bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplemental Table S4 from Tight Junction Protein Claudin-2 Promotes Self-Renewal of Human Colorectal Cancer Stem-like Cells
Authors: Paquet-Fifield Sophie , Koh Shir Lin , Cheng Lesley , Beyit Laura M. , Shembrey Carolyn , Mølck Christina , Behrenbruch Corina , Papin Marina , Gironella Meritxell , Guelfi Sophie , Nasr Ramona , Grillet Fanny , Prudhomme Michel , Bourgaux Jean-Francois , Castells Antoni , Pascussi Jean-Marc , Heriot Alexander G. , Puisieux Alain , Davis Melissa J. , Pannequin Julie , Hill Andrew F. , Sloan Erica K. , Hollande Frédéric
Published: March 2023

This table contains the combined list of genes (Column I) involved in self-renewal processes that were used to analyze potential enrichments for miRNA targets. This list was established using Gene Ontology keywords ('Self-renewal', columns A-B; 'Stem cell', columns C-D) or extracted from prior publications.
Supplemental Table S3 from Tight Junction Protein Claudin-2 Promotes Self-Renewal of Human Colorectal Cancer Stem-like Cells
Authors: Paquet-Fifield Sophie , Koh Shir Lin , Cheng Lesley , Beyit Laura M. , Shembrey Carolyn , Mølck Christina , Behrenbruch Corina , Papin Marina , Gironella Meritxell , Guelfi Sophie , Nasr Ramona , Grillet Fanny , Prudhomme Michel , Bourgaux Jean-Francois , Castells Antoni , Pascussi Jean-Marc , Heriot Alexander G. , Puisieux Alain , Davis Melissa J. , Pannequin Julie , Hill Andrew F. , Sloan Erica K. , Hollande Frédéric
Published: March 2023

This table presents the Top 10 most enriched KEGG pathways identified from the panel of miRNAs regulated by claudin-2, along with their enrichment score and p-value.
Supplemental Figures - Legends - Methods from Tight Junction Protein Claudin-2 Promotes Self-Renewal of Human Colorectal Cancer Stem-like Cells
Authors: Paquet-Fifield Sophie , Koh Shir Lin , Cheng Lesley , Beyit Laura M. , Shembrey Carolyn , Mølck Christina , Behrenbruch Corina , Papin Marina , Gironella Meritxell , Guelfi Sophie , Nasr Ramona , Grillet Fanny , Prudhomme Michel , Bourgaux Jean-Francois , Castells Antoni , Pascussi Jean-Marc , Heriot Alexander G. , Puisieux Alain , Davis Melissa J. , Pannequin Julie , Hill Andrew F. , Sloan Erica K. , Hollande Frédéric
Published: March 2023

This file contains all supplemental Figures, as well as legends for both Supplemental Figures and Supplemental Tables, as well as Supplemental methods and associated references
Supplemental Figures 1 to 14 from Bayesian Network Inference Modeling Identifies TRIB1 as a Novel Regulator of Cell-Cycle Progression and Survival in Cancer Cells
Authors: Gendelman Rina , Xing Heming , Mirzoeva Olga K. , Sarde Preeti , Curtis Christina , Feiler Heidi S. , McDonagh Paul , Gray Joe W. , Khalil Iya , Korn W. Michael
Published: March 2023

Legend Figure S1: Schematic of the experimental framework Legend Figure S2: Predicted phenotypic value and assessment of predictive power of the model. Legend Figure S3: Taget knock-down. Legend Figure S4: Treatment with individual siRNAs against TRIB1 leads to G1-S arrest. Legend Figure S5: RNA levels of cell cycle genes. Legend Figure S6: TRIB1 knockdown results in inhibition of NFκB-responsive promoter activity: comparison of individual siRNA duplexes. Legend Figure S7: TRIB1 resistant to siRNA (TRIB1-siR) rescues the phenotype induced by TRIB1-siRNA. Legend Figure S8: Downregulation of NFkB target genes after treatment with TRIB1 siRNA. Legend Figure S9: TRIB1 knock down leads to inhibition of NFκB pathway. Legend Figure S10: TRIB1 siRNA promotes TRAIL-induced apoptosis through activation of caspase-8 cleavage. Legend Figure S11: TRIB1 knockdown results in decrease of YY1gene expression. Legend Figure S12: Kaplan-Meier plots Legend Figure S13: Hazard Ratios for BCCS distribution. Legend Figure S14: Hazard Ratios for OS distribution.
Supplemental experimental Procedures from Histone Acetyltransferase Activity of MOF Is Required for MLL-AF9 Leukemogenesis
Authors: Valerio Daria G. , Xu Haiming , Chen Chun-Wei , Hoshii Takayuki , Eisold Meghan E. , Delaney Christopher , Cusan Monica , Deshpande Aniruddha J. , Huang Chun-Hao , Lujambio Amaia , Zheng YuJun George , Zuber Johannes , Pandita Tej K. , Lowe Scott W. , Armstrong Scott A.
Published: March 2023

Extra experimental procedures.
Supplementary Data from Modeling the Subclonal Evolution of Cancer Cell Populations
Authors: Chowell Diego , Napier James , Gupta Rohan , Anderson Karen S. , Maley Carlo C. , Sayres Melissa A. Wilson
Published: March 2023

