bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figures 1 and 2 from An Orally Active Galectin-3 Antagonist Inhibits Lung Adenocarcinoma Growth and Augments Response to PD-L1 Blockade
Authors: Vuong Lynda , Kouverianou Eleni , Rooney Claire M. , McHugh Brian J. , Howie Sarah E.M. , Gregory Christopher D. , Forbes Stuart J. , Henderson Neil C. , Zetterberg Fredrik R. , Nilsson Ulf J. , Leffler Hakon , Ford Paul , Pedersen Anders , Gravelle Lise , Tantawi Susan , Schambye Hans , Sethi Tariq , MacKinnon Alison C.
Published: April 2023

Figure S1 Anti-galectin-3 antibodies do not correlate with decreased tumor volume in galectin-3-/- mice. Figure S2 Effect of DT administration in CD11b-DTR mice on TAMs.
Primer sequences from Platelet-Specific PDGFB Ablation Impairs Tumor Vessel Integrity and Promotes Metastasis
Authors: Zhang Yanyu , Cedervall Jessica , Hamidi Anahita , Herre Melanie , Viitaniemi Kati , D'Amico Gabriela , Miao Zuoxiu , Unnithan Ragaseema Valsala Madhavan , Vaccaro Alessandra , van Hooren Luuk , Georganaki Maria , Thulin Åsa , Qiao Qi , Andrae Johanna , Siegbahn Agneta , Heldin Carl-Henrik , Alitalo Kari , Betsholtz Christer , Dimberg Anna , Olsson Anna-Karin
Published: April 2023

Supplementary methods: Primer sequences
Supplementary Tables from Activation of a Subset of Evolutionarily Young Transposable Elements and Innate Immunity Are Linked to Clinical Responses to 5-Azacytidine
Authors: Ohtani Hitoshi , Ørskov Andreas D. , Helbo Alexandra S. , Gillberg Linn , Liu Minmin , Zhou Wanding , Ungerstedt Johanna , Hellström-Lindberg Eva , Sun Weili , Liang Gangning , Jones Peter A. , Grønbæk Kirsten
Published: April 2023

4 supplementary tables include information about patient characteristics (table S1), primer design (table S2), list of up-regulated genes (table S3), and list of gene ontology terms of the up-regulated genes (table S4).
Supplementary Figures 1-10 from Activation of a Subset of Evolutionarily Young Transposable Elements and Innate Immunity Are Linked to Clinical Responses to 5-Azacytidine
Authors: Ohtani Hitoshi , Ørskov Andreas D. , Helbo Alexandra S. , Gillberg Linn , Liu Minmin , Zhou Wanding , Ungerstedt Johanna , Hellström-Lindberg Eva , Sun Weili , Liang Gangning , Jones Peter A. , Grønbæk Kirsten
Published: April 2023

10 supplementary figures and figure legends include information about the cohorts of hematological cancer patients (S1), genes up-regulated in responders relative to non-responders (S2-S4), transposable elements that show responder-specific induction upon AZA treatment (S5-S8), and expression changes of the innate immune genes, LTRs, and tumor suppressor genes in pediatric patients (S9-S10).
All Supplementary Data from Host Wnt5a Potentiates Microenvironmental Regulation of Ovarian Cancer Metastasis
Authors: Asem Marwa , Young Allison M. , Oyama Carlysa , Claure De La Zerda Alejandro , Liu Yueying , Yang Jing , Hilliard Tyvette S. , Johnson Jeffery , Harper Elizabeth I. , Guldner Ian , Zhang Siyuan , Page-Mayberry Toni , Kaliney William J. , Stack M. Sharon
Published: April 2023

Supplementary Data including methods, legends, supplemental figures 1-5 and supplemental table 1-2. Supplemental Fig. 1: WNT5A mRNA and Wnt5a protein expression in OvCa cell lines, Supplemental Fig. 2: Silencing of WNT5A in LP9 human peritoneal mesothelial cells, Supplemental Fig. 3: WNT5A expression in murine tissues and longitudinal imaging of tumor burden in WNT5A-modified cohorts, Supplemental Fig. 4: Fgr inhibition abrogates Wnt5a pro-metastatic cellular phenotypes, Supplemental Fig. 5. Fgr and phospho-Fgr protein levels in human serous ovarian carcinoma. Supplemental Table. 1: Wnt5a shRNA lentivirus particles sequences, Supplemental Table. 2: Primers for qPCR
Supplementary tables & figures from A miRNA Expression Signature in Breast Tumor Tissue Is Associated with Risk of Distant Metastasis
Authors: Rohan Thomas E. , Wang Tao , Weinmann Sheila , Wang Yihong , Lin Juan , Ginsberg Mindy , Loudig Olivier
Published: April 2023

Supplementary tables showing: (1) Associations of clinical characteristics with risk of metastasis in Stage 1 and 2; (2) Multivariate analysis of clinical variables (3) Kegg pathway analysis (4) AUCs of the miRNA score for breast cancer subtypes (5) Summary of previous studies Supplementary figures showing (6) Sample distribution in sequencing libraries (7) Repeatability of qPCR
Supplementary Figure 2 from A miRNA Expression Signature in Breast Tumor Tissue Is Associated with Risk of Distant Metastasis
Authors: Rohan Thomas E. , Wang Tao , Weinmann Sheila , Wang Yihong , Lin Juan , Ginsberg Mindy , Loudig Olivier
Published: April 2023

Supplementary Figure 2 shows Repeatability of qPCR
Supplementary Materials and Methods from A Versatile ES Cell–Based Melanoma Mouse Modeling Platform
Authors: Bok Ilah , Vera Olga , Xu Xiaonan , Jasani Neel , Nakamura Koji , Reff Jordan , Nenci Arianna , Gonzalez Jose G. , Karreth Florian A.
Published: April 2023

This file contains a detailed description of the Materials and Methods used, as well as the Supplementary Figure Legends
Supplementary Data File S2 from Metastatic Conditioning of Myeloid Cells at a Subcutaneous Synthetic Niche Reflects Disease Progression and Predicts Therapeutic Outcomes
Authors: Oakes Robert S. , Bushnell Grace G. , Orbach Sophia M. , Kandagatla Pridvi , Zhang Yining , Morris Aaron H. , Hall Matthew S. , LaFaire Petrina , Decker Joseph T. , Hartfield Rachel M. , Brooks Michael D. , Wicha Max S. , Jeruss Jacqueline S. , Shea Lonnie D.
Published: April 2023

RT-qPCR data including: Raw Non-Normalized Cq, Reference Gene Normalized Î"Cq. Format similar to NCBI GEO template with ID_REF, Gene Symbol, Reference/Target use, Catalog Number, Assay Type, Gene Name, Alias, RefSeq Accession Number, GenBank mRNA Numbers, Target Species, Amplicon Length, and Platform.
Supplementary Data from Extracellular ATP and Purinergic P2Y2 Receptor Signaling Promote Liver Tumorigenesis in Mice by Exacerbating DNA Damage
Authors: Schulien Isabel , Hockenjos Birgit , van Marck Veerle , Ayata C. Korcan , Follo Marie , Thimme Robert , Hasselblatt Peter
Published: April 2023

Suppl. Tables
Legend Graphical Abstract from Extracellular ATP and Purinergic P2Y2 Receptor Signaling Promote Liver Tumorigenesis in Mice by Exacerbating DNA Damage
Authors: Schulien Isabel , Hockenjos Birgit , van Marck Veerle , Ayata C. Korcan , Follo Marie , Thimme Robert , Hasselblatt Peter
Published: April 2023

