bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figure Legend from RB Loss Promotes Prostate Cancer Metastasis
Authors: Thangavel Chellappagounder , Boopathi Ettickan , Liu Yi , Haber Alex , Ertel Adam , Bhardwaj Anshul , Addya Sankar , Williams Noelle , Ciment Stephen J. , Cotzia Paolo , Dean Jeffry L. , Snook Adam , McNair Chris , Price Matt , Hernandez James R. , Zhao Shuang G. , Birbe Ruth , McCarthy James B. , Turley Eva A. , Pienta Kenneth J. , Feng Felix Y. , Dicker Adam P. , Knudsen Karen E. , Den Robert B.
Published: March 2023

Supplementary Figure Legends Supplemental Figure S1. RB loss promotes cell migration and invasion. Supplemental Figure S2. RB regulates RHAMM expression. Supplemental Figure S3. RB/E2F Binds on the RHAMM Promoter. Supplemental Figure S4. RHAMM overexpression drives cancer cell migration, invasion, and EMT. Supplemental Figure S5. RHAMM Inhibition Diminishes Migration and Invasion, but not Cellular Proliferation.
Supplemental Figures 1-5 from RB Loss Promotes Prostate Cancer Metastasis
Authors: Thangavel Chellappagounder , Boopathi Ettickan , Liu Yi , Haber Alex , Ertel Adam , Bhardwaj Anshul , Addya Sankar , Williams Noelle , Ciment Stephen J. , Cotzia Paolo , Dean Jeffry L. , Snook Adam , McNair Chris , Price Matt , Hernandez James R. , Zhao Shuang G. , Birbe Ruth , McCarthy James B. , Turley Eva A. , Pienta Kenneth J. , Feng Felix Y. , Dicker Adam P. , Knudsen Karen E. , Den Robert B.
Published: March 2023

Supplemental Figure S1. RB loss promotes cell migration and invasion. Supplemental Figure S2. RB regulates RHAMM expression. Supplemental Figure S3. RB/E2F Binds on the RHAMM Promoter. Supplemental Figure S4. RHAMM overexpression drives cancer cell migration, invasion, and EMT. Supplemental Figure S5. RHAMM Inhibition Diminishes Migration and Invasion, but not Cellular Proliferation. Supplemental Figure S3. RB/E2F Binds on the RHAMM Promoter.
Supplementary Tables from Soluble IL6R Expressed by Myeloid Cells Reduces Tumor-Specific Th1 Differentiation and Drives Tumor Progression
Authors: Tsukamoto Hirotake , Fujieda Koji , Hirayama Masatoshi , Ikeda Tokunori , Yuno Akira , Matsumura Keiko , Fukuma Daiki , Araki Kimi , Mizuta Hiroshi , Nakayama Hideki , Senju Satoru , Nishimura Yasuharu
Published: March 2023

Supplementary Table 1 Demographics and disease characteristics of HNT patients. Supplementary Table 2 Healthy donor information. Supplementary Table 3 The comparison of pathway parameters without covariates between HD and HNT. Supplementary Table 4 Result of multilevel linear models with covariates.
Table S1 from MUC1-C Induces PD-L1 and Immune Evasion in Triple-Negative Breast Cancer
Authors: Maeda Takahiro , Hiraki Masayuki , Jin Caining , Rajabi Hasan , Tagde Ashujit , Alam Maroof , Bouillez Audrey , Hu Xiufeng , Suzuki Yozo , Miyo Masaaki , Hata Tsuyoshi , Hinohara Kunihiko , Kufe Donald
Published: March 2023

This file contains qPCR primers sequences used for RT-PCR of GAPDH, MUC1, MUC1-C, human PD-L1, mouse PD-L1 and mouse 36B4 expression.
Supplementary Table S1 (Excel file) from The Histone Methyltransferase DOT1L Promotes Neuroblastoma by Regulating Gene Transcription
Authors: Wong Matthew , Tee Andrew E.L. , Milazzo Giorgio , Bell Jessica L. , Poulos Rebecca C. , Atmadibrata Bernard , Sun Yuting , Jing Duohui , Ho Nicholas , Ling Dora , Liu Pei Yan , Zhang Xu Dong , Hüttelmaier Stefan , Wong Jason W.H. , Wang Jenny , Polly Patsie , Perini Giovanni , Scarlett Christopher J. , Liu Tao
Published: March 2023

Supplementary Table S1 (Excel file). List of transcription factor target motifs around transcription start sites of genes down-regulated by DOT1L shRNA, as identified by gene set enrichment analysis.
Figure S3 from Zeb1 in Stromal Myofibroblasts Promotes Kras-Driven Development of Pancreatic Cancer
Authors: Sangrador Irene , Molero Xavier , Campbell Fiona , Franch-Expósito Sebastià , Rovira-Rigau Maria , Samper Esther , Domínguez-Fraile Manuel , Fillat Cristina , Castells Antoni , Vaquero Eva C.
Published: March 2023

Zeb1 hemizygosity in PSC slows down tumor growth in a subcutaneous mice model.
Figure S8 from Cathepsin B Is Dispensable for Cellular Processing of Cathepsin B-Cleavable Antibody–Drug Conjugates
Authors: Caculitan Niña G. , dela Cruz Chuh Josefa , Ma Yong , Zhang Donglu , Kozak Katherine R. , Liu Yichin , Pillow Thomas H. , Sadowsky Jack , Cheung Tommy K. , Phung Qui , Haley Benjamin , Lee Byoung-Chul , Akita Robert W. , Sliwkowski Mark X. , Polson Andrew G.
Published: March 2023

Supplementary Figure 8: Dose-titration curves for KPL-4 cells exposed to anti-HER2-VC(S)-MMAE (IC50 = 0.0060 ÃŽÂ¼g/mL), anti-HER2-VC(R)-MMAE (IC50 = 0.022 ÃŽÂ¼g/mL), and anti-HER2-MC-MMAE (IC50 = 0.070 ÃŽÂ¼g/mL).
Table S1-S3 from Metformin-Induced Reduction of CD39 and CD73 Blocks Myeloid-Derived Suppressor Cell Activity in Patients with Ovarian Cancer
Authors: Li Lifeng , Wang Liping , Li Jieyao , Fan Zhirui , Yang Li , Zhang Zhen , Zhang Chaoqi , Yue Dongli , Qin Guohui , Zhang Tengfei , Li Feng , Chen Xinfeng , Ping Yu , Wang Dan , Gao Qun , He Qianyi , Huang Lan , Li Hong , Huang Jianmin , Zhao Xuan , Xue Wenhua , Sun Zhi , Lu Jingli , Yu Jane J. , Zhao Jie , Zhang Bin , Zhang Yi
Published: March 2023

Supplementary Table1.Characteristic of antibodies used in the flow cytometry evaluation.Supplementary Table2.Primer sequence and product size for PCR amplification.Supplementary Table3.Clinical and baseline clinical characteristics of OC patients with diabetes
Figure S4 from Osteoblast-Secreted Factors Mediate Dormancy of Metastatic Prostate Cancer in the Bone via Activation of the TGFβRIII–p38MAPK–pS249/T252RB Pathway
Authors: Yu-Lee Li-Yuan , Yu Guoyu , Lee Yu-Chen , Lin Song-Chang , Pan Jing , Pan Tianhong , Yu Kai-Jie , Liu Bin , Creighton Chad J. , Rodriguez-Canales Jaime , Villalobos Pamela A. , Wistuba Ignacio I. , de Nadal Eulalia , Posas Francesc , Gallick Gary E. , Lin Sue-Hwa
Published: March 2023