This contains for supplementary items: Table S1. Number of dominant and minor subclones; Table S2. Fitness of dominant and minor subclones; Table S3. Average time from treatment to disease recurrence; Note S1. Running TumorSim.
Supplemental Table S2 from Histone Acetyltransferase Activity of MOF Is Required for MLL-AF9 Leukemogenesis
Authors: Valerio Daria G. , Xu Haiming , Chen Chun-Wei , Hoshii Takayuki , Eisold Meghan E. , Delaney Christopher , Cusan Monica , Deshpande Aniruddha J. , Huang Chun-Hao , Lujambio Amaia , Zheng YuJun George , Zuber Johannes , Pandita Tej K. , Lowe Scott W. , Armstrong Scott A.
Published: March 2023

RNA-seq MOF KO vs MOF WT
Supplementary Figures (Figure S1 - S7) from SHMT2 Desuccinylation by SIRT5 Drives Cancer Cell Proliferation
Authors: Yang Xin , Wang Zhe , Li Xin , Liu Boya , Liu Minghui , Liu Lu , Chen Shuaiyi , Ren Mengmeng , Wang Yankun , Yu Miao , Wang Bo , Zou Junhua , Zhu Wei-Guo , Yin Yuxin , Gu Wei , Luo Jianyuan
Published: March 2023

Figure S1 shows the SIRT5 interaction network and SHMT2 identification. Figure S2 shows that SIRT5 is irreplaceable for cancer cell in response to serine deprivation. Figure S3 shows that SIRT5 desuccinylates SHMT2. Figure S4 shows that SIRT5 upregulates SHMT2 enzymatic activity under metabolic stress. Figure S5 shows that K280 is the major succinylation site of SHMT2. Figure S6 shows that succinylation of SHMT2 at K280 restrains cellular redox balance and clonogenic growth. Figure S7 shows that succinylation of SHMT2 at K280 impairs tumor cell growth in vivo and in vitro
Supplementary Table S1: Transcriptional analysis of Nrp1-depleted microglia and macrophages from Deletion of Neuropilin 1 from Microglia or Bone Marrow–Derived Macrophages Slows Glioma Progression
Authors: Miyauchi Jeremy Tetsuo , Caponegro Michael D. , Chen Danling , Choi Matthew K. , Li Melvin , Tsirka Stella E.
Published: March 2023

Table describing differentially regulated genes in BMDM or microglia populations 20 days post glioma induction.
Supplemental info from Vitamin C Sensitizes Melanoma to BET Inhibitors
Authors: Mustafi Sushmita , Camarena Vladimir , Volmar Claude-Henry , Huff Tyler C. , Sant David W. , Brothers Shaun P. , Liu Zhao-Jun , Wahlestedt Claes , Wang Gaofeng
Published: March 2023

This file contains the following supplementary figures, tables and other materials. Figure S1: The expression of BRD2, BRD3 and BRD4 in melanocytes and melanoma cells. Figure S2: Knocking down the expression of BRD4 by siRNA. Figure S3: The effect of ascorbate on the expression of BRDs. Figure S4: hMeDIP-qPCR of HAT1 in its promoter and gene body. Figure S5: Decreased acetylation of soluble H4 by ascorbate treatment. Figure S6: The effect of ascorbate on H4K8ac and H4K16ac. Figure S7: Isobologram analysis of JQ1 and ascorbate interaction in A2058 cells. Figure S8: Ascorbate sensitizes murine melanoma cell B16-F10 to BETi. Table S1. Primers for hMeDIP-qPCR of HAT1. Table S2: Epigenetic drug screening panel. Table S3: Ascorbate decreases the EC50 of BET inhibitors in melanoma cell lines. Supplementary Material and Methods Supplementary reference
Supplemental Figure S4: Microglia/macrophage proliferation following glioma induction from Deletion of Neuropilin 1 from Microglia or Bone Marrow–Derived Macrophages Slows Glioma Progression
Authors: Miyauchi Jeremy Tetsuo , Caponegro Michael D. , Chen Danling , Choi Matthew K. , Li Melvin , Tsirka Stella E.
Published: March 2023

Ki67 positive cells 15 days post tumor induction showing microglia/macrophage proliferation
Table S1 from Dendritic Cells Enhance Polyfunctionality of Adoptively Transferred T Cells That Target Cytomegalovirus in Glioblastoma
Authors: Reap Elizabeth A. , Suryadevara Carter M. , Batich Kristen A. , Sanchez-Perez Luis , Archer Gary E. , Schmittling Robert J. , Norberg Pamela K. , Herndon James E. , Healy Patrick , Congdon Kendra L. , Gedeon Patrick C. , Campbell Olivia C. , Swartz Adam M. , Riccione Katherine A. , Yi John S. , Hossain-Ibrahim Mohammed K. , Saraswathula Anirudh , Nair Smita K. , Dunn-Pirio Anastasie M. , Broome Taylor M. , Weinhold Kent J. , Desjardins Annick , Vlahovic Gordana , McLendon Roger E. , Friedman Allan H. , Friedman Henry S. , Bigner Darell D. , Fecci Peter E. , Mitchell Duane A. , Sampson John H.
Published: March 2023

Summary of adverse events with possible relation to study.
Supplemental Figure S1: Flow cytometry sorting of GAM subpopulations. from Deletion of Neuropilin 1 from Microglia or Bone Marrow–Derived Macrophages Slows Glioma Progression
Authors: Miyauchi Jeremy Tetsuo , Caponegro Michael D. , Chen Danling , Choi Matthew K. , Li Melvin , Tsirka Stella E.
Published: March 2023