Legend of graphical abctract
Fig. S8 from Metastatic Conditioning of Myeloid Cells at a Subcutaneous Synthetic Niche Reflects Disease Progression and Predicts Therapeutic Outcomes
Authors: Oakes Robert S. , Bushnell Grace G. , Orbach Sophia M. , Kandagatla Pridvi , Zhang Yining , Morris Aaron H. , Hall Matthew S. , LaFaire Petrina , Decker Joseph T. , Hartfield Rachel M. , Brooks Michael D. , Wicha Max S. , Jeruss Jacqueline S. , Shea Lonnie D.
Published: April 2023

Experimental timeline, gene expression analysis, singular value decomposition, and bagged decision tree analysis and computational pipelines. Map of computational processes and the data outputs that are represented in the manuscript. For example, the calculation of the Euclidean distance from the principle components of the singular value decomposition (SVD) represented in Fig. 4b can be traced back through its processing steps to the total RNA isolation, quality control, and cDNA synthesis.
Fig. S7 from Metastatic Conditioning of Myeloid Cells at a Subcutaneous Synthetic Niche Reflects Disease Progression and Predicts Therapeutic Outcomes
Authors: Oakes Robert S. , Bushnell Grace G. , Orbach Sophia M. , Kandagatla Pridvi , Zhang Yining , Morris Aaron H. , Hall Matthew S. , LaFaire Petrina , Decker Joseph T. , Hartfield Rachel M. , Brooks Michael D. , Wicha Max S. , Jeruss Jacqueline S. , Shea Lonnie D.
Published: April 2023

Additional scRNA-seq plots of the gene panel analyzed in Fig. 3. (a) Heatmap of fold-change between scaffolds in tumor-bearing mice and tumor-free controls. Data is analogous to that presented in Fig. 3c and Fig. S7b violin plots. (b) Violin plots of single-cell gene expression from TFC and TB mice including B cells, dendritic cells (DCs), macrophages, monocytes, neutrophils, natural killer (NK) cells, and T cells. Each dot represents the gene expression (x-axis) of a single cell within a cell type and health state (TB or TFC, y-axis). Bmp15 is absent as it was undetectable by scRNA-seq.
Video S5 from A Tissue-Engineered 3D Microvessel Model Reveals the Dynamics of Mosaic Vessel Formation in Breast Cancer
Authors: Silvestri Vanesa L. , Henriet Elodie , Linville Raleigh M. , Wong Andrew D. , Searson Peter C. , Ewald Andrew J.
Published: April 2023

Mosaic vessel formation using a parallel tumor-vessel arrangement in a tissue-engineered microvessel model.
Fig. S5 from Metastatic Conditioning of Myeloid Cells at a Subcutaneous Synthetic Niche Reflects Disease Progression and Predicts Therapeutic Outcomes
Authors: Oakes Robert S. , Bushnell Grace G. , Orbach Sophia M. , Kandagatla Pridvi , Zhang Yining , Morris Aaron H. , Hall Matthew S. , LaFaire Petrina , Decker Joseph T. , Hartfield Rachel M. , Brooks Michael D. , Wicha Max S. , Jeruss Jacqueline S. , Shea Lonnie D.
Published: April 2023

Experimental designs and OpenArray output for select genes with high fold-change and predictive value. (a) Results from OpenArray for TB mice at Days 7 (n=3), 14 (n=8), and 21 (n=3) along with time-matched TFC mice (n=14). (b) Results from OpenArray selected for fold change TFC or TB. For panels b-c mice are indicated on x-axis and genes are indicated on y-axis with clustering done via Euclidian distance and average linkage. Genes indicated in red text on the y-axis were selected for the smaller 10-gene panel analysis is subsequent studies.
Fig. S3 from Metastatic Conditioning of Myeloid Cells at a Subcutaneous Synthetic Niche Reflects Disease Progression and Predicts Therapeutic Outcomes
Authors: Oakes Robert S. , Bushnell Grace G. , Orbach Sophia M. , Kandagatla Pridvi , Zhang Yining , Morris Aaron H. , Hall Matthew S. , LaFaire Petrina , Decker Joseph T. , Hartfield Rachel M. , Brooks Michael D. , Wicha Max S. , Jeruss Jacqueline S. , Shea Lonnie D.
Published: April 2023

Implant microenvironment exhibits good tissue ingrowth and facilitates surgical and core-needle biopsies to acquire RNA for transcriptomic or gene expression analysis. (a) A surgically-biopsied implant illustrating the intact, frozen condition prior to RNA isolation and RT-qPCR assessment. (b) A sample derived from a scaffold using a core needle biopsy (CNB, BardÂ® MissionÂ® Disposable Core Biopsy Instrument) which enables minimally invasive retrieval of samples, similar to clinical approaches for sampling suspicious tissue. In both samples tissue ingrowth into the microporous structure is evident but especially in the CNB as the cutting plane transected the inner core of the implant. Scaffolds as shown are in -80{degree sign}C frozen state. Diameter of the black background circle is 7.5 mm. (c) Comparing the RNA isolated from the full surgically biopsied scaffold compared to the CNB sample, there is a significant -1.812 log-transformed fold change, but sufficient material for numerous gene expression assessments (RT-qPCR, RNAseq, etc.) with the CNB samples containing an average of 4376 ng of total RNA. * indicates differences between surgically biopsied and CNB samples from an unpaired t-test (p<0.05, n=8).
Fig. S2 from Metastatic Conditioning of Myeloid Cells at a Subcutaneous Synthetic Niche Reflects Disease Progression and Predicts Therapeutic Outcomes
Authors: Oakes Robert S. , Bushnell Grace G. , Orbach Sophia M. , Kandagatla Pridvi , Zhang Yining , Morris Aaron H. , Hall Matthew S. , LaFaire Petrina , Decker Joseph T. , Hartfield Rachel M. , Brooks Michael D. , Wicha Max S. , Jeruss Jacqueline S. , Shea Lonnie D.
Published: April 2023

Scaffolds from (a) left and (b) right side of a mouse inoculated with parental E0771 which developed a high metastatic burden which metastases present in the (c) brain and (d) lungs. Metastatic lines Br.1 and Lu.1 were derived from the tumor cells from these brain and lung metastases, respectively. Serial inoculation via intracardiac injection and isolation of developed metastases (e) indicated a propensity for the lung derived metastases have an organotropic bias toward lung tissue. (f) Confirmation of fluorescent tumor cells in the scaffolds from a-b was verified by fluorescent microscopy of scaffold tissue sections. (g) In vivo imaging of Br.1 and Lu.1 line 11 days following intracardiac inoculation.
Combined Supplementary Data File from A Tissue-Engineered 3D Microvessel Model Reveals the Dynamics of Mosaic Vessel Formation in Breast Cancer
Authors: Silvestri Vanesa L. , Henriet Elodie , Linville Raleigh M. , Wong Andrew D. , Searson Peter C. , Ewald Andrew J.
Published: April 2023