Intrabone p38DN tumor growth and cell proliferation.
Table S2 from NK-cell Editing Mediates Epithelial-to-Mesenchymal Transition via Phenotypic and Proteomic Changes in Melanoma Cell Lines
Authors: Huergo-Zapico Leticía , Parodi Monica , Cantoni Claudia , Lavarello Chiara , Fernández-Martínez Juan L. , Petretto Andrea , DeAndrés-Galiana Enrique J. , Balsamo Mirna , López-Soto Alejandro , Pietra Gabriella , Bugatti Mattia , Munari Enrico , Marconi Marcella , Mingari Maria Cristina , Vermi William , Moretta Lorenzo , González Segundo , Vitale Massimo
Published: March 2023

Table S2
Figure S2 from Reactivation of Mutant-EGFR Degradation through Clathrin Inhibition Overcomes Resistance to EGFR Tyrosine Kinase Inhibitors
Authors: Ménard Ludovic , Floc'h Nicolas , Martin Matthew J. , Cross Darren A.E.
Published: March 2023

Clathrin inhibition induces mutant-EGFR degradation through lysosomal pathway
Figure S2 from Tumor-Associated Fatigue in Cancer Patients Develops Independently of IL1 Signaling
Authors: Grossberg Aaron J. , Vichaya Elisabeth G. , Christian Diana L. , Molkentine Jessica M. , Vermeer Daniel W. , Gross Phillip S. , Vermeer Paola D. , Lee John H. , Dantzer Robert
Published: March 2023

This file contains additional behavioral data related to the progressive ratio task following both LPS and tumor-challenge as well as additional behavioral phenotyping of tumor-bearing mice.
Figure S2 from Inhibition of Translesion DNA Synthesis as a Novel Therapeutic Strategy to Treat Brain Cancer
Authors: Choi Jung-Suk , Kim Casey Seol , Berdis Anthony
Published: March 2023

Cell-based studies verify that 5-NIdR synergizes the cell killing effects of TMZ by inhibiting translesion DNA synthesis. (A) Results of flow cytometry experiments using Annexin V and PI staining. (B) Results of flow cytometry experiments examining cell-cycle progression. (C) Results of flow cytometry experiments examining DNA damage response.
Supplementary Figure legend from Hypercholesterolemia Increases Colorectal Cancer Incidence by Reducing Production of NKT and γδ T Cells from Hematopoietic Stem Cells
Authors: Tie Guodong , Yan Jinglian , Khair Lyne , Messina Julia A. , Deng April , Kang Joonsoo , Fazzio Thomas , Messina Louis M.
Published: March 2023

supplementary figure legends
Table S7 from A Large-Scale, Exome-Wide Association Study of Han Chinese Women Identifies Three Novel Loci Predisposing to Breast Cancer
Authors: Zhang Bo , Chen Men-Yun , Shen Yu-Jun , Zhuo Xian-Bo , Gao Ping , Zhou Fu-Sheng , Liang Bo , Zu Jun , Zhang Qin , Suleman Sufyan , Xu Yi-Hui , Xu Min-Gui , Xu Jin-Kai , Liu Chen-Cheng , Giannareas Nikolaos , Xia Ji-Han , Zhao Yuan , Huang Zhong-Lian , Yang Zhen , Cheng Huai-Dong , Li Na , Hong Yan-Yan , Li Wei , Zhang Min-Jun , Yu Ke-Da , Li Guoliang , Sun Meng-Hong , Chen Zhen-Dong , Wei Gong-Hong , Shao Zhi-Min
Published: March 2023

Regulatory motifs altered by rs13047478, rs3810151 or rs7807771.
Figure S6 from Kindlin-1 Promotes Pulmonary Breast Cancer Metastasis
Authors: Sarvi Sana , Patel Hitesh , Li Jun , Dodd Georgia L. , Creedon Helen , Muir Morwenna , Ward Jocelyn , Dawson John C. , Lee Martin , Culley Jayne , Salter Donald M. , Sims Andrew H. , Byron Adam , Brunton Valerie G.
Published: March 2023

Figure S6 provides supporting analysis of the proteomic analysis of the Kindlin-1 secretome
Figure S1 from Kindlin-1 Promotes Pulmonary Breast Cancer Metastasis
Authors: Sarvi Sana , Patel Hitesh , Li Jun , Dodd Georgia L. , Creedon Helen , Muir Morwenna , Ward Jocelyn , Dawson John C. , Lee Martin , Culley Jayne , Salter Donald M. , Sims Andrew H. , Byron Adam , Brunton Valerie G.
Published: March 2023

Figure S1 shows evidence of Kindlin deletion in the mouse mammary gland epithelium
Table S2 from ERα-Mediated Nuclear Sequestration of RSK2 Is Required for ER+ Breast Cancer Tumorigenesis
Authors: Ludwik Katarzyna A. , McDonald Oliver G. , Brenin David R. , Lannigan Deborah A.
Published: March 2023

Differentially expressed genes in RSK2-KO cells
Supplementary Figures, Tables, and Materials and Methods from ERα-Mediated Nuclear Sequestration of RSK2 Is Required for ER+ Breast Cancer Tumorigenesis
Authors: Ludwik Katarzyna A. , McDonald Oliver G. , Brenin David R. , Lannigan Deborah A.
Published: March 2023

Supplementary Figures and Legends 1-6: Supplementary Figure 1 - RSK2 in ER+ breast cancer, Supplementary Figure 2-Analysis of RSK2 gene signature, Supplementary Figure 3-Anti-estrogen regulation of RSK2 nuclear accumulation, Supplementary Figure 4- Mapping the region responsible for RSK2 nuclear accumulation, Supplementary Figure 5-Characterization of RSK2 nuclear accumulation, Supplementary Figure 6-Analysis of NLS-RSK mouse model. Supplementary Table Legends 1-4: Supplementary Table 1-Patient histopathological information, Supplementary Table 2-Differentially expressed gene in RSK2-KO cells, Supplementary Table 3-Analysis of ER+ and ER- clustering of invasive ductal carcinoma samples using different gene sets, Supplementary Table 4-Small molecule inhibitors screened for inhibition of RSK2 nuclear localization. Supplementary Experimental Procedures. Resource Table. Supplementary References.
Table S1-S3 from Multiregional Sequencing Reveals Genomic Alterations and Clonal Dynamics in Primary Malignant Melanoma of the Esophagus
Authors: Li Jingjing , Yan Shi , Liu Zhen , Zhou Yong , Pan Yaqi , Yuan WenQin , Liu Mengfei , Tan Qin , Tian Geng , Dong Bin , Cai Hong , Wu Nan , Ke Yang
Published: March 2023

Table S1: SNV list Table S2: Indel list Table S3: Mutaion frequency of TCGA sample
Table S6B from Membrane-Depolarizing Channel Blockers Induce Selective Glioma Cell Death by Impairing Nutrient Transport and Unfolded Protein/Amino Acid Responses
Authors: Niklasson Mia , Maddalo Gianluca , Sramkova Zuzana , Mutlu Ercan , Wee Shimei , Sekyrova Petra , Schmidt Linnéa , Fritz Nicolas , Dehnisch Ivar , Kyriatzis Gregorios , Krafcikova Michaela , Carson Brittany B. , Feenstra Jennifer M. , Marinescu Voichita D. , Segerman Anna , Haraldsson Martin , Gustavsson Anna-Lena , Hammarström Lars G.J. , Jenmalm Jensen Annika , Uhrbom Lene , Altelaar A.F. Maarten , Linnarsson Sten , Uhlén Per , Trantirek Lukas , Vincent C. Theresa , Nelander Sven , Enger Per Øyvind , Andäng Michael
Published: March 2023