Flow cytometric analysis of purified tumor extracts from WT and KO mice, stained for CD11b-APC and CD45-PerCP-Cy5.5
Figure legends and Table from Deletion of Neuropilin 1 from Microglia or Bone Marrow–Derived Macrophages Slows Glioma Progression
Authors: Miyauchi Jeremy Tetsuo , Caponegro Michael D. , Chen Danling , Choi Matthew K. , Li Melvin , Tsirka Stella E.
Published: March 2023

Figure legends for figures S1-4 and description of Table S1
Supplementary methods from T-Cell Densities in Brain Metastases Are Associated with Patient Survival Times and Diffusion Tensor MRI Changes
Authors: Zakaria Rasheed , Platt-Higgins Angela , Rathi Nitika , Radon Mark , Das Sumit , Das Kumar , Bhojak Maneesh , Brodbelt Andrew , Chavredakis Emmanuel , Jenkinson Michael D. , Rudland Philip S.
Published: March 2023

supplementary data on IHC stains and image files
Supplemental Material, Methods and Data from Tumor–Stroma IL1β-IRAK4 Feedforward Circuitry Drives Tumor Fibrosis, Chemoresistance, and Poor Prognosis in Pancreatic Cancer
Authors: Zhang Daoxiang , Li Lin , Jiang Hongmei , Li Qiong , Wang-Gillam Andrea , Yu Jinsheng , Head Richard , Liu Jingxia , Ruzinova Marianna B. , Lim Kian-Huat
Published: March 2023

Contains Supplemental Materials and Methods Supplemental Figures 1-6 Supplemental Table 1
Supplementary Movie S1 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

Time-lapse imaging of dTAT-NDP action on CAL-51 breast cancer cell line
Supplementary Material & Methods, tables, movie legend 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

-I- Reagents and antibodies. Vectors. RNA preparation & RT-qPCR -II- Supplementary Table 1: Invasive breast carcinomas patient cohort characteristics -III- Supplementary Table 2: Correlation between Nrh protein expression and the clinicopathologic factors of breast cancer -IV- Supplementary Table 3: Multivariate analysis of clinical parameters predicting shorter DMFS -V- Legend of supplementary movie : Time-lapse imaging of dTAT-NDP action on CAL-51 breast cancer cell line
Figure S3 from CXCR4 Promotes Neuroblastoma Growth and Therapeutic Resistance through miR-15a/16-1–Mediated ERK and BCL2/Cyclin D1 Pathways
Authors: Klein Shiri , Abraham Michal , Bulvik Baruch , Dery Elia , Weiss Ido D. , Barashi Neta , Abramovitch Rinat , Wald Hanna , Harel Yaniv , Olam Devorah , Weiss Lola , Beider Katia , Eizenberg Orly , Wald Ori , Galun Eithan , Pereg Yaron , Peled Amnon
Published: March 2023

miR-15a and miR-16-1 expression following antagomiR transfection
Figure S2 from CXCR4 Promotes Neuroblastoma Growth and Therapeutic Resistance through miR-15a/16-1–Mediated ERK and BCL2/Cyclin D1 Pathways
Authors: Klein Shiri , Abraham Michal , Bulvik Baruch , Dery Elia , Weiss Ido D. , Barashi Neta , Abramovitch Rinat , Wald Hanna , Harel Yaniv , Olam Devorah , Weiss Lola , Beider Katia , Eizenberg Orly , Wald Ori , Galun Eithan , Pereg Yaron , Peled Amnon
Published: March 2023

miR-15a and miR-16-1 levels following transfection into NB cells
Figure S7 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

(A) Detection of the Nrh/IP3R1 complex. (B) Effect of UV light on TAT-NDP diffusion into the cytoplasm.
Figure S6 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

Nrh 1-23 peptide regulates UPR by binding to Nrh and not Beclin-1
Figure S5 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

Interaction of Nrh and Bcl2 proteins with IP3Rs
Figure S4 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

Impact of Nrh overexpression on UPR pathways
Suppl. Material and Methods from Radiotherapy-Activated Cancer-Associated Fibroblasts Promote Tumor Progression through Paracrine IGF1R Activation
Authors: Tommelein Joke , De Vlieghere Elly , Verset Laurine , Melsens Elodie , Leenders Justine , Descamps Benedicte , Debucquoy Annelies , Vanhove Christian , Pauwels Patrick , Gespach Christian P. , Vral Anne , De Boeck Astrid , Haustermans Karin , de Tullio Pascal , Ceelen Wim , Demetter Pieter , Boterberg Tom , Bracke Marc , De Wever Olivier
Published: March 2023

Detailed information about Material and Methods used throughout the manuscript including information about cell lines, antibodies, biochemical assays and in vitro and in vivo assays.
Figure S1 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

Nrh protein expression in healthy and tumoral tissues (A) Nrh protein expression in human healthy tissues. Immunohistochemistry on tissue array (B) Nrh expression assessed by western blot in cell lysate of liver cancer. (NAT) normal adjacent tissue.
Figure S1-S7 from Radiotherapy-Activated Cancer-Associated Fibroblasts Promote Tumor Progression through Paracrine IGF1R Activation
Authors: Tommelein Joke , De Vlieghere Elly , Verset Laurine , Melsens Elodie , Leenders Justine , Descamps Benedicte , Debucquoy Annelies , Vanhove Christian , Pauwels Patrick , Gespach Christian P. , Vral Anne , De Boeck Astrid , Haustermans Karin , de Tullio Pascal , Ceelen Wim , Demetter Pieter , Boterberg Tom , Bracke Marc , De Wever Olivier
Published: March 2023