Supplemental Methods Supplemental Figure 1. Steps used to calculate permeability coefficients in 3D using perfusable microvessel models. Supplemental Figure 2. Mosaic vessels in primary breast tumors. Supplemental Figure 3. Effect of different media conditions on tumor organoid growth within microvessel devices and in 3D organotypic culture. Supplemental Figure 4. Microvessel integrity and functionality in the presence of tumor organoids. Supplemental Figure 5. Tumor organoids in co-culture with endothelial cells do not express VE-Cadherin. Supplemental Figure 6. Endothelial cell proliferation and cell death within a 3D tumor-microvessel model in the presence of tumor organoids. Supplemental Table 1. Quantification of partially lined vessels in breast cancer tumors. Supplemental Video Legends
Supplementary Data from Long Noncoding RNA DRAIC Inhibits Prostate Cancer Progression by Interacting with IKK to Inhibit NF-κB Activation
Authors: Saha Shekhar , Kiran Manjari , Kuscu Canan , Chatrath Ajay , Wotton David , Mayo Marty W. , Dutta Anindya
Published: April 2023

Oligonucleotide Sequences
Supplementary Tables 1-7 from Netrin-1 and Its Receptor DCC Are Causally Implicated in Melanoma Progression
Authors: Boussouar Amina , Tortereau Antonin , Manceau Ambroise , Paradisi Andrea , Gadot Nicolas , Vial Jonathan , Neves David , Larue Lionel , Battistella Maxime , Leboeuf Christophe , Lebbé Celeste , Janin Anne , Mehlen Patrick
Published: April 2023

-SuppTable1: Tumor Cellularity in BRAF/DCC tumors vs BRAF tumors -SuppTable2: Detailed pathology of BRAF/DCC tumors -SuppTable3: Netrin-1 expression in melanoma -SuppTable4 Netrin-1 expression in melanoma with/without metastasis -SuppTable5: Tumor Cellularity in BRAF/tgnetrin-1 tumors vs BRAF tumors -SuppTable62: Detailed pathology of BRAF/tgnetrin-1 tumors -SuppTable7: characteristic of tumor cell lines used in the study
Supplementary Figures 1-5 from Netrin-1 and Its Receptor DCC Are Causally Implicated in Melanoma Progression
Authors: Boussouar Amina , Tortereau Antonin , Manceau Ambroise , Paradisi Andrea , Gadot Nicolas , Vial Jonathan , Neves David , Larue Lionel , Battistella Maxime , Leboeuf Christophe , Lebbé Celeste , Janin Anne , Mehlen Patrick
Published: April 2023

-SuppFig1: Ectopic expression of DCC slows tumor growth in a melanoma model. -SuppFig2: photographs of BRAF/DCC tumors -SuppFig3: netrin-1 expression in melanoma -SuppFig4: reduced cell death in BRAF/tgnetrin-1 tumors -SuppFig5: efficacy of the anti-netrin-1 mAb alone or in combination.
Figure S1 from Long Noncoding RNA DRAIC Inhibits Prostate Cancer Progression by Interacting with IKK to Inhibit NF-κB Activation
Authors: Saha Shekhar , Kiran Manjari , Kuscu Canan , Chatrath Ajay , Wotton David , Mayo Marty W. , Dutta Anindya
Published: April 2023

DRAIC depletion led to increased NF-κB activity
Supplemental Data from Dasatinib Is an Effective Treatment for Angioimmunoblastic T-cell Lymphoma
Authors: Nguyen Tran B. , Sakata-Yanagimoto Mamiko , Fujisawa Manabu , Nuhat Sharna Tanzima , Miyoshi Hiroaki , Nannya Yasuhito , Hashimoto Koichi , Fukumoto Kota , Bernard Olivier A. , Kiyoki Yusuke , Ishitsuka Kantaro , Momose Haruka , Sukegawa Shinichiro , Shinagawa Atsushi , Suyama Takuya , Sato Yuji , Nishikii Hidekazu , Obara Naoshi , Kusakabe Manabu , Yanagimoto Shintaro , Ogawa Seishi , Ohshima Koichi , Chiba Shigeru
Published: April 2023

Supplemental methods, results, figures, and tables.
Table 5 from Noncanonical IL6 Signaling-Mediated Activation of YAP Regulates Cell Migration and Invasion in Ovarian Clear Cell Cancer
Authors: Azar Walid J. , Christie Elizabeth L. , Mitchell Chris , Liu David S. , Au-Yeung George , Bowtell David D.L.
Published: April 2023

Significant differentially proteins
Table 4 from Noncanonical IL6 Signaling-Mediated Activation of YAP Regulates Cell Migration and Invasion in Ovarian Clear Cell Cancer
Authors: Azar Walid J. , Christie Elizabeth L. , Mitchell Chris , Liu David S. , Au-Yeung George , Bowtell David D.L.
Published: April 2023

RPPA Antibody List
Table 2 from Noncanonical IL6 Signaling-Mediated Activation of YAP Regulates Cell Migration and Invasion in Ovarian Clear Cell Cancer
Authors: Azar Walid J. , Christie Elizabeth L. , Mitchell Chris , Liu David S. , Au-Yeung George , Bowtell David D.L.
Published: April 2023

Western Blot Antibodies
Supplementary Data from Melphalan and Exportin 1 Inhibitors Exert Synergistic Antitumor Effects in Preclinical Models of Human Multiple Myeloma
Authors: Turner Joel G. , Cui Yan , Bauer Alexis A. , Dawson Jana L. , Gomez Juan A. , Kim Jongphil , Cubitt Christopher L. , Nishihori Taiga , Dalton William S. , Sullivan Daniel M.
Published: April 2023

Supplemental figures
Supplementary Data from Noncanonical IL6 Signaling-Mediated Activation of YAP Regulates Cell Migration and Invasion in Ovarian Clear Cell Cancer
Authors: Azar Walid J. , Christie Elizabeth L. , Mitchell Chris , Liu David S. , Au-Yeung George , Bowtell David D.L.
Published: April 2023

Supplementary Figures
Supplementary Table 2 from Targeting the E3 Ubiquitin Ligase PJA1 Enhances Tumor-Suppressing TGFβ Signaling
Authors: Chen Jian , Mitra Abhisek , Li Shulin , Song Shumei , Nguyen Bao-Ngoc , Chen Jiun-Sheng , Shin Ji-Hyun , Gough Nancy R. , Lin Paul , Obias Vincent , He Aiwu Ruth , Yao Zhixing , Malta Tathiane M. , Noushmehr Houtan , Latham Patricia S. , Su Xiaoping , Rashid Asif , Mishra Bibhuti , Wu Ray-Chang , Mishra Lopa
Published: April 2023

Upregulated or downregulated genes in samples expressing a high level of PJA1
Supplementary Data from Prophylactic In Vivo Hematopoietic Stem Cell Gene Therapy with an Immune Checkpoint Inhibitor Reverses Tumor Growth in Syngeneic Mouse Tumor Models
Authors: Li Chang , Course Meredith M. , McNeish Iain A. , Drescher Charles W. , Valdmanis Paul N. , Lieber André
Published: April 2023