RNA sequencing data niguldipine vs control (DMSO)
Table S3 from Genes Predisposed to DNA Hypermethylation during Acquired Resistance to Chemotherapy Are Identified in Ovarian Tumors by Bivalent Chromatin Domains at Initial Diagnosis
Authors: Curry Edward , Zeller Constanze , Masrour Nahal , Patten Darren K. , Gallon John , Wilhelm-Benartzi Charlotte S. , Ghaem-Maghami Sadaf , Bowtell David D. , Brown Robert
Published: March 2023

Loci with greater than 2-fold average increase in methylation in relapse samples compared to primary tumours
Figures S2 & S3 from Breast Cancer Targeting through Inhibition of the Endoplasmic Reticulum-Based Apoptosis Regulator Nrh/BCL2L10
Authors: Nougarede Adrien , Popgeorgiev Nikolay , Kassem Loay , Omarjee Soleilmane , Borel Stephane , Mikaelian Ivan , Lopez Jonathan , Gadet Rudy , Marcillat Olivier , Treilleux Isabelle , Villoutreix Bruno O. , Rimokh Ruth , Gillet Germain
Published: March 2023

Fig. S2. Time-lapse imaging of dTAT-NDP action on CAL-51 breast cancer cell line Fig. S3. Nrh knock-down is sufficient to impair tumor progression Evaluation of the tumorigenic capacity of MDA-MB-231 Nrh heterozygous cells (231 Nrh +/-), injected into the mammary fat pad of nude mice.
Figure S6 from PTBP3-Mediated Regulation of ZEB1 mRNA Stability Promotes Epithelial–Mesenchymal Transition in Breast Cancer
Authors: Hou Pingfu , Li Lin , Chen Fang , Chen Yansu , Liu Hui , Li Jingjing , Bai Jin , Zheng Junnian
Published: March 2023

Figure 6 shows Relative protein levels of C-myc and PKM1/2 upon PTBP3 knockdown and the effects of PTBP1 knockdown on PTBP3 induced EMT in MCF10A
Figure S3 from PTBP3-Mediated Regulation of ZEB1 mRNA Stability Promotes Epithelial–Mesenchymal Transition in Breast Cancer
Authors: Hou Pingfu , Li Lin , Chen Fang , Chen Yansu , Liu Hui , Li Jingjing , Bai Jin , Zheng Junnian
Published: March 2023

Figure S3 shows that PTBP3 promotes BCSCs generation,breast cancer cell proliferation, migration and invasion.
Figures S2-S3-S4 from Silencing the Snail-Dependent RNA Splice Regulator ESRP1 Drives Malignant Transformation of Human Pulmonary Epithelial Cells
Authors: Walser Tonya C. , Jing Zhe , Tran Linh M. , Lin Ying Q. , Yakobian Natalie , Wang Gerald , Krysan Kostyantyn , Zhu Li X. , Sharma Sherven , Lee Mi-Heon , Belperio John A. , Ooi Aik T. , Gomperts Brigitte N. , Shay Jerry W. , Larsen Jill E. , Minna John D. , Hong Long-sheng , Fishbein Michael C. , Dubinett Steven M.
Published: March 2023

Figures S2-S3-S4 provide additional evidence that Snail is a potent driver of EMT, carcinogenic signaling programs, and stem cell expansion in vitro.
Supplementary Figure S2 from CD163 Is Required for Protumoral Activation of Macrophages in Human and Murine Sarcoma
Authors: Shiraishi Daisuke , Fujiwara Yukio , Horlad Hasita , Saito Yoichi , Iriki Toyohisa , Tsuboki Junko , Cheng Pan , Nakagata Naomi , Mizuta Hiroshi , Bekki Hirofumi , Nakashima Yasuharu , Oda Yoshinao , Takeya Motohiro , Komohara Yoshihiro
Published: March 2023

TAMs and clinical prognosis. Patients were divided into two groups dependent on the density of Iba1 and CD163-positive cells and the percentage of CD163-postive cells in Iba1-positive TAMs. Kaplan-Myer analysis was performed and p-values by Wilcoxon test were described in the Materials and Methods section.
Supplemental Fig 6 from Aberrant Phosphorylation of SMAD4 Thr277-Mediated USP9x–SMAD4 Interaction by Free Fatty Acids Promotes Breast Cancer Metastasis
Authors: Wu Yong , Yu Xiaoting , Yi Xianghua , Wu Ke , Dwabe Sami , Atefi Mohammad , Elshimali Yahya , Kemp Kevin T. , Bhat Kruttika , Haro Jesse , Sarkissyan Marianna , Vadgama Jaydutt V.
Published: March 2023

Figure S6 The comparison of expression levels of phospho-ERK and phospho-Smad4 between lean and overweight/obesity patients, Related to Figure 7. Staining was analyzed by using a system based on the percentage of positively stained cells and the staining intensity. Integrated optical density of all the positive staining in each image was determined, and its ratio to total area of each photograph was calculated as density.
Supplementary Figure 3 from Atypical G Protein β5 Promotes Cardiac Oxidative Stress, Apoptosis, and Fibrotic Remodeling in Response to Multiple Cancer Chemotherapeutics
Authors: Chakraborti Sreemoyee , Pramanick Arnab , Saha Sudipta , Roy Somnath Singha , Chaudhuri Arnab Ray , Das Madhusudan , Ghosh Sujoy , Stewart Adele , Maity Biswanath
Published: March 2023

Figure S3. Gβ5 promotes chemotherapeutic drug-induced oxidative stress in isolated VCM.
Figure S3 from Autocrine Adenosine Regulates Tumor Polyfunctional CD73+CD4+ Effector T Cells Devoid of Immune Checkpoints
Authors: Gourdin Nicolas , Bossennec Marion , Rodriguez Céline , Vigano Selena , Machon Christelle , Jandus Camilla , Bauché David , Faget Julien , Durand Isabelle , Chopin Nicolas , Tredan Olivier , Marie Julien C. , Dubois Bertrand , Guitton Jérôme , Romero Pedro , Caux Christophe , Ménétrier-Caux Christine
Published: March 2023

Sensitivity of CD73+ and CD73neg CD4+ Teff proliferation to AMP and impact of CD73 inhibitor (APCP) assessed by microscopy and flow cytometry analysis.
Supplementary Figure Legends from In Silico Evaluation of Pharmacokinetic Optimization for Antimitogram-Based Clinical Trials
Authors: Haviari Skerdi , You Benoît , Tod Michel
Published: March 2023

Legends for Supplementary Figures S1 to S8m
Figure S1 from Reciprocal Regulation of DUSP9 and DUSP16 Expression by HIF1 Controls ERK and p38 MAP Kinase Activity and Mediates Chemotherapy-Induced Breast Cancer Stem Cell Enrichment
Authors: Lu Haiquan , Tran Linh , Park Youngrok , Chen Ivan , Lan Jie , Xie Yangyiran , Semenza Gregg L.
Published: March 2023