Supplementary Figure 1-7 on irradiation of CAF; effect of irradiated CAF on cancer cells; glutamine metabolism; proteome analysis of CM CAF; effect of recombinant IGF1 on cancer cells; effect of recombinant IGF1 on metabolism of cancer cells; schematic of in vivo set-up and Figure legends or respective figures
Table S2 from Rapid Intraoperative Diagnosis of Pediatric Brain Tumors Using Stimulated Raman Histology
Authors: Hollon Todd C. , Lewis Spencer , Pandian Balaji , Niknafs Yashar S. , Garrard Mia R. , Garton Hugh , Maher Cormac O. , McFadden Kathryn , Snuderl Matija , Lieberman Andrew P. , Muraszko Karin , Camelo-Piragua Sandra , Orringer Daniel A.
Published: March 2023

Descriptive statistics of patient population
Table S1 from Rapid Intraoperative Diagnosis of Pediatric Brain Tumors Using Stimulated Raman Histology
Authors: Hollon Todd C. , Lewis Spencer , Pandian Balaji , Niknafs Yashar S. , Garrard Mia R. , Garton Hugh , Maher Cormac O. , McFadden Kathryn , Snuderl Matija , Lieberman Andrew P. , Muraszko Karin , Camelo-Piragua Sandra , Orringer Daniel A.
Published: March 2023

Pipeline information from CellProfiler feature extraction method
Supplemental Figures 1-9 from Amplification of Oncolytic Vaccinia Virus Widespread Tumor Cell Killing by Sunitinib through Multiple Mechanisms
Authors: Kim Minah , Nitschké Maximilian , Sennino Barbara , Murer Patrizia , Schriver Brian J. , Bell Alexander , Subramanian Aishwarya , McDonald Corry E. , Wang Jiahu , Cha Howard , Bourgeois-Daigneault Marie-Claude , Kirn David H. , Bell John C. , De Silva Naomi , Breitbach Caroline J. , McDonald Donald M.
Published: March 2023

Figure S1. Structures of mpJX-594 vaccinia virus variants Figure S2. mpJX-594 uptake from vasculature and viral replication Figure S3. Transient mpJX-594 presence in spleen and liver Figure S4. mpJX-594 effects on vascular leakage Figure S5. Antitumor effect of three mpJX-594 variants Figure S6. JX-594 effects on U87 glioma xenografts Figure S7. Sunitinib amplification of mpJX-594 antitumor actions Figure S8. Effects of administration sequence by mpJX-594 and sunitinib Figure S9. Comparison of sunitinib and DC101 with mpJX-594
Table S1-S5 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

Table S1-S5 show the correlation between PTBP3 and clinicopathological characteristics in breast cancer; Univariate and multivariate Cox regression analysis on 5-year overall and disease-specific survival of 418 breast cancer patients and the oncomine analysis of PTBP3 in breast cancer.
Tables S1-6 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense
Authors: Pajic Marina , Froio Danielle , Daly Sheridan , Doculara Louise , Millar Ewan , Graham Peter H. , Drury Alison , Steinmann Angela , de Bock Charles E. , Boulghourjian Alice , Zaratzian Anaiis , Carroll Susan , Toohey Joanne , O’Toole Sandra A. , Harris Adrian L , Buffa Francesca M. , Gee Harriet E. , Hollway Georgina E. , Molloy Timothy J.
Published: March 2023

Supplementary Tables 1-6 Supp. Table 1: Clinicopathological characteristics of breast cancer patients whose tumours were profiled by miRNA expression microarrays to identify miRNAs associated with local relapse following radiotherapy. Supp. Table 2: Clinicopathological characteristics of RT-treated breast cancer patients from "Rotterdam", "Uppsala", and "Mainz" cohorts that were analysed for biomarker validation Supp. Table 3: Clinicopathological characteristics of RT- and non-RT treated breast cancer patients from "Lund" cohort that were analysed for biomarker validation Supp. Table 4: Clinicopathological characteristics of RT-treated breast cancer patients from "Oxford" and "METABRIC" cohorts that were analysed to validate miR-139-5p as a biomarker Supp. Table 5: Primer sequences for miR-139-5p targets (Roche Universal Probe Library QPCR system) Supp. Table 6: IC50s for 15 DNA damaging compounds in 10 breast cancer cell lines. Also listed are DNA mutations significantly correlated (p<0.05) with sensitivity to each drug, and the basal miR-139-5p expression levels for each cell line (measured by QPCR as a % of mean housekeeping gene expression). IC50 and mutation data extracted from the Genomics of Drug Sensitivity in Cancer (GDSC) database [Nucl. Acids Res. 2013 Database issue. PMID:23180760].
Figure S5 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 S5 shows the correlation analysis of PTBP3 and ZEB1 in different tumor subtypes.
Figure S2 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense
Authors: Pajic Marina , Froio Danielle , Daly Sheridan , Doculara Louise , Millar Ewan , Graham Peter H. , Drury Alison , Steinmann Angela , de Bock Charles E. , Boulghourjian Alice , Zaratzian Anaiis , Carroll Susan , Toohey Joanne , O’Toole Sandra A. , Harris Adrian L , Buffa Francesca M. , Gee Harriet E. , Hollway Georgina E. , Molloy Timothy J.
Published: March 2023