Supplementary Fig. S1. Rat Neu is expressed in MMC cells. Supplementary Fig. S2. Gating strategy used for immunophenotyping. Supplementary Fig. S3. Immunophenotyping of GFP+ cells in the bone marrow and spleen (MMC model). Supplementary Fig.S4. GFP expression in tumor-infiltrating leukocytes after in vivo HSPC transduction (TC-1 model). Supplementary Fig. S5. Validation of miR-423-5p expression by Northern blot. Supplementary Fig.S6. miRNA423-5p expression in humans. Supplementary Fig. S7. Autoimmune reactions in animals sacrificed at day 17 at the peak of aPDL1-gamma1, before reversal of tumor growth. Supplementary Fig. S8. Effect of anti-PDL1 monoclonal antibody therapy in neu-transgenic mice with MMC tumors. Supplementary Fig. S9. Effect of in vivo HSC transduction on hemopoiesis. Suppl. Methods
Video from Inhibition of Haspin Kinase Promotes Cell-Intrinsic and Extrinsic Antitumor Activity
Authors: Melms Johannes C. , Vallabhaneni Sreeram , Mills Caitlin E. , Yapp Clarence , Chen Jia-Yun , Morelli Eugenio , Waszyk Patricia , Kumar Sushil , Deming Derrick , Moret Nienke , Rodriguez Steven , Subramanian Kartik , Rogava Meri , Cartwright Adam N.R. , Luoma Adrienne , Mei Shaolin , Brinker Titus J. , Miller David M. , Spektor Alexander , Schadendorf Dirk , Riggi Nicolo , Wucherpfennig Kai W. , Sorger Peter K. , Izar Benjamin
Published: April 2023

Video Control
Wound assay NextA from HDAC6 Plays a Noncanonical Role in the Regulation of Antitumor Immune Responses, Dissemination, and Invasiveness of Breast Cancer
Authors: Banik Debarati , Noonepalle Satish , Hadley Melissa , Palmer Erica , Gracia-Hernandez Maria , Zevallos-Delgado Christian , Manhas Namratta , Simonyan Hayk , Young Colin N. , Popratiloff Anastas , Chiappinelli Katherine B. , Fernandes Rohan , Sotomayor Eduardo M. , Villagra Alejandro
Published: April 2023

Wound assay NextA
Supplementary Data from Inhibition of Haspin Kinase Promotes Cell-Intrinsic and Extrinsic Antitumor Activity
Authors: Melms Johannes C. , Vallabhaneni Sreeram , Mills Caitlin E. , Yapp Clarence , Chen Jia-Yun , Morelli Eugenio , Waszyk Patricia , Kumar Sushil , Deming Derrick , Moret Nienke , Rodriguez Steven , Subramanian Kartik , Rogava Meri , Cartwright Adam N.R. , Luoma Adrienne , Mei Shaolin , Brinker Titus J. , Miller David M. , Spektor Alexander , Schadendorf Dirk , Riggi Nicolo , Wucherpfennig Kai W. , Sorger Peter K. , Izar Benjamin
Published: April 2023

Methods and Suppl. Figure Legends
Table S3 from Thermal Proteome Profiling Identifies Oxidative-Dependent Inhibition of the Transcription of Major Oncogenes as a New Therapeutic Mechanism for Select Anticancer Compounds
Authors: Peuget Sylvain , Zhu Jiawei , Sanz Gema , Singh Madhurendra , Gaetani Massimiliano , Chen Xinsong , Shi Yao , Saei Amir Ata , Visnes Torkild , Lindström Mikael S. , Rihani Ali , Moyano-Galceran Lidia , Carlson Joseph W. , Hjerpe Elisabet , Joneborg Ulrika , Lehti Kaisa , Hartman Johan , Helleday Thomas , Zubarev Roman , Selivanova Galina
Published: April 2023

Complete list of TPP hits upon RITA, AF and Onc-1.
Fig Supp 4 from HDAC6 Plays a Noncanonical Role in the Regulation of Antitumor Immune Responses, Dissemination, and Invasiveness of Breast Cancer
Authors: Banik Debarati , Noonepalle Satish , Hadley Melissa , Palmer Erica , Gracia-Hernandez Maria , Zevallos-Delgado Christian , Manhas Namratta , Simonyan Hayk , Young Colin N. , Popratiloff Anastas , Chiappinelli Katherine B. , Fernandes Rohan , Sotomayor Eduardo M. , Villagra Alejandro
Published: April 2023

Fig Supp 4
Supplementary Figures and Legends from Thermal Proteome Profiling Identifies Oxidative-Dependent Inhibition of the Transcription of Major Oncogenes as a New Therapeutic Mechanism for Select Anticancer Compounds
Authors: Peuget Sylvain , Zhu Jiawei , Sanz Gema , Singh Madhurendra , Gaetani Massimiliano , Chen Xinsong , Shi Yao , Saei Amir Ata , Visnes Torkild , Lindström Mikael S. , Rihani Ali , Moyano-Galceran Lidia , Carlson Joseph W. , Hjerpe Elisabet , Joneborg Ulrika , Lehti Kaisa , Hartman Johan , Helleday Thomas , Zubarev Roman , Selivanova Galina
Published: April 2023

Supplementary Figures and Legends
Supplementary Tables and Figures from Pyrvinium Pamoate Induces Death of Triple-Negative Breast Cancer Stem–Like Cells and Reduces Metastases through Effects on Lipid Anabolism
Authors: Dattilo Rosanna , Mottini Carla , Camera Emanuela , Lamolinara Alessia , Auslander Noam , Doglioni Ginevra , Muscolini Michela , Tang Wei , Planque Melanie , Ercolani Cristiana , Buglioni Simonetta , Manni Isabella , Trisciuoglio Daniela , Boe Alessandra , Grande Sveva , Luciani Anna Maria , Iezzi Manuela , Ciliberto Gennaro , Ambs Stefan , De Maria Ruggero , Fendt Sarah-Maria , Ruppin Eytan , Cardone Luca
Published: April 2023

The file contains 2 tables relative to genomic studies and 14 supplementary Figures relative to additional metabolomics and cellular studies, also related with characterization of the CSC models (Fig. S1-S2)
Supplementary Figures from An Integrative Gene Expression and Mathematical Flux Balance Analysis Identifies Targetable Redox Vulnerabilities in Melanoma Cells
Authors: Paudel B. Bishal , Lewis Joshua E. , Hardeman Keisha N. , Hayford Corey E. , Robbins Charles J. , Stauffer Philip E. , Codreanu Simona G. , Sherrod Stacy D. , McLean John A. , Kemp Melissa L. , Quaranta Vito
Published: April 2023

Supplementary Figures
Supplementary Figures from Cross-talk between SOX2 and TGFβ Signaling Regulates EGFR–TKI Tolerance and Lung Cancer Dissemination
Authors: Kuo Ming-Han , Lee An-Chun , Hsiao Shih-Hsin , Lin Sey-En , Chiu Yu-Fan , Yang Li-Hao , Yu Chia-Cherng , Chiou Shih-Hwa , Huang Hsien-Neng , Ko Jen-Chung , Chou Yu-Ting
Published: April 2023

Supplementary Figure S1-S23
Supplementary Table from Loss of a Negative Feedback Loop between IRF8 and AR Promotes Prostate Cancer Growth and Enzalutamide Resistance
Authors: Wu Hongxi , You Linjun , Li Yan , Zhao Zhili , Shi Guangjiang , Chen Zhen , Wang Zhuo , Li Xianjing , Du Shijia , Ye Wanli , Gao Xiaofang , Duan Jingjing , Cheng Yan , Tao Weiyan , Bian Jinsong , Zhou Jin-Rong , Zhu Qingyi , Yang Yong
Published: April 2023