Expression of DUSP9 and DUSP16 mRNA is correlated with HIF target gene expression.
Fig. S6 from Reciprocal Regulation of DUSP9 and DUSP16 Expression by HIF1 Controls ERK and p38 MAP Kinase Activity and Mediates Chemotherapy-Induced Breast Cancer Stem Cell Enrichment
Authors: Lu Haiquan , Tran Linh , Park Youngrok , Chen Ivan , Lan Jie , Xie Yangyiran , Semenza Gregg L.
Published: March 2023

DUSP9 and DUSP16 reciprocally regulate paclitaxel-induced BCSC enrichment in SUM-149 orthotopic tumors.
Supplementary Figure 4 from MVisAGe Identifies Concordant and Discordant Genomic Alterations of Driver Genes in Squamous Tumors
Authors: Walter Vonn , Du Ying , Danilova Ludmila , Hayward Michele C. , Hayes D. Neil
Published: March 2023

Associations between gene expression and DNA copy number for three types of squamous tumors.
Supplementary Figure 3 from MVisAGe Identifies Concordant and Discordant Genomic Alterations of Driver Genes in Squamous Tumors
Authors: Walter Vonn , Du Ying , Danilova Ludmila , Hayward Michele C. , Hayes D. Neil
Published: March 2023

Gene-level DNA copy number and gene expression in chromosome 3 in head and neck squamous cell carcinoma by HPV status.
Supplementary Figure 2 from MVisAGe Identifies Concordant and Discordant Genomic Alterations of Driver Genes in Squamous Tumors
Authors: Walter Vonn , Du Ying , Danilova Ludmila , Hayward Michele C. , Hayes D. Neil
Published: March 2023

Gene-level DNA copy number and gene expression in the 11q amplicon in head and neck squamous cell carcinoma by HPV status.
Figure S5 from Combined Mutation of Apc, Kras, and Tgfbr2 Effectively Drives Metastasis of Intestinal Cancer
Authors: Sakai Eri , Nakayama Mizuho , Oshima Hiroko , Kouyama Yuta , Niida Atsushi , Fujii Satoshi , Ochiai Atsushi , Nakayama Keiichi I. , Mimori Koshi , Suzuki Yutaka , Hong Chang Pyo , Ock Chan-Young , Kim Seong-Jin , Oshima Masanobu
Published: March 2023

Immune cell infiltration into metastasized liver tumors
Figure S2 from Combined Mutation of Apc, Kras, and Tgfbr2 Effectively Drives Metastasis of Intestinal Cancer
Authors: Sakai Eri , Nakayama Mizuho , Oshima Hiroko , Kouyama Yuta , Niida Atsushi , Fujii Satoshi , Ochiai Atsushi , Nakayama Keiichi I. , Mimori Koshi , Suzuki Yutaka , Hong Chang Pyo , Ock Chan-Young , Kim Seong-Jin , Oshima Masanobu
Published: March 2023

Increased number of small adenomas by Kras mutation
Supplementary Methods from Expression of Adipocyte/Macrophage Fatty Acid–Binding Protein in Tumor-Associated Macrophages Promotes Breast Cancer Progression
Authors: Hao Jiaqing , Yan Fei , Zhang Yuwen , Triplett Ashley , Zhang Ying , Schultz Debra A. , Sun Yanwen , Zeng Jun , Silverstein Kevin A.T. , Zheng Qi , Bernlohr David A. , Cleary Margot P. , Egilmez Nejat K. , Sauter Edward , Liu Shujun , Suttles Jill , Li Bing
Published: March 2023

It describes some detailed methods used in the study.
Supplemental methods and figures from Nedd4-Binding Protein 1 and TNFAIP3-Interacting Protein 1 Control MHC-1 Display in Neuroblastoma
Authors: Spel Lotte , Nieuwenhuis Joppe , Haarsma Rianne , Stickel Elmer , Bleijerveld Onno B. , Altelaar Maarten , Boelens Jaap Jan , Brummelkamp Thijn R. , Nierkens Stefan , Boes Marianne
Published: March 2023

List of used antibodies, plasmids, gRNA sequences and datasets. Figures showing expression data, gene correlations, cell line clonality, screen replicates, and protein expression in neuroblastoma cells.
Table S1 from Discovery of Human-Similar Gene Fusions in Canine Cancers
Authors: Ulvé Ronan , Rault Mélanie , Bahin Mathieu , Lagoutte Laetitia , Abadie Jérôme , De Brito Clotilde , Coindre Jean-Michel , Botherel Nadine , Rousseau Audrey , Wucher Valentin , Cadieu Edouard , Thieblemont Catherine , Hitte Christophe , Cornevin Laurence , Cabillic Florian , Bachelot Laura , Gilot David , Hennuy Benoit , Guillaudeux Thierry , Le Goff Arnaud , Derrien Thomas , Hédan Benoît , André Catherine
Published: March 2023

Fusions identified by RNA-Seq in the analyzed canine tumors.
Figure S5 from NFAT1-Mediated Regulation of NDEL1 Promotes Growth and Invasion of Glioma Stem-like Cells
Authors: Jiang Yang , Song Yifu , Wang Run , Hu Tianhao , Zhang Di , Wang Zixun , Tie Xinxin , Wang Minghao , Han Sheng
Published: March 2023

NFAT1 silencing inhibits the growth and invasion of TP53 wildtype (TP53wt) U87 GSCs.
Supplementary Data 6 from Inhibition of EphB4–Ephrin-B2 Signaling Reprograms the Tumor Immune Microenvironment in Head and Neck Cancers
Authors: Bhatia Shilpa , Oweida Ayman , Lennon Shelby , Darragh Laurel B. , Milner Dallin , Phan Andy V. , Mueller Adam C. , Van Court Benjamin , Raben David , Serkova Natalie J. , Wang Xiao-Jing , Jimeno Antonio , Clambey Eric T. , Pasquale Elena B. , Karam Sana D.
Published: March 2023

Total number of CD4+T cells remain unchanged following Control-Fc and ephrin-B2-Fc (20 μg/ml) treatment of T cells (A). Correlation analysis was also performed between TGF-β and EFNB2, EphB4 on R2 analysis platform (B-C). Alterations of cell growth and survival markers in western blots performed using lysates of T cells treated with ephrin-B2-Fc and control-Fc (D). These samples were run on the same gel.
Supplementary Data 2 from Inhibition of EphB4–Ephrin-B2 Signaling Reprograms the Tumor Immune Microenvironment in Head and Neck Cancers
Authors: Bhatia Shilpa , Oweida Ayman , Lennon Shelby , Darragh Laurel B. , Milner Dallin , Phan Andy V. , Mueller Adam C. , Van Court Benjamin , Raben David , Serkova Natalie J. , Wang Xiao-Jing , Jimeno Antonio , Clambey Eric T. , Pasquale Elena B. , Karam Sana D.
Published: March 2023

IHC staining confirming expression of ephrin-B2 in areas stained with fibroblast-expressing α-Smooth muscle actin (α-SMA)
Methods, Table S1-S3, Figure S1-S4 from Integrative Analysis of Histopathological Images and Genomic Data Predicts Clear Cell Renal Cell Carcinoma Prognosis
Authors: Cheng Jun , Zhang Jie , Han Yatong , Wang Xusheng , Ye Xiufen , Meng Yuebo , Parwani Anil , Han Zhi , Feng Qianjin , Huang Kun
Published: March 2023