Comparative genomics of predicted miR-139-5p binding sites across 15 eutherian mammals (A). Correlation between endogenous miR-139-5p expression and predicted targets in 207 primary BC tumors (B).
Figure S1 from miR-139-5p Modulates Radiotherapy Resistance in Breast Cancer by Repressing Multiple Gene Networks of DNA Repair and ROS Defense
Authors: Pajic Marina , Froio Danielle , Daly Sheridan , Doculara Louise , Millar Ewan , Graham Peter H. , Drury Alison , Steinmann Angela , de Bock Charles E. , Boulghourjian Alice , Zaratzian Anaiis , Carroll Susan , Toohey Joanne , O’Toole Sandra A. , Harris Adrian L , Buffa Francesca M. , Gee Harriet E. , Hollway Georgina E. , Molloy Timothy J.
Published: March 2023

miR-139-5p mimic transfection sensitized MCF7 cells to a fractionated radiation dose.
Figure S2 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 S2 shows that PTBP3 promotes EMT in breast cancer cells MCF7.
Supplementary figures from Metabolic Determinants of Sensitivity to Phosphatidylinositol 3-Kinase Pathway Inhibitor in Small-Cell Lung Carcinoma
Authors: Makinoshima Hideki , Umemura Shigeki , Suzuki Ayako , Nakanishi Hiroki , Maruyama Ami , Udagawa Hibiki , Mimaki Sachiyo , Matsumoto Shingo , Niho Seiji , Ishii Genichiro , Tsuboi Masahiro , Ochiai Atsushi , Esumi Hiroyasu , Sasaki Takehiko , Goto Koichi , Tsuchihara Katsuya
Published: March 2023

Supplementary Fig. S1. The mean baseline Levels of PIP3 (38:4) per mg tissue in xenograft models transplanted with SCLC cells Supplementary Fig. S2. Metabolic alteration in SCLC cells treated with gedatolisib in vitro and in vivo Supplementary Fig. S3. Comparative metabolic profiling in LAD and SCLC cell lines Supplementary Fig. S4. Gene expression alteration after treatment with PI3K/mTOR inhibitor Supplementary Fig. S5. Schematic diagram of metabolic linkage Supplementary Fig. S6. Addition of 5''-deoxy-5''-(methylthio)-adenosine (MTA) reversed drug sensitivity from a resistant to a sensitive phenotype Supplementary Fig. S7. HPRT1 expression was downregulated by an HPRT1-specific siRNA in SCLC cells
Supplementary Information from Metabolic Determinants of Sensitivity to Phosphatidylinositol 3-Kinase Pathway Inhibitor in Small-Cell Lung Carcinoma
Authors: Makinoshima Hideki , Umemura Shigeki , Suzuki Ayako , Nakanishi Hiroki , Maruyama Ami , Udagawa Hibiki , Mimaki Sachiyo , Matsumoto Shingo , Niho Seiji , Ishii Genichiro , Tsuboi Masahiro , Ochiai Atsushi , Esumi Hiroyasu , Sasaki Takehiko , Goto Koichi , Tsuchihara Katsuya
Published: March 2023

Supplemental Experimental Procedures
Supplementary Figures S1-S7 from Genetic Hitchhiking and Population Bottlenecks Contribute to Prostate Cancer Disparities in Men of African Descent
Authors: Lachance Joseph , Berens Ali J. , Hansen Matthew E.B. , Teng Andrew K. , Tishkoff Sarah A. , Rebbeck Timothy R.
Published: March 2023

Figure S1. Bioinformatics pipeline. Figure S2. Empirical vs. simulated genetic risk scores for each population. Figure S3. Many SNPs contribute to differences in risk on both a continental and subcontinental scale. Figure S4. Unweighted vs. weighted genetic risk scores for each population. Figure S5. Scans of selection in the 2q37 region. Figure S6. Scans of selection in the 22q13 region. Figure S7. Scans of selection in the 8q24 region.
Supplemental table description and figure legends from MYC Targeted Long Noncoding RNA DANCR Promotes Cancer in Part by Reducing p21 Levels
Authors: Lu Yunqi , Hu Zhongyi , Mangala Lingegowda S. , Stine Zachary E. , Hu Xiaowen , Jiang Dahai , Xiang Yan , Zhang Youyou , Pradeep Sunila , Rodriguez-Aguayo Cristian , Lopez-Berestein Gabriel , DeMarzo Angelo M. , Sood Anil K. , Zhang Lin , Dang Chi V.
Published: March 2023

Table S1. MYC-regulated genes in P493-6 cell line Table S2. MYC-regulated lncRNAs in P493-6 cell line Table S3. MYC-regulated lncRNAs in CCLE Table S4. GO analysis of genes that affected by DANCR knockdown in PC3 cells Table S5. Top 500 up-regulated and down-regulated genes by knockdown of DANCR in PC3 cells. Figure S1. The expression of DANCR is upregulated by MYC activation in P493-6 cells Figure S2. Human-mouse sequence alignment analysis of DANCR and mDancr Figure S3. The mRNA expression of the DANCR adjacent protein-coding genes in cells transduced with DANCR-specific siRNA Figure S4. Effects of two DANCR targeting antisense morpholinos on P493-6 cell proliferation and p21 expression.
Supplemental Table S5 from MYC Targeted Long Noncoding RNA DANCR Promotes Cancer in Part by Reducing p21 Levels
Authors: Lu Yunqi , Hu Zhongyi , Mangala Lingegowda S. , Stine Zachary E. , Hu Xiaowen , Jiang Dahai , Xiang Yan , Zhang Youyou , Pradeep Sunila , Rodriguez-Aguayo Cristian , Lopez-Berestein Gabriel , DeMarzo Angelo M. , Sood Anil K. , Zhang Lin , Dang Chi V.
Published: March 2023