IRF8 was not frequently mutated and methylated in clinical PCa tissues and cells.
Supplementary Table S2 from NOX4 Inhibition Potentiates Immunotherapy by Overcoming Cancer-Associated Fibroblast-Mediated CD8 T-cell Exclusion from Tumors
Authors: Ford Kirsty , Hanley Christopher J. , Mellone Massimiliano , Szyndralewiez Cedric , Heitz Freddy , Wiesel Philippe , Wood Oliver , Machado Maria , Lopez Maria-Antoinette , Ganesan Anusha-Preethi , Wang Chuan , Chakravarthy Ankur , Fenton Tim R. , King Emma V. , Vijayanand Pandurangan , Ottensmeier Christian H. , Al-Shamkhani Aymen , Savelyeva Natalia , Thomas Gareth J.
Published: April 2023

Supplementary Table S2
Supplementary Figure S5 from NOX4 Inhibition Potentiates Immunotherapy by Overcoming Cancer-Associated Fibroblast-Mediated CD8 T-cell Exclusion from Tumors
Authors: Ford Kirsty , Hanley Christopher J. , Mellone Massimiliano , Szyndralewiez Cedric , Heitz Freddy , Wiesel Philippe , Wood Oliver , Machado Maria , Lopez Maria-Antoinette , Ganesan Anusha-Preethi , Wang Chuan , Chakravarthy Ankur , Fenton Tim R. , King Emma V. , Vijayanand Pandurangan , Ottensmeier Christian H. , Al-Shamkhani Aymen , Savelyeva Natalia , Thomas Gareth J.
Published: April 2023

Supplementary Figure S5
Supplementary Figure S4 from NOX4 Inhibition Potentiates Immunotherapy by Overcoming Cancer-Associated Fibroblast-Mediated CD8 T-cell Exclusion from Tumors
Authors: Ford Kirsty , Hanley Christopher J. , Mellone Massimiliano , Szyndralewiez Cedric , Heitz Freddy , Wiesel Philippe , Wood Oliver , Machado Maria , Lopez Maria-Antoinette , Ganesan Anusha-Preethi , Wang Chuan , Chakravarthy Ankur , Fenton Tim R. , King Emma V. , Vijayanand Pandurangan , Ottensmeier Christian H. , Al-Shamkhani Aymen , Savelyeva Natalia , Thomas Gareth J.
Published: April 2023

Supplementary Figure S4
Table S2 from Murine Oviductal High-Grade Serous Carcinomas Mirror the Genomic Alterations, Gene Expression Profiles, and Immune Microenvironment of Their Human Counterparts
Authors: McCool Kevin W. , Freeman Zachary T. , Zhai Yali , Wu Rong , Hu Kevin , Liu Chia-Jen , Tomlins Scott A. , Fearon Eric R. , Magnuson Brian , Kuick Rork , Cho Kathleen R.
Published: April 2023

Supplementary Table S2 shows intersection of gene homologs selected as altered between mouse BPRN tumors vs. mouse normal oviduct (OD) and human HGSCs (Serous) vs. human normal fallopian tube.
Supplementary Figure S6-S10 from Genome-Wide CRISPR-Cas9 Screen Reveals Selective Vulnerability of ATRX-Mutant Cancers to WEE1 Inhibition
Authors: Liang Junbo , Zhao Hong , Diplas Bill H. , Liu Song , Liu Jianmei , Wang Dingding , Lu Yan , Zhu Qing , Wu Jiayu , Wang Wenjia , Yan Hai , Zeng Yi-Xin , Wang Xiaoyue , Jiao Yuchen
Published: April 2023

Treatment of AZD1775 activated CDK pathway, which leads to S-phase arrest and DNA damage, and finally apoptosis of cells.
Supplementary Figure S11. from Genome-Wide CRISPR-Cas9 Screen Reveals Selective Vulnerability of ATRX-Mutant Cancers to WEE1 Inhibition
Authors: Liang Junbo , Zhao Hong , Diplas Bill H. , Liu Song , Liu Jianmei , Wang Dingding , Lu Yan , Zhu Qing , Wu Jiayu , Wang Wenjia , Yan Hai , Zeng Yi-Xin , Wang Xiaoyue , Jiao Yuchen
Published: April 2023

The growth rates of ATRX mutant and wildtype glioma cells treated by AZD1775.
Supplementary Note and Supplementary Figs. 1-8 from Modeling Resistance and Recurrence Patterns of Combined Targeted–Chemoradiotherapy Predicts Benefit of Shorter Induction Period
Authors: McClatchy David M. , Willers Henning , Hata Aaron N. , Piotrowska Zofia , Sequist Lecia V. , Paganetti Harald , Grassberger Clemens
Published: April 2023

SN: Implementation of Deaths from Comorbidities and Failure Rates, Hazard Ratio Calculation & Kaplan Meier Analysis, CRT Model Parameter Calibration, TKI Model Parameter Calibration, Model Validation Against Clinical Trials, Multimodal Target-Chemoradiotherapy Treatment Modeling, Statistical Power Estimation, Robustness of Results to Pre-existing Resistance and Persistence; SF1: Full Parameter Space Analysis of Model Calibration; SF2: Model Simulated PFS for WT and EGFR+ Populations Receiving Concurrent Chemoradiotherapy; SF3: Histograms of Model Parameters for Simulated Population; SF4: Model Predicted Local versus Distant Recurrence Patterns Receiving Sequential Versus Concurrent Chemotherapy; SF5: Model Predictions of Full Multimodal Treatment Design Space; SF6: Table of Outcomes for Complete Multimodal Treatment Design Parameter Space; SF7: Estimated Power of Varying Induction Length on PFS as a Function of Sample Size; SF8: Effect of Pre-existing Resistance and Persistence on Benefit of Shorter Induction
MS data from Proteomic Profiling of the ECM of Xenograft Breast Cancer Metastases in Different Organs Reveals Distinct Metastatic Niches
Authors: Hebert Jess D. , Myers Samuel A. , Naba Alexandra , Abbruzzese Genevieve , Lamar John M. , Carr Steven A. , Hynes Richard O.
Published: April 2023

Original mass spectrometry data used for analysis
Figure S3 from Cancer Cell–Derived Matrisome Proteins Promote Metastasis in Pancreatic Ductal Adenocarcinoma
Authors: Tian Chenxi , Öhlund Daniel , Rickelt Steffen , Lidström Tommy , Huang Ying , Hao Liangliang , Zhao Renee T. , Franklin Oskar , Bhatia Sangeeta N. , Tuveson David A. , Hynes Richard O.
Published: April 2023

Xenograft tumors knocked down and overexpressing AGRN, SERPINB5, and CSTB show expected protein expression changes.
Supplementary Data from Postdiagnostic Fruit and Vegetable Consumption and Breast Cancer Survival: Prospective Analyses in the Nurses' Health Studies
Authors: Farvid Maryam S. , Holmes Michelle D. , Chen Wendy Y. , Rosner Bernard A. , Tamimi Rulla M. , Willett Walter C. , Eliassen A. Heather
Published: April 2023

Supplemental Figures 1 and 2
Supplementary Information from Mevalonate Pathway Provides Ubiquinone to Maintain Pyrimidine Synthesis and Survival in p53-Deficient Cancer Cells Exposed to Metabolic Stress
Authors: Kaymak Irem , Maier Carina R. , Schmitz Werner , Campbell Andrew D. , Dankworth Beatrice , Ade Carsten P. , Walz Susanne , Paauwe Madelon , Kalogirou Charis , Marouf Hecham , Rosenfeldt Mathias T. , Gay David M. , McGregor Grace H. , Sansom Owen J. , Schulze Almut
Published: April 2023