This file contains: Methods. 1) Aggregation of cell-level features into patient-level features. 2)Training and prediction process of lasso-Cox model. Table S1. The 15 co-expressed gene modules generated by gene co-expression network analysis. Table S2. Gene set enrichment analysis of survival-associated gene modules using ToppGene. Table S3. Survival-associated image features and eigengenes, identified by Kaplan-Meier estimator and log-rank test in early-stage (stage I and II) patients. Figure S1. An example of nucleus segmentation results. Figure S2. Pairwise mutual information values between Lasso selected image features and eigengens are smaller than the ones between significantly correlated image features and eigengenes. Figure S3. Log-rank test p value of lasso-Cox prognostic model as a function of the number of clusters in K-means algorithm. Figure S4. Log-rank test p value of lasso-Cox prognostic model as a function of k in k-fold cross validation.
Supplementary table from Pharmacological Inhibition of PARP6 Triggers Multipolar Spindle Formation and Elicits Therapeutic Effects in Breast Cancer
Authors: Wang Zebin , Grosskurth Shaun E. , Cheung Tony , Petteruti Philip , Zhang Jingwen , Wang Xin , Wang Wenxian , Gharahdaghi Farzin , Wu Jiaquan , Su Nancy , Howard Ryan T. , Mayo Michele , Widzowski Dan , Scott David A. , Johannes Jeffrey W. , Lamb Michelle L. , Lawson Deborah , Dry Jonathan R. , Lyne Paul D. , Tate Edward W. , Zinda Michael , Mikule Keith , Fawell Stephen E. , Reimer Corinne , Chen Huawei
Published: March 2023

Supplementary tables 1-5
Supplemental Figures 1-8 from Temozolomide Treatment Induces lncRNA MALAT1 in an NF-κB and p53 Codependent Manner in Glioblastoma
Authors: Voce David J. , Bernal Giovanna M. , Wu Longtao , Crawley Clayton D. , Zhang Wei , Mansour Nassir M. , Cahill Kirk E. , Szymura Szymon J. , Uppal Abhineet , Raleigh David R. , Spretz Ruben , Nunez Luis , Larsen Gustavo , Khodarev Nikolai N. , Weichselbaum Ralph R. , Yamini Bakhtiar
Published: March 2023

Figure S1 shows the results of the p50 dependent gene expression analysis, Figure S2 shows MALAT1 expression in different GBM cell lines, Figure S3 demonstrates a schematic of putative binding sites on MALAT1, Figure S4 shows killing and survival studies in multiple GBM cell lines targeting MALAT1 with two distinct si-RNA sequences, Figure S5 demonstrates hindlimb xenograft growth following treatment with nanoparticles targeting MALAT1 and TMZ, Figure S6 shows in-situ hybridization of MALAT1, Figure S7 shows survival curves of GBM patients with differential MALAT1 expression, Figure S8 shows differential MALAT1 expression among GBM subtypes.
Supplementary Figure S2 from FGFR1-Activated Translation of WNT Pathway Components with Structured 5′ UTRs Is Vulnerable to Inhibition of EIF4A-Dependent Translation Initiation
Authors: Nguyen Tuan M. , Kabotyanski Elena B. , Dou Yongchao , Reineke Lucas C. , Zhang Peng , Zhang Xiang H.-F. , Malovannaya Anna , Jung Sung Yun , Mo Qianxing , Roarty Kevin P. , Chen Yiwen , Zhang Bing , Neilson Joel R. , Lloyd Richard E. , Perou Charles M. , Ellis Matthew J. , Rosen Jeffrey M.
Published: March 2023

Supplementary Figure S2 shows quality control analysis of the most abundant RPF sizes for 3-nt periodicity.
Figure S1 from miRNA Profiling of Magnetic Nanopore–Isolated Extracellular Vesicles for the Diagnosis of Pancreatic Cancer
Authors: Ko Jina , Bhagwat Neha , Black Taylor , Yee Stephanie S. , Na Young-Ji , Fisher Stephen , Kim Junhyong , Carpenter Erica L. , Stanger Ben Z. , Issadore David
Published: March 2023

Significantly differentially expressed miRNAs.
Figure S1 from Glycoprotein nmb Is Exposed on the Surface of Dormant Breast Cancer Cells and Induces Stem Cell–like Properties
Authors: Chen Chen , Okita Yukari , Watanabe Yukihide , Abe Fumie , Fikry Muhammad Ali , Ichikawa Yumu , Suzuki Hiroyuki , Shibuya Akira , Kato Mitsuyasu
Published: March 2023

Gene expression levels and sphere-forming frequencies of 2D- or 3D-cultured breast cancer cells.
Supplementary Information from Human Papilloma Virus Specific Immunogenicity and Dysfunction of CD8+ T Cells in Head and Neck Cancer
Authors: Krishna Sri , Ulrich Peaches , Wilson Eric , Parikh Falguni , Narang Pooja , Yang Shanshan , Read Amelia K. , Kim-Schulze Seunghee , Park Jin G. , Posner Marshall , Wilson Sayres Melissa A. , Sikora Andrew , Anderson Karen S.
Published: March 2023

Supplementary Materials and Methods, Supplementary Figures and Table information
Suppl Fig 6 from Intrathecal Viral Vector Delivery of Trastuzumab Prevents or Inhibits Tumor Growth of Human HER2-Positive Xenografts in Mice
Authors: Rothwell William T. , Bell Peter , Richman Laura K. , Limberis Maria P. , Tretiakova Anna P. , Li Mingyao , Wilson James M.
Published: March 2023

IT AAV9.trastuzumab tumor prophylaxis in NOD scid gamma mice
Supplementary Figure S7 and S8 from The MDA-9/Syntenin/IGF1R/STAT3 Axis Directs Prostate Cancer Invasion
Authors: Das Swadesh K. , Pradhan Anjan K. , Bhoopathi Praveen , Talukdar Sarmistha , Shen Xue-Ning , Sarkar Devanand , Emdad Luni , Fisher Paul B.
Published: March 2023

MDA-9/Syntenin mediated effects are rescued by STAT3.
Supplementary Figure S6 from The MDA-9/Syntenin/IGF1R/STAT3 Axis Directs Prostate Cancer Invasion
Authors: Das Swadesh K. , Pradhan Anjan K. , Bhoopathi Praveen , Talukdar Sarmistha , Shen Xue-Ning , Sarkar Devanand , Emdad Luni , Fisher Paul B.
Published: March 2023

MDA-9/Syntenin activates IGF-1R
Supplementary figures and legends from Inactivation of Citron Kinase Inhibits Medulloblastoma Progression by Inducing Apoptosis and Cell Senescence
Authors: Pallavicini Gianmarco , Sgrò Francesco , Garello Francesca , Falcone Mattia , Bitonto Valeria , Berto Gaia E. , Bianchi Federico T. , Gai Marta , Chiotto Alessandra M.A. , Filippi Miriam , Cutrin Juan C. , Ala Ugo , Terreno Enzo , Turco Emilia , Cunto Ferdinando Di
Published: March 2023

The file contains three supplementary figures with legends. Figure S1: Characterization of cell lines expressing CITK-specific shRNAs. Figure S2: The expression of CITK correlates with MB patients'' prognosis and CITK is highly expressed in mouse SmoA1 MB. Figure S3: Engineering and characterization of conditional CITK inactivation in mice.
Figure S1-S5 from Inhibition of the Wnt/β-Catenin Pathway Overcomes Resistance to Enzalutamide in Castration-Resistant Prostate Cancer
Authors: Zhang Zhuangzhuang , Cheng Lijun , Li Jie , Farah Elia , Atallah Nadia M. , Pascuzzi Pete E. , Gupta Sanjay , Liu Xiaoqi
Published: March 2023