Table S5. Top 500 up-regulated and down-regulated genes by knockdown of DANCR in PC3 cells. Table S5 lists expression profiles of genes altered by knockdown of DANCR.
Figure S1-S4, Table S1 from Human Elongation Factor 4 Regulates Cancer Bioenergetics by Acting as a Mitochondrial Translation Switch
Authors: Zhu Ping , Liu Yongzhang , Zhang Fenglin , Bai Xiufeng , Chen Zilei , Shangguan Fugen , Zhang Bo , Zhang Lingyun , Chen Qianqian , Xie Deyao , Lan Linhua , Xue Xiangdong , Liang Xing-Jie , Lu Bin , Wei Taotao , Qin Yan
Published: March 2023

Supplementary Figures and Tables show high expression of EF4 in cancer cells, when silence its expression induces apoptosis in various cancers.
Supplemental Table S4 from MYC Targeted Long Noncoding RNA DANCR Promotes Cancer in Part by Reducing p21 Levels
Authors: Lu Yunqi , Hu Zhongyi , Mangala Lingegowda S. , Stine Zachary E. , Hu Xiaowen , Jiang Dahai , Xiang Yan , Zhang Youyou , Pradeep Sunila , Rodriguez-Aguayo Cristian , Lopez-Berestein Gabriel , DeMarzo Angelo M. , Sood Anil K. , Zhang Lin , Dang Chi V.
Published: March 2023

Table S4. GO analysis of genes that affected by DANCR knockdown in PC3 cells Table S4 provides gene ontology (GO) analysis of genes whose expression were altered by lncRNA DANCR knockdown.
Supplemental Table S3 from MYC Targeted Long Noncoding RNA DANCR Promotes Cancer in Part by Reducing p21 Levels
Authors: Lu Yunqi , Hu Zhongyi , Mangala Lingegowda S. , Stine Zachary E. , Hu Xiaowen , Jiang Dahai , Xiang Yan , Zhang Youyou , Pradeep Sunila , Rodriguez-Aguayo Cristian , Lopez-Berestein Gabriel , DeMarzo Angelo M. , Sood Anil K. , Zhang Lin , Dang Chi V.
Published: March 2023

Table S3. MYC-regulated lncRNAs in CCLE Table S3 displays expression levels of lncRNAs, which were regulated by MYC in the P493-6 cell line, across the collection of cell lines in the Cancer Cell Line Encyclopedia (CCLE).
Raw proteome dataset from Lapatinib Resistance in Breast Cancer Cells Is Accompanied by Phosphorylation-Mediated Reprogramming of Glycolysis
Authors: Ruprecht Benjamin , Zaal Esther A. , Zecha Jana , Wu Wei , Berkers Celia R. , Kuster Bernhard , Lemeer Simone
Published: March 2023

Proteome abundance dataset containing raw MaxQuant output.
Raw phosphoproteome dataset from Lapatinib Resistance in Breast Cancer Cells Is Accompanied by Phosphorylation-Mediated Reprogramming of Glycolysis
Authors: Ruprecht Benjamin , Zaal Esther A. , Zecha Jana , Wu Wei , Berkers Celia R. , Kuster Bernhard , Lemeer Simone
Published: March 2023

Phosphorylation site abundance dataset containing raw MaxQuant output data.
Supplementary Data from Fc-Mediated Anomalous Biodistribution of Therapeutic Antibodies in Immunodeficient Mouse Models
Authors: Sharma Sai Kiran , Chow Andrew , Monette Sebastien , Vivier Delphine , Pourat Jacob , Edwards Kimberly J. , Dilling Thomas R. , Abdel-Atti Dalya , Zeglis Brian M. , Poirier John T. , Lewis Jason S.
Published: March 2023

This file contains additional details of the experimental methods that were used and briefly described in the main text. It also provides numerical values for the antibody uptake in various organs that have been presented as graphs in figures 1 through 5 in the results section of the manuscript.
Kinome dataset from Lapatinib Resistance in Breast Cancer Cells Is Accompanied by Phosphorylation-Mediated Reprogramming of Glycolysis
Authors: Ruprecht Benjamin , Zaal Esther A. , Zecha Jana , Wu Wei , Berkers Celia R. , Kuster Bernhard , Lemeer Simone
Published: March 2023

Kinome abundance dataset containing MaxQuant output for raw chemoproteomic data; the processed and filtered protein kinase dataset and the merged abundance of protein kinases identified in full and chemoproteome datasets.
Supplemental Methods-References-Tables 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

Detailed supplemental methods and key references are provided. Tables S1-S2-S3-S4 provide antibody information, mouse study design information, PCR primer information, and an abbreviations list, respectively.
Figures S5-S6 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 S5-S6 provide additional evidence that Snail malignantly transforms epithelial cells in vitro. Information on the mutational background and stem phenotype of the cells transformed by Snail is provided.
Table 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

Hematology analysis
Figure S8 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

Figure S8 provides evidence that ESRP1 loss alone (without Snail expression) is not sufficient to transform epithelial cells in vitro.
Table S1 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

Univariate Cox regression analysis for progression free survival and overall survival
Supplementary Figure S6 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

CD163 expression in and around tumor nodule. Immunohistochemistry for CD163 in tumor nodule from WT mice was presented.
Supplementary Figure S4 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

Microenvironment of tumor tissues. Immunohistochemistry for EMR1, CD31, CD4, CD8, and Ki67 were performed in tumor samples from WT and CD163-/- mice transplanted with MCA205 and LM8, and representative data were presented.
Supplementary Figure S3 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