This file includes extended experimental procedures including 1. Analysis of RNA-sequencing and Cancer Genome Atlas data 2. Generation of shRNA Cell Lines, 3. Automated cell counting, 4. Liquid chromatography and mass spectrometry, 5. BrdU staining of murine tissue; supplementary references and supplementary figure legends
Supplementary Figures 1-7 from Mevalonate Pathway Provides Ubiquinone to Maintain Pyrimidine Synthesis and Survival in p53-Deficient Cancer Cells Exposed to Metabolic Stress
Authors: Kaymak Irem , Maier Carina R. , Schmitz Werner , Campbell Andrew D. , Dankworth Beatrice , Ade Carsten P. , Walz Susanne , Paauwe Madelon , Kalogirou Charis , Marouf Hecham , Rosenfeldt Mathias T. , Gay David M. , McGregor Grace H. , Sansom Owen J. , Schulze Almut
Published: April 2023

(1) Figure S1 shows Metabolic flux analysis of p53+/+ and p53-/- cells in monolayer and spheroid culture. (2) Figure S2 shows Mechanism of induction of SREBP2 target genes in p53-deficient spheroid cultures. (3) Figure S3 shows Induction of cell cycle arrest and apoptosis by simvastatin in spheroid cultures. (4) Figure S4 shows Blockade of cholesterol and ubiquinone synthesis by statins. (5) Figure S5 shows Effect of simvastatin on TCA cycle flux and failure of ubiquinone to restore viability in monolayer cells. (6) Figure S6 shows Inhibition of apoptosis in p53-deficient spheroid cultures by uridine. (7) Figure S7 shows Genotyping of cells used for organoid cultures and lack of effect of leflunomide on intestinal hyperproliferation.
Supplementary Data from Postdiagnostic Fruit and Vegetable Consumption and Breast Cancer Survival: Prospective Analyses in the Nurses' Health Studies
Authors: Farvid Maryam S. , Holmes Michelle D. , Chen Wendy Y. , Rosner Bernard A. , Tamimi Rulla M. , Willett Walter C. , Eliassen A. Heather
Published: April 2023

Supplemental Tables S1-S7
Supplementary Data from The PET-Tracer 89Zr-Df-IAB22M2C Enables Monitoring of Intratumoral CD8 T-cell Infiltrates in Tumor-Bearing Humanized Mice after T-cell Bispecific Antibody Treatment
Authors: Griessinger Christoph M. , Olafsen Tove , Mascioni Alessandro , Jiang Ziyue Karen , Zamilpa Charles , Jia Fang , Torgov Michael , Romero Jason M. , Marchioni Filippo , Satpayev Daulet , Lee Chenyu , Zhang Green , Nayak Tapan K. , Pincha Mudita , Amann Maria , Mohan Preethi L.B. , Richard Marine , Nicolini Valeria G. , Sam Johannes , Claus Christina , Ferrara Claudia , Brünker Peter , Bacac Marina , Umana Pablo , Rüttinger Dominik , Wilson Ian A. , Gudas Jean , Klein Christian , Tessier Jean J.L.
Published: April 2023

Supplementary Material and Methods
Figure S5 from The PET-Tracer 89Zr-Df-IAB22M2C Enables Monitoring of Intratumoral CD8 T-cell Infiltrates in Tumor-Bearing Humanized Mice after T-cell Bispecific Antibody Treatment
Authors: Griessinger Christoph M. , Olafsen Tove , Mascioni Alessandro , Jiang Ziyue Karen , Zamilpa Charles , Jia Fang , Torgov Michael , Romero Jason M. , Marchioni Filippo , Satpayev Daulet , Lee Chenyu , Zhang Green , Nayak Tapan K. , Pincha Mudita , Amann Maria , Mohan Preethi L.B. , Richard Marine , Nicolini Valeria G. , Sam Johannes , Claus Christina , Ferrara Claudia , Brünker Peter , Bacac Marina , Umana Pablo , Rüttinger Dominik , Wilson Ian A. , Gudas Jean , Klein Christian , Tessier Jean J.L.
Published: April 2023

Figure S5 shows PET scans of each experimental animal of the FOLR1-TCB study.
Figure S4 from The PET-Tracer 89Zr-Df-IAB22M2C Enables Monitoring of Intratumoral CD8 T-cell Infiltrates in Tumor-Bearing Humanized Mice after T-cell Bispecific Antibody Treatment
Authors: Griessinger Christoph M. , Olafsen Tove , Mascioni Alessandro , Jiang Ziyue Karen , Zamilpa Charles , Jia Fang , Torgov Michael , Romero Jason M. , Marchioni Filippo , Satpayev Daulet , Lee Chenyu , Zhang Green , Nayak Tapan K. , Pincha Mudita , Amann Maria , Mohan Preethi L.B. , Richard Marine , Nicolini Valeria G. , Sam Johannes , Claus Christina , Ferrara Claudia , Brünker Peter , Bacac Marina , Umana Pablo , Rüttinger Dominik , Wilson Ian A. , Gudas Jean , Klein Christian , Tessier Jean J.L.
Published: April 2023

Figure S4 shows the IHC analysis for tumor density, necrosis and blood vessels.
Figure S2 from The PET-Tracer 89Zr-Df-IAB22M2C Enables Monitoring of Intratumoral CD8 T-cell Infiltrates in Tumor-Bearing Humanized Mice after T-cell Bispecific Antibody Treatment
Authors: Griessinger Christoph M. , Olafsen Tove , Mascioni Alessandro , Jiang Ziyue Karen , Zamilpa Charles , Jia Fang , Torgov Michael , Romero Jason M. , Marchioni Filippo , Satpayev Daulet , Lee Chenyu , Zhang Green , Nayak Tapan K. , Pincha Mudita , Amann Maria , Mohan Preethi L.B. , Richard Marine , Nicolini Valeria G. , Sam Johannes , Claus Christina , Ferrara Claudia , Brünker Peter , Bacac Marina , Umana Pablo , Rüttinger Dominik , Wilson Ian A. , Gudas Jean , Klein Christian , Tessier Jean J.L.
Published: April 2023

Figure S2 shows the PET scans of each experimental mouse of the CEA-4-1BBL/CEA-TCB study.
Figure S1 from The PET-Tracer 89Zr-Df-IAB22M2C Enables Monitoring of Intratumoral CD8 T-cell Infiltrates in Tumor-Bearing Humanized Mice after T-cell Bispecific Antibody Treatment
Authors: Griessinger Christoph M. , Olafsen Tove , Mascioni Alessandro , Jiang Ziyue Karen , Zamilpa Charles , Jia Fang , Torgov Michael , Romero Jason M. , Marchioni Filippo , Satpayev Daulet , Lee Chenyu , Zhang Green , Nayak Tapan K. , Pincha Mudita , Amann Maria , Mohan Preethi L.B. , Richard Marine , Nicolini Valeria G. , Sam Johannes , Claus Christina , Ferrara Claudia , Brünker Peter , Bacac Marina , Umana Pablo , Rüttinger Dominik , Wilson Ian A. , Gudas Jean , Klein Christian , Tessier Jean J.L.
Published: April 2023

