Lisa K. , Weyer-Czernilofsky Ulrike , Bogenrieder Thomas , Ryan Anderson J. , Macaulay Valentine M.
Published: April 2023

Supplementary methods, Table S1-S2, Figure S1-S6
Figure S8 from Exogenous and Endogenous Sources of Serine Contribute to Colon Cancer Metabolism, Growth, and Resistance to 5-Fluorouracil
Authors: Montrose David C. , Saha Suchandrima , Foronda Miguel , McNally Erin M. , Chen Justin , Zhou Xi Kathy , Ha Taehoon , Krumsiek Jan , Buyukozkan Mustafa , Verma Akanksha , Elemento Olivier , Yantiss Rhonda K. , Chen Qiuying , Gross Steven S. , Galluzzi Lorenzo , Dow Lukas E. , Dannenberg Andrew J.
Published: April 2023

Supplementary Figure S8. Serine deprivation alters the metabolite profile of DLD1 cells.
Supplementary methods, figures and tables from A TNFR2–hnRNPK Axis Promotes Primary Liver Cancer Development via Activation of YAP Signaling in Hepatic Progenitor Cells
Authors: Meng Yan , Zhao Qiudong , An Liwei , Jiao Shi , Li Rong , Sang Yan , Liao Jianping , Nie Pingping , Wen Fuping , Ju Junyi , Zhou Zhaocai , Wei Lixin
Published: April 2023

The supplementary materials and methods are about the description of antibody and primer sequence. Supplementary Figure 1-7: Figure S1. TNFR2 promotes the tumorigenesis of PLC; Figure S2. TNFα promotes YAP signaling independent on TNFR1; Figure S3. TNFR2 induces YAP activation dependent on hnRNPK; Figure S4. TNFR2 induces YAP activation through P38 pathway; Figure S5. hnRNPK interacts with YAP forming a complex on the promoter regions; Figure S6. The expression of YAP target genes at single cell level in HPC-like population; Figure S7. Pathological association of TNFR2-hnRNPK axis with YAP in PLC. Supplemental tables 1-6 show the correlation between TNFR2/hnRNPK and YAP and the clinical relevance of TNFR2/hnRNPK/YAP in PLC
Figure S3 from Exogenous and Endogenous Sources of Serine Contribute to Colon Cancer Metabolism, Growth, and Resistance to 5-Fluorouracil
Authors: Montrose David C. , Saha Suchandrima , Foronda Miguel , McNally Erin M. , Chen Justin , Zhou Xi Kathy , Ha Taehoon , Krumsiek Jan , Buyukozkan Mustafa , Verma Akanksha , Elemento Olivier , Yantiss Rhonda K. , Chen Qiuying , Gross Steven S. , Galluzzi Lorenzo , Dow Lukas E. , Dannenberg Andrew J.
Published: April 2023

Supplementary Figure S3. KRAS mutation status does not impact expression of genes controlling serine synthesis.
Figure S2 from Exogenous and Endogenous Sources of Serine Contribute to Colon Cancer Metabolism, Growth, and Resistance to 5-Fluorouracil
Authors: Montrose David C. , Saha Suchandrima , Foronda Miguel , McNally Erin M. , Chen Justin , Zhou Xi Kathy , Ha Taehoon , Krumsiek Jan , Buyukozkan Mustafa , Verma Akanksha , Elemento Olivier , Yantiss Rhonda K. , Chen Qiuying , Gross Steven S. , Galluzzi Lorenzo , Dow Lukas E. , Dannenberg Andrew J.
Published: April 2023

Supplementary Figure S2. High serine synthesis gene expression in tumors from colon cancer patients is associated with reduced overall survival.