The phenotype of macrophages in WT and CD163-/- mice. The expression of CD163 and CD204 was detected in peritoneal macrophages by western blot analysis (A). The expressions of EMR1, CD163, CD204, and CD206 were tested in several tissues by immunohistochemistry (B).
Supplementary Tables from slan+ Monocytes and Macrophages Mediate CD20-Dependent B-cell Lymphoma Elimination via ADCC and ADCP
Authors: Vermi William , Micheletti Alessandra , Finotti Giulia , Tecchio Cristina , Calzetti Federica , Costa Sara , Bugatti Mattia , Calza Stefano , Agostinelli Claudio , Pileri Stefano , Balzarini Piera , Tucci Alessandra , Rossi Giuseppe , Furlani Lara , Todeschini Giuseppe , Zamò Alberto , Facchetti Fabio , Lorenzi Luisa , Lonardi Silvia , Cassatella Marco A.
Published: March 2023

10 Tables displaying the clinical features of patient cohorts analyzed in this study, as well as correlation analyses among the clinical features and slan+ cell content.
Supplementary Figure S1 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

Immunohistochemistry of CD68, Iba1, and CD163. Bizarre multinucleate giant tumor cells are positive for CD68, however, negative for Iba1 and CD163. In addition, CD68 expression in TAMs were reduced and unclear to be detected.
Supplemental Figures from CXCL12γ Promotes Metastatic Castration-Resistant Prostate Cancer by Inducing Cancer Stem Cell and Neuroendocrine Phenotypes
Authors: Jung Younghun , Cackowski Frank C. , Yumoto Kenji , Decker Ann M. , Wang Jingcheng , Kim Jin Koo , Lee Eunsohl , Wang Yugang , Chung Jae-Seung , Gursky Amy M. , Krebsbach Paul H. , Pienta Kenneth J. , Morgan Todd M. , Taichman Russell S.
Published: March 2023

Supplemental Figure 1: Small cell carcinoma in PCa patient tissues. Supplemental Figure 2: Metastatic potential of CXCL12 γ expression in PCa cells and CXCL12 γ expression in normal human and mouse tissues. Supplemental Figure 3: CXCL12 γ induces CSCs, which promotes BCa tumor growth. Supplemental Figure 4: CXCL12 γ induces a NE phenotype in BCa cells. Supplemental Figure 5: Regression analyses of ENO2 mRNA expression and serum Enolase 2/NSE, Chromogranin A, and PSA in m-CRPC patients. Supplemental Figure 6: CSCs in NE PCa cells and The role of CXCL12 γ in AR-dependent PCa cells. Supplemental Figure 7: CXCL12 γ contributes activation of CXCR4-mediated PKC α /NF κ B signaling in CSC and NE inductions in BCa cells.
Figure S4 from Photodynamic Priming Mitigates Chemotherapeutic Selection Pressures and Improves Drug Delivery
Authors: Huang Huang-Chiao , Rizvi Imran , Liu Joyce , Anbil Sriram , Kalra Ashish , Lee Helen , Baglo Yan , Paz Nancy , Hayden Douglas , Pereira Steve , Pogue Brian W. , Fitzgerald Jonathan , Hasan Tayyaba
Published: March 2023

Combination of PDP and a single cycle of na-IRI did not achieve long-term survivial benefit. Kaplan-Meier plot of animal overall survival.
Supplemental Figure Legends from CXCL12γ Promotes Metastatic Castration-Resistant Prostate Cancer by Inducing Cancer Stem Cell and Neuroendocrine Phenotypes
Authors: Jung Younghun , Cackowski Frank C. , Yumoto Kenji , Decker Ann M. , Wang Jingcheng , Kim Jin Koo , Lee Eunsohl , Wang Yugang , Chung Jae-Seung , Gursky Amy M. , Krebsbach Paul H. , Pienta Kenneth J. , Morgan Todd M. , Taichman Russell S.
Published: March 2023

Figure Legends
Figure S3 from Photodynamic Priming Mitigates Chemotherapeutic Selection Pressures and Improves Drug Delivery
Authors: Huang Huang-Chiao , Rizvi Imran , Liu Joyce , Anbil Sriram , Kalra Ashish , Lee Helen , Baglo Yan , Paz Nancy , Hayden Douglas , Pereira Steve , Pogue Brian W. , Fitzgerald Jonathan , Hasan Tayyaba
Published: March 2023

Relationship between primary tumour weight and distant metastatic burden during disease progression.
Supplementary Figures S1-S6 from NKG2D-Based CAR T Cells and Radiotherapy Exert Synergistic Efficacy in Glioblastoma
Authors: Weiss Tobias , Weller Michael , Guckenberger Matthias , Sentman Charles L. , Roth Patrick
Published: March 2023

Fig S1: NKG2D expression in transduced splenocytes Fig S2: Homing of intravenous administered wtNKG2D T cells to the tumor site Fig S3: FACS Gating strategy Fig S4: Expression of NKG2DL in normal tissue Fig S5: Antigen-specific function of brain-resident T cells Fig S6: Irradiation induces NKG2DL and enhances IFN-y expression in vivo
Figure S2 from Photodynamic Priming Mitigates Chemotherapeutic Selection Pressures and Improves Drug Delivery
Authors: Huang Huang-Chiao , Rizvi Imran , Liu Joyce , Anbil Sriram , Kalra Ashish , Lee Helen , Baglo Yan , Paz Nancy , Hayden Douglas , Pereira Steve , Pogue Brian W. , Fitzgerald Jonathan , Hasan Tayyaba
Published: March 2023