Figure S1 shows the in vitro tumor cell lysis mediated by CEA-TCB and CEA-4-1BBL) or FOLR1-TCB ni presence of the CD8 Mb IAB22M2C.
Supplementary Table1 from Differential Contributions of Pre- and Post-EMT Tumor Cells in Breast Cancer Metastasis
Authors: Lourenco Ana Rita , Ban Yi , Crowley Michael J. , Lee Sharrell B. , Ramchandani Divya , Du Wei , Elemento Olivier , George Jason T. , Jolly Mohit Kumar , Levine Herbert , Sheng Jianting , Wong Stephen T. , Altorki Nasser K. , Gao Dingcheng
Published: April 2023

The list of differentially expressed genes in the GFP+ and RFP+ Tri-PyMT cells.
Supplementary Figure7 from Differential Contributions of Pre- and Post-EMT Tumor Cells in Breast Cancer Metastasis
Authors: Lourenco Ana Rita , Ban Yi , Crowley Michael J. , Lee Sharrell B. , Ramchandani Divya , Du Wei , Elemento Olivier , George Jason T. , Jolly Mohit Kumar , Levine Herbert , Sheng Jianting , Wong Stephen T. , Altorki Nasser K. , Gao Dingcheng
Published: April 2023

Tri-PyMT cells show an overall hybrid EMT status.
Supplementary Figure6 from Differential Contributions of Pre- and Post-EMT Tumor Cells in Breast Cancer Metastasis
Authors: Lourenco Ana Rita , Ban Yi , Crowley Michael J. , Lee Sharrell B. , Ramchandani Divya , Du Wei , Elemento Olivier , George Jason T. , Jolly Mohit Kumar , Levine Herbert , Sheng Jianting , Wong Stephen T. , Altorki Nasser K. , Gao Dingcheng
Published: April 2023

EMT events in the primary tumor and lung metastasis of orthotopic Tri-Vim-PyMT breast tumors.
Supplementary Figure2 from Differential Contributions of Pre- and Post-EMT Tumor Cells in Breast Cancer Metastasis
Authors: Lourenco Ana Rita , Ban Yi , Crowley Michael J. , Lee Sharrell B. , Ramchandani Divya , Du Wei , Elemento Olivier , George Jason T. , Jolly Mohit Kumar , Levine Herbert , Sheng Jianting , Wong Stephen T. , Altorki Nasser K. , Gao Dingcheng
Published: April 2023

Quantification of post-EMT events in tumor progression.
Table S3 from ARRB1-Promoted NOTCH1 Degradation Is Suppressed by OncomiR miR-223 in T-cell Acute Lymphoblastic Leukemia
Authors: Shu Yi , Wang Yi , Lv Wen-Qiong , Peng Dan-Yi , Li Juan , Zhang Hang , Jiang Guang-Jie , Yang Bi-Jie , Liu Shan , Zhang Jia , Chen Yan-Hua , Tang Shi , Wan Ke-Xing , Yuan Jun-Tao , Guo Wei , Fu Guo , Qi Xin-Kun , Liu Zhi-Dai , Liu Hai-Yan , Yang Chao , Zhang Ling-Huan , Liu Fang-Jie , Yu Jie , Zhang Peng-Hui , Qu Bin , Zhao Hui , He Tong-Chuan , Zou Lin
Published: April 2023

Table S3, Supplementary Table 3. RNA-Seq of T-ALL Clinical Samples
figure legends and tables from ERK-Mediated Loss of miR-199a-3p and Induction of EGR1 Act as a “Toggle Switch” of GBM Cell Dedifferentiation into NANOG- and OCT4-Positive Cells
Authors: Almairac Fabien , Turchi Laurent , Sakakini Nathalie , Debruyne David Nicolas , Elkeurti Sarah , Gjernes Elisabet , Polo Beatrice , Bianchini Laurence , Fontaine Denys , Paquis Philippe , Chneiweiss Herve , Junier Marie-Pierre , Verrando Patrick , Burel-Vandenbos Fanny , Virolle Thierry
Published: April 2023

this text corresponds to the legends of supplemental tables 1 to 3 and supplemental figures 1 to 14
Supplemental Data from ARRB1-Promoted NOTCH1 Degradation Is Suppressed by OncomiR miR-223 in T-cell Acute Lymphoblastic Leukemia
Authors: Shu Yi , Wang Yi , Lv Wen-Qiong , Peng Dan-Yi , Li Juan , Zhang Hang , Jiang Guang-Jie , Yang Bi-Jie , Liu Shan , Zhang Jia , Chen Yan-Hua , Tang Shi , Wan Ke-Xing , Yuan Jun-Tao , Guo Wei , Fu Guo , Qi Xin-Kun , Liu Zhi-Dai , Liu Hai-Yan , Yang Chao , Zhang Ling-Huan , Liu Fang-Jie , Yu Jie , Zhang Peng-Hui , Qu Bin , Zhao Hui , He Tong-Chuan , Zou Lin
Published: April 2023

Supplemental methods. Supplementary Figure 1. ARRB1 inhibits the cell proliferation and tumor progression of human T-ALL cells. Supplementary Figure 2. RNA-Seq expression profile of T-ALL patients and the aberrant expression of ARRB1in T-ALL samples and cell lines. Supplementary Figure 3. ARRB1 promotes the degradation and ubiquitination of ICN1 in Molt4 cells. Supplementary Figure 4. The co-immunoprecipitation (Co-IP) results of ARRB1 interaction with E3 ubiquitin ligases of Notch1 in T-ALL cells. Supplementary Figure 5. DTX1 is essential for the inhibitory effect of ARRB1 in T-ALL cells. Supplementary Figure 6. ARRB1-derived miR-223 sponge BUTR effectively induces apoptosis in CCRF-CEM T-ALL cells.
Supplementary Data from The Immunosuppressive Microenvironment in BRCA1-IRIS–Overexpressing TNBC Tumors Is Induced by Bidirectional Interaction with Tumor-Associated Macrophages
Authors: Sami Eman , Paul Bibbin T. , Koziol James A. , ElShamy Wael M.
Published: April 2023

IRISOE in aggressive TNBC tumors correlates with worse outcomes.
Supplementary Data from ERK-Mediated Loss of miR-199a-3p and Induction of EGR1 Act as a “Toggle Switch” of GBM Cell Dedifferentiation into NANOG- and OCT4-Positive Cells
Authors: Almairac Fabien , Turchi Laurent , Sakakini Nathalie , Debruyne David Nicolas , Elkeurti Sarah , Gjernes Elisabet , Polo Beatrice , Bianchini Laurence , Fontaine Denys , Paquis Philippe , Chneiweiss Herve , Junier Marie-Pierre , Verrando Patrick , Burel-Vandenbos Fanny , Virolle Thierry
Published: April 2023

The supplemental figure 12 describes EGR1 expression during cell dedifferentiation. The supplemental figure 13 descries miR-199a-3p conserved sites in EGR1 3'UTR. The supplemental figure 14 describes the effects of shEGR1 and synthetic miR-199a-3p on EGR1 and miR-199a-3p expression and the consequence on NANOG expression.
Supplementary Data from ERK-Mediated Loss of miR-199a-3p and Induction of EGR1 Act as a “Toggle Switch” of GBM Cell Dedifferentiation into NANOG- and OCT4-Positive Cells
Authors: Almairac Fabien , Turchi Laurent , Sakakini Nathalie , Debruyne David Nicolas , Elkeurti Sarah , Gjernes Elisabet , Polo Beatrice , Bianchini Laurence , Fontaine Denys , Paquis Philippe , Chneiweiss Herve , Junier Marie-Pierre , Verrando Patrick , Burel-Vandenbos Fanny , Virolle Thierry
Published: April 2023