Figure S1. Analysis of correlation between AR and β-catenin in PCa. Figure S2. The Wnt/β-catenin pathway is activated in cell lines and human specimens. Figure S3. Treatment with ICG001 overcomes enzalutamide resistance in PCa. Figure S4. Activation of the Wnt/β-catenin pathway contributes to enzalutamide resistance. Figure S5. Different gene signature in human PCa specimens and correlation between β-catenin and survival probability.
Figure S4 from Metabolic and Physiologic Imaging Biomarkers of the Tumor Microenvironment Predict Treatment Outcome with Radiation or a Hypoxia-Activated Prodrug in Mice
Authors: Matsumoto Shingo , Kishimoto Shun , Saito Keita , Takakusagi Yoichi , Munasinghe Jeeva P. , Devasahayam Nallathamby , Hart Charles P. , Gillies Robert J. , Mitchell James B. , Krishna Murali C.
Published: March 2023

Clonogenic assay for Hs766t cells treated with gemcitabine 100 nM in ambient air and anoxic condition
Figure S4 from CDKN2A/p16 Deletion in Head and Neck Cancer Cells Is Associated with CDK2 Activation, Replication Stress, and Vulnerability to CHK1 Inhibition
Authors: Gadhikar Mayur A. , Zhang Jiexin , Shen Li , Rao Xiayu , Wang Jing , Zhao Mei , Kalu Nene N. , Johnson Faye M. , Byers Lauren A. , Heymach John , Hittelman Walter N. , Udayakumar Durga , Pandita Raj K. , Pandita Tej K. , Pickering Curtis R. , Redwood Abena B. , Piwnica-Worms Helen , Schlacher Katharina , Frederick Mitchell J. , Myers Jeffrey N.
Published: March 2023

This file contains data showing relationship between cdk2 activity and Chk1 inhibition in hypersensitive UMSCC1-mVenus and least sensitive HN31-mVenus cells. This file is linked to main figure 5.
Figure S5 from High USP6NL Levels in Breast Cancer Sustain Chronic AKT Phosphorylation and GLUT1 Stability Fueling Aerobic Glycolysis
Authors: Avanzato Daniele , Pupo Emanuela , Ducano Nadia , Isella Claudio , Bertalot Giovanni , Luise Chiara , Pece Salvatore , Bruna Alejandra , Rueda Oscar M. , Caldas Carlos , Di Fiore Pier Paolo , Sapino Anna , Lanzetti Letizia
Published: March 2023

USP6NL overexpression inhibits GLUT1 endocytosis
Figure S1 from RNF6 Promotes Colorectal Cancer by Activating the Wnt/β-Catenin Pathway via Ubiquitination of TLE3
Authors: Liu Lei , Zhang Yanquan , Wong Chi Chun , Zhang Jingwan , Dong Yujuan , Li Xiangchun , Kang Wei , Chan Francis K.L. , Sung Joseph J.Y. , Yu Jun
Published: March 2023

RNF6 up-regulates in CRC and indicates a poor outcome of CRC patients.
Figure S2 from A Gene Expression Classifier from Whole Blood Distinguishes Benign from Malignant Lung Nodules Detected by Low-Dose CT
Authors: Kossenkov Andrew V. , Qureshi Rehman , Dawany Noor B. , Wickramasinghe Jayamanna , Liu Qin , Majumdar R. Sonali , Chang Celia , Widura Sandy , Kumar Trisha , Horng Wen-Hwai , Konnisto Eric , Criner Gerard , Tsay Jun-Chieh J. , Pass Harvey , Yendamuri Sai , Vachani Anil , Bauer Thomas , Nam Brian , Rom William N. , Showe Michael K. , Showe Louise C.
Published: March 2023

Performance of the Pulmonary Nodule Classifier
Supplementary Data from MRI Imaging of the Hemodynamic Vasculature of Neuroblastoma Predicts Response to Antiangiogenic Treatment
Authors: Zormpas-Petridis Konstantinos , Jerome Neil P. , Blackledge Matthew D. , Carceller Fernando , Poon Evon , Clarke Matthew , McErlean Ciara M. , Barone Giuseppe , Koers Alexander , Vaidya Sucheta J. , Marshall Lynley V. , Pearson Andrew D.J. , Moreno Lucas , Anderson John , Sebire Neil , McHugh Kieran , Koh Dow-Mu , Yuan Yinyin , Chesler Louis , Robinson Simon P. , Jamin Yann
Published: March 2023

Tables S1, S2, S3. Table S1 and S2 show the results of the Mantel test for the spatial comparison of the MRI and the histopathological biomarker for each tumors. Table S3 shows the summary of the pathological characteristics of the individual Th-MYCN tumors and their associated MRI transverse relaxation times.
Supplementary Video S1_NME2 from Metastasis Suppressors NME1 and NME2 Promote Dynamin 2 Oligomerization and Regulate Tumor Cell Endocytosis, Motility, and Metastasis
Authors: Khan Imran , Gril Brunilde , Steeg Patricia S.
Published: March 2023

Endocytosis of pHrodo Red-EGF in NME2 expressing cells
Supplementary Data from Genetic Ablation of the Cystine Transporter xCT in PDAC Cells Inhibits mTORC1, Growth, Survival, and Tumor Formation via Nutrient and Oxidative Stresses
Authors: Daher Boutaina , Parks Scott K. , Durivault Jerome , Cormerais Yann , Baidarjad Hanane , Tambutte Eric , Pouysségur Jacques , Vučetić Milica
Published: March 2023

Table 1 and Supp Figure Legends
Supplementary Table1+2 from Temozolomide Induces Senescence and Repression of DNA Repair Pathways in Glioblastoma Cells via Activation of ATR–CHK1, p21, and NF-κB
Authors: Aasland Dorthe , Götzinger Laura , Hauck Laura , Berte Nancy , Meyer Jessica , Effenberger Melanie , Schneider Simon , Reuber Emelie E. , Roos Wynand P. , Tomicic Maja T. , Kaina Bernd , Christmann Markus
Published: March 2023

List of primers and antibodies used in the study
Supplementary Figure4 from Temozolomide Induces Senescence and Repression of DNA Repair Pathways in Glioblastoma Cells via Activation of ATR–CHK1, p21, and NF-κB
Authors: Aasland Dorthe , Götzinger Laura , Hauck Laura , Berte Nancy , Meyer Jessica , Effenberger Melanie , Schneider Simon , Reuber Emelie E. , Roos Wynand P. , Tomicic Maja T. , Kaina Bernd , Christmann Markus
Published: March 2023

p14 and p16 status of the used glioblastoma cell lines
Supplementary Data from Mutant IDH Sensitizes Gliomas to Endoplasmic Reticulum Stress and Triggers Apoptosis via miR-183-Mediated Inhibition of Semaphorin 3E
Authors: Zhang Ying , Pusch Stefan , Innes James , Sidlauskas Kastytis , Ellis Matthew , Lau Joanne , El-Hassan Tedani , Aley Natasha , Launchbury Francesca , Richard-Loendt Angela , deBoer Jasper , Chen Sheng , Wang Lei , von Deimling Andreas , Li Ningning , Brandner Sebastian
Published: March 2023

Additional experiments to support data from the main manuscript
Supplementary Figure1 from Temozolomide Induces Senescence and Repression of DNA Repair Pathways in Glioblastoma Cells via Activation of ATR–CHK1, p21, and NF-κB
Authors: Aasland Dorthe , Götzinger Laura , Hauck Laura , Berte Nancy , Meyer Jessica , Effenberger Melanie , Schneider Simon , Reuber Emelie E. , Roos Wynand P. , Tomicic Maja T. , Kaina Bernd , Christmann Markus
Published: March 2023

Dependence of TMZ-induced senescence on FCS-concentration
Supplementary Material from miR-450a Acts as a Tumor Suppressor in Ovarian Cancer by Regulating Energy Metabolism
Authors: Muys Bruna Rodrigues , Sousa Josane F. , Plaça Jessica Rodrigues , de Araújo Luíza Ferreira , Sarshad Aishe A. , Anastasakis Dimitrios G. , Wang Xiantao , Li Xiao Ling , de Molfetta Greice Andreotti , Ramão Anelisa , Lal Ashish , Vidal Daniel Onofre , Hafner Markus , Silva Wilson A.
Published: March 2023

Contains detailed Supplementary Figure and Table legends
Supplementary Table S1 from Psychologic Distress Is Associated with Cancer-Specific Mortality among Patients with Cervical Cancer
Authors: Lu Donghao , Andrae Bengt , Valdimarsdóttir Unnur , Sundström Karin , Fall Katja , Sparén Pär , Fang Fang
Published: March 2023

Definition of severe illnesses of the family members.
Supplemental Table 1 from Inactivation of Bap1 Cooperates with Losses of Nf2 and Cdkn2a to Drive the Development of Pleural Malignant Mesothelioma in Conditional Mouse Models
Authors: Kukuyan Anna-Mariya , Sementino Eleonora , Kadariya Yuwaraj , Menges Craig W. , Cheung Mitchell , Tan Yinfei , Cai Kathy Q. , Slifker Michael J. , Peri Suraj , Klein-Szanto Andres J. , Rauscher Frank J. , Testa Joseph R.
Published: March 2023

Assay IDs for quantitative RT-PCR analysis to validate genes differentially expressed between malignant mesotheliomas (MMs) derived from triple-CKO mice versus those from double-CKO mice.
Supplementary Table S1 from Inhibition of Ataxia-Telangiectasia Mutated and RAD3-Related (ATR) Overcomes Oxaliplatin Resistance and Promotes Antitumor Immunity in Colorectal Cancer
Authors: Combès Eve , Andrade Augusto F. , Tosi Diego , Michaud Henri-Alexandre , Coquel Flavie , Garambois Veronique , Desigaud Delphine , Jarlier Marta , Coquelle Arnaud , Pasero Philippe , Bonnefoy Nathalie , Moreaux Jerome , Martineau Pierre , Del Rio Maguy , Beijersbergen Roderick L. , Vezzio-Vie Nadia , Gongora Celine
Published: March 2023

Molecular characteriistics of cell lines used in the study
Supplemental Fig. 2 from Inactivation of Bap1 Cooperates with Losses of Nf2 and Cdkn2a to Drive the Development of Pleural Malignant Mesothelioma in Conditional Mouse Models
Authors: Kukuyan Anna-Mariya , Sementino Eleonora , Kadariya Yuwaraj , Menges Craig W. , Cheung Mitchell , Tan Yinfei , Cai Kathy Q. , Slifker Michael J. , Peri Suraj , Klein-Szanto Andres J. , Rauscher Frank J. , Testa Joseph R.
Published: March 2023

Representative H&E images depicting histopathology of a hepatocellular carcinoma (A) and an intrahepatic cholangiocarcinoma (B) from two different Adeno-Cre-injected Bap1f/f;Nf2f/f mice.
Supplementary Tables from LOXL2 Upregulates Phosphorylation of Ezrin to Promote Cytoskeletal Reorganization and Tumor Cell Invasion
Authors: Zhan Xiu-Hui , Jiao Ji-Wei , Zhang Hai-Feng , Xu Xiu-E , He Jian-Zhong , Li Run-Liu , Zou Hai-Ying , Wu Zhi-Yong , Wang Shao-Hong , Wu Jian-Yi , Liao Lian-Di , Wang Juan-Juan , Cheng Yin-Wei , Zhang Kai , Neufeld Gera , Xu Li-Yan , Li En-Min
Published: March 2023

Supplementary Table S1-S4. Table S1. Correlation between expression of LOXL2 or its spliced isoform L2Δ13 and clinicopathological characteristics in ESCC patients of cohort 1 (n = 252). Table S2. Patient demographics and clinical characteristics for tissue microarray cohort 2 in ESCC (n = 135). Table S3. Multivariate Cox regression for overall survival and disease-free survival of ESCC patients (n = 252). Table S4. Interacting proteins associated with LOXL2 and L2Δ13 in KYSE150 ESCC cells identified by high-performance liquid chromatography followed by tandem mass spectrometry (LC-MS/MS) analysis.
Supplemental Tables from Src-Dependent DBL Family Members Drive Resistance to Vemurafenib in Human Melanoma
Authors: Feddersen Charlotte R. , Schillo Jacob L. , Varzavand Afshin , Vaughn Hayley R. , Wadsworth Lexy S. , Voigt Andrew P. , Zhu Eliot Y. , Jennings Brooke M. , Mullen Sarah A. , Bobera Jeremy , Riordan Jesse D. , Stipp Christopher S. , Dupuy Adam J.
Published: March 2023

This file contains 4 supplemental tables.
Supplementary Figure 2 from Loss of the BCR-FGFR1 GEF Domain Suppresses RHOA Activation and Enhances B-Lymphomagenesis in Mice
Authors: Hu Tianxiang , Chong Yating , Lu Sumin , Qin Haiyan , Ren Mingqiang , Savage Natasha M. , Chang Chang-Sheng , Cowell John K
Published: March 2023

Representative images of the peripheral blood, liver and spleen from mice transplanted with bone marrow transduced with either the empty vector (MIG), the full length BCR-FGFR1 chimeric kinase or the BCR-FGFR1 construct with deletion of the BCR GEF domain.
Table S5, Table S6, Table S7, Table S8 from Single-Cell Transcriptome Analyses Reveal Endothelial Cell Heterogeneity in Tumors and Changes following Antiangiogenic Treatment
Authors: Zhao Qi , Eichten Alexandra , Parveen Asma , Adler Christina , Huang Ying , Wang Wei , Ding Yueming , Adler Alexander , Nevins Thomas , Ni Min , Wei Yi , Thurston Gavin
Published: March 2023

Table S5, Differentailly expressed genes in tumor EC subpopulations between anti-angiogenic drug-treatment and control hFc-treatment. Table S6, Differentailly expressed genes in heart EC subpopulations between anti-angiogenic drug treatment and control hFc treatment. Table S7, Differentailly expressed genes between COLO205-derived tumor stromal fibroblast (hFc-treated) and normal heart fibroblasts (hFc-treated). Table S8, Differentailly expressed genes in COLO205 tumor fibroblast (FB) and smooth muscle (SM) between anti-angiogenic drug and control hFc treatments.
Supplementary Data Combined from Remodeling the Tumor Microenvironment Sensitizes Breast Tumors to Anti-Programmed Death-Ligand 1 Immunotherapy
Authors: Clift Renee , Souratha Jennifer , Garrovillo Sheryl A. , Zimmerman Susan , Blouw Barbara
Published: March 2023

All supplementary data in one file
Figure S5 from Remodeling the Tumor Microenvironment Sensitizes Breast Tumors to Anti-Programmed Death-Ligand 1 Immunotherapy
Authors: Clift Renee , Souratha Jennifer , Garrovillo Sheryl A. , Zimmerman Susan , Blouw Barbara
Published: March 2023