This figure describes EGR1, OLIG2, KI67 and GFAP expression in mitotic and not-mitotic GBM territories.
Supplementary Data 2 from Gain-of-Function Mutant p53 R273H Interacts with Replicating DNA and PARP1 in Breast Cancer
Authors: Xiao Gu , Lundine Devon , Annor George K. , Canar Jorge , Ellison Viola , Polotskaia Alla , Donabedian Patrick L. , Reiner Thomas , Khramtsova Galina F. , Olopade Olufunmilayo I. , Mazo Alexander , Bargonetti Jill
Published: April 2023

S2 Mutant p53 R273H and Flag-R248W associate with replicating DNA.
Supplementary Materials from Suppression of ABCE1-Mediated mRNA Translation Limits N-MYC–Driven Cancer Progression
Authors: Gao Jixuan , Jung MoonSun , Mayoh Chelsea , Venkat Pooja , Hannan Katherine M. , Fletcher Jamie I. , Kamili Alvin , Gifford Andrew J. , Kusnadi Eric P. , Pearson Richard B. , Hannan Ross D. , Haber Michelle , Norris Murray D. , Somers Klaartje , Henderson Michelle J.
Published: April 2023

Supplementary material includes the following: Supplementary Methods: apoptosis assay. Supplementary Table S1: univariate analysis of various risk factors, high ABCE1 or ABCF1 expression on neuroblastoma patient event-free survival. Supplementary Table S2: multivariate analysis of various risk factors, high ABCE1 or ABCF1 expression on neuroblastoma patient event-free survival. Supplementary Figure S1: ChIP-seq tracks showing that the extent of N-MYC binding to the promoter regions of ABCE1 and ABCF1. Supplementary Figure S2: Western blots showing results of all independent experiments of the puromycin incorporation assay. Supplementary Figure S3: Proportion of apoptotic neuroblastoma cells following ABCE1 suppression. Supplementary Figure S4: Inducible ABCE1 suppression reduces growth and migration of MYCN-amplified neuroblastoma cells. Supplementary Figure S5: Analysis of tumor growth in doxycycline-inducible models. Supplementary Figure S6: High ABCE1 expression is associated with elevated N-MYC or c-MYC expression.
Supplementary Figures from Epigenetic SMAD3 Repression in Tumor-Associated Fibroblasts Impairs Fibrosis and Response to the Antifibrotic Drug Nintedanib in Lung Squamous Cell Carcinoma
Authors: Ikemori Rafael , Gabasa Marta , Duch Paula , Vizoso Miguel , Bragado Paloma , Arshakyan Marselina , Luis Iuliana-Cristiana , Marín Albert , Morán Sebastian , Castro Manuel , Fuster Gemma , Gea-Sorli Sabrina , Jauset Toni , Soucek Laura , Montuenga Luis M. , Esteller Manel , Monsó Eduard , Peinado Victor Ivo , Gascon Pere , Fillat Cristina , Hilberg Frank , Reguart Noemí , Alcaraz Jordi
Published: April 2023

Supplementary Figures S1-S7
Supplemental Tables from Long Noncoding RNA TINCR-Mediated Regulation of Acetyl-CoA Metabolism Promotes Nasopharyngeal Carcinoma Progression and Chemoresistance
Authors: Zheng Zi-Qi , Li Zhi-Xuan , Guan Jia-Li , Liu Xu , Li Jun-Yan , Chen Yue , Lin Li , Kou Jia , Lv Jia-Wei , Zhang Lu-Lu , Zhou Guan-Qun , Liu Rui-Qi , Chen FoPing , He Xiao-Jun , Li Ying-Qin , Li Feng , Xu Si-Si , Ma Jun , Liu Na , Sun Ying
Published: April 2023

Supplemental Table S1. qRT-PCR primers used in this study Supplemental Table S2. siRNA sequence used in this study Supplemental Table S3. Primers used for shRNA plasmid construction Supplemental Table S4. Primers used for truncation variants plasmid construction Supplemental Table S5. Primers sequence used for ChIP-PCR assay Supplemental Table S6. Probe sequence of TINCR in situ hybridization (ISH) Supplemental Table S7. Clinical characteristics of nasopharyngeal carcinoma patients according to the high and low expression of TINCR Supplemental Table S8. Univariate and multivariable Cox regression analysis of TINCR expression level and survival Supplemental Table S9. The top10 proteins found by mass spectrometry analysis in the antisense-TINCR group (negative control). Supplemental Table S10. The top10 proteins found by mass spectrometry analysis in the TINCR group. The bold portion shows the proteins that overlap antisense-TINCR
Supplementary Data from Rb and p53 Execute Distinct Roles in the Development of Pancreatic Neuroendocrine Tumors
Authors: Yamauchi Yuki , Kodama Yuzo , Shiokawa Masahiro , Kakiuchi Nobuyuki , Marui Saiko , Kuwada Takeshi , Sogabe Yuko , Tomono Teruko , Mima Atsushi , Morita Toshihiro , Matsumori Tomoaki , Ueda Tatsuki , Tsuda Motoyuki , Nishikawa Yoshihiro , Kuriyama Katsutoshi , Sakuma Yojiro , Ota Yuji , Maruno Takahisa , Uza Norimitsu , Masuda Atsuhiro , Tatsuoka Hisato , Yabe Daisuke , Minamiguchi Sachiko , Masui Toshihiko , Inagaki Nobuya , Uemoto Shinji , Chiba Tsutomu , Seno Hiroshi
Published: April 2023

Supplemental Table 1. PanNETs incidence per genotype. Figure S1: Representative images of LacZ staining in the pancreas in Pdx1-Cre;Rosa26R mice; S2: Experimental strategy for generation of Pdx1-Cre;Trp53R172H mice. S3: H&E, immunohistochemical and immunofluorescence staining of islet cells in Pdx1-Cre and Pdx1-Cre;Trp53R172H;Rbf/f mice at 2 months of age.
Figure S6 from CXCR4 in Tumor Epithelial Cells Mediates Desmoplastic Reaction in Pancreatic Ductal Adenocarcinoma
Authors: Morita Toshihiro , Kodama Yuzo , Shiokawa Masahiro , Kuriyama Katsutoshi , Marui Saiko , Kuwada Takeshi , Sogabe Yuko , Matsumori Tomoaki , Kakiuchi Nobuyuki , Tomono Teruko , Mima Atsushi , Ueda Tatsuki , Tsuda Motoyuki , Yamauchi Yuki , Nishikawa Yoshihiro , Sakuma Yojiro , Ota Yuji , Maruno Takahisa , Uza Norimitsu , Nagasawa Takashi , Chiba Tsutomu , Seno Hiroshi
Published: April 2023

Cxcr4 KO inhibits liver metastasis in splenic injection model.
Table S1 from Hybrid Epithelial–Mesenchymal Phenotypes Are Controlled by Microenvironmental Factors
Authors: Selvaggio Gianluca , Canato Sara , Pawar Archana , Monteiro Pedro T. , Guerreiro Patrícia S. , Brás M. Manuela , Janody Florence , Chaouiya Claudine
Published: April 2023

Documentation of model components, interactions and regulatory rules.