Anti-PD-L1 dose finding in EMT-6 tumors
Figure S2 from Remodeling the Tumor Microenvironment Sensitizes Breast Tumors to Anti-Programmed Death-Ligand 1 Immunotherapy
Authors: Clift Renee , Souratha Jennifer , Garrovillo Sheryl A. , Zimmerman Susan , Blouw Barbara
Published: March 2023

Immune cell composition in 4T1 and 4T1/HAS3 orthotopic breast tumors
Table S6 from MDM4 Is Targeted by 1q Gain and Drives Disease in Burkitt Lymphoma
Authors: Hüllein Jennifer , Słabicki Mikołaj , Rosolowski Maciej , Jethwa Alexander , Habringer Stefan , Tomska Katarzyna , Kurilov Roma , Lu Junyan , Scheinost Sebastian , Wagener Rabea , Huang Zhiqin , Lukas Marina , Yavorska Olena , Helfrich Hanne , Scholtysik René , Bonneau Kyle , Tedesco Donato , Küppers Ralf , Klapper Wolfram , Pott Christiane , Stilgenbauer Stephan , Burkhardt Birgit , Löffler Markus , Trümper Lorenz H. , Hummel Michael , Brors Benedikt , Zapatka Marc , Siebert Reiner , Kreuz Markus , Keller Ulrich , Huber Wolfgang , Zenz Thorsten
Published: March 2023

Generanks for differential shRNA effects from GENE-E class comparison analysis for Achilles Project cell lines
Table S3 from MDM4 Is Targeted by 1q Gain and Drives Disease in Burkitt Lymphoma
Authors: Hüllein Jennifer , Słabicki Mikołaj , Rosolowski Maciej , Jethwa Alexander , Habringer Stefan , Tomska Katarzyna , Kurilov Roma , Lu Junyan , Scheinost Sebastian , Wagener Rabea , Huang Zhiqin , Lukas Marina , Yavorska Olena , Helfrich Hanne , Scholtysik René , Bonneau Kyle , Tedesco Donato , Küppers Ralf , Klapper Wolfram , Pott Christiane , Stilgenbauer Stephan , Burkhardt Birgit , Löffler Markus , Trümper Lorenz H. , Hummel Michael , Brors Benedikt , Zapatka Marc , Siebert Reiner , Kreuz Markus , Keller Ulrich , Huber Wolfgang , Zenz Thorsten
Published: March 2023

Gene expression fold-changes from microarray analysis
Table S1 from MDM4 Is Targeted by 1q Gain and Drives Disease in Burkitt Lymphoma
Authors: Hüllein Jennifer , Słabicki Mikołaj , Rosolowski Maciej , Jethwa Alexander , Habringer Stefan , Tomska Katarzyna , Kurilov Roma , Lu Junyan , Scheinost Sebastian , Wagener Rabea , Huang Zhiqin , Lukas Marina , Yavorska Olena , Helfrich Hanne , Scholtysik René , Bonneau Kyle , Tedesco Donato , Küppers Ralf , Klapper Wolfram , Pott Christiane , Stilgenbauer Stephan , Burkhardt Birgit , Löffler Markus , Trümper Lorenz H. , Hummel Michael , Brors Benedikt , Zapatka Marc , Siebert Reiner , Kreuz Markus , Keller Ulrich , Huber Wolfgang , Zenz Thorsten
Published: March 2023

Generanks for differential shRNA effects from GENE-E class comparison analysis
Supplementary Table S1-S7 from Long Noncoding RNA ELIT-1 Acts as a Smad3 Cofactor to Facilitate TGFβ/Smad Signaling and Promote Epithelial–Mesenchymal Transition
Authors: Sakai Satoshi , Ohhata Tatsuya , Kitagawa Kyoko , Uchida Chiharu , Aoshima Takuya , Niida Hiroyuki , Suzuki Tetsuro , Inoue Yasumichi , Miyazawa Keiji , Kitagawa Masatoshi
Published: March 2023

TS1:Primer sequences; TS2: Primer sequences for ChIP; FS3: HBV-induced lncRNA; FS4:Common target gene list; FS5: TGF-ÃŸ target gene list; FS6: ELIT-1 target gene list; FS7:ELIT-1-associated pathway
Supplementary Data from Temozolomide Sensitizes MGMT-Deficient Tumor Cells to ATR Inhibitors
Authors: Jackson Christopher B. , Noorbakhsh Seth I. , Sundaram Ranjini K. , Kalathil Aravind N. , Ganesa Sachita , Jia Lanqi , Breslin Hank , Burgenske Danielle M. , Gilad Oren , Sarkaria Jann N. , Bindra Ranjit S.
Published: March 2023

All supplemental figures and captions
Table S1 from Genetic Variants of VEGFA and FLT4 Are Determinants of Survival in Renal Cell Carcinoma Patients Treated with Sorafenib
Authors: Crona Daniel J. , Skol Andrew D. , Leppänen Veli-Matti , Glubb Dylan M. , Etheridge Amy S. , Hilliard Eleanor , Peña Carol E. , Peterson Yuri K. , Klauber-DeMore Nancy , Alitalo Kari K. , Innocenti Federico
Published: March 2023

Genotyped genes.
Table S2 from Gaussian Mixture Models for Probabilistic Classification of Breast Cancer
Authors: Prabakaran Indira , Wu Zhengdong , Lee Changgun , Tong Brian , Steeman Samantha , Koo Gabriel , Zhang Paul J. , Guvakova Marina A.
Published: March 2023

Table S2. Summary of ESR1, PGR, ERBB2, and IGF1R gene expression levels in human breast cancer cell lines.
Figure S1 from Arming Tumor-Associated Macrophages to Reverse Epithelial Cancer Progression
Authors: Wettersten Hiromi I. , Weis Sara M. , Pathria Paulina , Von Schalscha Tami , Minami Toshiyuki , Varner Judith A. , Cheresh David A.
Published: March 2023

Table of correlation coefficients for ITGB3 and immune cell types across multiple cancers, and ITGB3 expression for the TCGA pan-cancer dataset
Supplementary Data from Multiregion Sequencing Reveals the Genetic Heterogeneity and Evolutionary History of Osteosarcoma and Matched Pulmonary Metastases
Authors: Wang Di , Niu Xiaohui , Wang Zhijie , Song Cheng-Li , Huang Zhen , Chen Ke-Neng , Duan Jianchun , Bai Hua , Xu Jiachen , Zhao Jun , Wang Yu , Zhuo Minglei , Xie X. Sunney , Kang Xiaozheng , Tian Yanhua , Cai Liangliang , Han Jie-Fei , An Tongtong , Sun Yu , Gao Shugeng , Ying Jianming , Wang Luhua , He Jie , Wang Jie
Published: March 2023

Supplementary Table S1's detail information of mutations in each patient
Supplementary Figure 3 from Gene Editing of α6 Integrin Inhibits Muscle Invasive Networks and Increases Cell–Cell Biophysical Properties in Prostate Cancer
Authors: Rubenstein Cynthia S. , Gard Jaime M.C. , Wang Mengdie , McGrath Julie E. , Ingabire Nadia , Hinton James P. , Marr Kendra D. , Simpson Skyler J. , Nagle Raymond B. , Miranti Cindy K. , Warfel Noel A. , Garcia Joe G.N. , Arif-Tiwari Hina , Cress Anne E.
Published: March 2023

ECM proteolysis, α6 integrin, and E-cadherin expression in 3D Matrigel invasive networks