Sub-tumouricidal PDP does not increase systemic toxicity of chemotherapy. Changes in mouse body weight were monitored longitudinally before and after treatment.
Figure S1 from Photodynamic Priming Mitigates Chemotherapeutic Selection Pressures and Improves Drug Delivery
Authors: Huang Huang-Chiao , Rizvi Imran , Liu Joyce , Anbil Sriram , Kalra Ashish , Lee Helen , Baglo Yan , Paz Nancy , Hayden Douglas , Pereira Steve , Pogue Brian W. , Fitzgerald Jonathan , Hasan Tayyaba
Published: March 2023

The effect of combination PDP and nal-IRI on tumour growth inhibition is synergistic in orthotopic MIA PaCa-2 mouse model.
Supplementary method from LSR Antibody Therapy Inhibits Ovarian Epithelial Tumor Growth by Inhibiting Lipid Uptake
Authors: Hiramatsu Kosuke , Serada Satoshi , Enomoto Takayuki , Takahashi Yusuke , Nakagawa Satoshi , Nojima Satoshi , Morimoto Akiko , Matsuzaki Shinya , Yokoyama Takuhei , Takahashi Tsuyoshi , Fujimoto Minoru , Takemori Hiroshi , Ueda Yutaka , Yoshino Kiyoshi , Morii Eiichi , Kimura Tadashi , Naka Tetsuji
Published: March 2023

This article shows how to product anti-LSR antibody
Supplementary Table S4 from LSR Antibody Therapy Inhibits Ovarian Epithelial Tumor Growth by Inhibiting Lipid Uptake
Authors: Hiramatsu Kosuke , Serada Satoshi , Enomoto Takayuki , Takahashi Yusuke , Nakagawa Satoshi , Nojima Satoshi , Morimoto Akiko , Matsuzaki Shinya , Yokoyama Takuhei , Takahashi Tsuyoshi , Fujimoto Minoru , Takemori Hiroshi , Ueda Yutaka , Yoshino Kiyoshi , Morii Eiichi , Kimura Tadashi , Naka Tetsuji
Published: March 2023

This table shows no toxicity of anti-hLSR mAb in mice
Supplementary Table S2 and S3 from LSR Antibody Therapy Inhibits Ovarian Epithelial Tumor Growth by Inhibiting Lipid Uptake
Authors: Hiramatsu Kosuke , Serada Satoshi , Enomoto Takayuki , Takahashi Yusuke , Nakagawa Satoshi , Nojima Satoshi , Morimoto Akiko , Matsuzaki Shinya , Yokoyama Takuhei , Takahashi Tsuyoshi , Fujimoto Minoru , Takemori Hiroshi , Ueda Yutaka , Yoshino Kiyoshi , Morii Eiichi , Kimura Tadashi , Naka Tetsuji
Published: March 2023

These tables shows LSR immunostaining distribution of patients with ovarian serous carcinoma (Table S2) and clear cell carcinoma (Table S3)
Supplementary Materials and Methods from Small-Molecule Activators of Protein Phosphatase 2A for the Treatment of Castration-Resistant Prostate Cancer
Authors: McClinch Kimberly , Avelar Rita A. , Callejas David , Izadmehr Sudeh , Wiredja Danica , Perl Abbey , Sangodkar Jaya , Kastrinsky David B. , Schlatzer Daniela , Cooper Maxwell , Kiselar Janna , Stachnik Agnes , Yao Shen , Hoon Divya , McQuaid Daniel , Zaware Nilesh , Gong Yixuan , Brautigan David L. , Plymate Stephen R. , Sprenger Cynthia C.T. , Oh William K. , Levine Alice C. , Kirschenbaum Alexander , Sfakianos John P. , Sears Rosalie , DiFeo Analisa , Ioannou Yiannis , Ohlmeyer Michael , Narla Goutham , Galsky Matthew D.
Published: March 2023

Antibody information and primer sequences.
Supplemental Tables S1-S19. from Small-Molecule Activators of Protein Phosphatase 2A for the Treatment of Castration-Resistant Prostate Cancer
Authors: McClinch Kimberly , Avelar Rita A. , Callejas David , Izadmehr Sudeh , Wiredja Danica , Perl Abbey , Sangodkar Jaya , Kastrinsky David B. , Schlatzer Daniela , Cooper Maxwell , Kiselar Janna , Stachnik Agnes , Yao Shen , Hoon Divya , McQuaid Daniel , Zaware Nilesh , Gong Yixuan , Brautigan David L. , Plymate Stephen R. , Sprenger Cynthia C.T. , Oh William K. , Levine Alice C. , Kirschenbaum Alexander , Sfakianos John P. , Sears Rosalie , DiFeo Analisa , Ioannou Yiannis , Ohlmeyer Michael , Narla Goutham , Galsky Matthew D.
Published: March 2023

Table S1. KSEA Analysis and the Mean FC Method in LNCaP treated with SMAP. Table S2. ANOVA with multiple comparisons and Dunnett''s post-hoc test for SMAP treated LNCaP colony formation assay. Table S3. ANOVA with multiple comparisons and Dunnett''s post-hoc test for SMAP treated 22Rv1 colony formation assay. Table S4. ANOVA with multiple comparisons and Dunnett''s post-hoc test for Annexin V staining of LNCap and 22Rv1 cells. Table S5. PPI of the phosphoproteomics dataset. Table S6. Kinase Substrate Database for LNCaP treated with SMAP. Table S7. ANOVA with multiple comparisons and Tukey''s post-hoc test for SMAP treatment in LNCaP cells phosphorylated to total AR ratio protein. Table S8. ANOVA for qRT-PCR RNA for AR targets in LNCaP and 22Rv1 cells in presence of SMAPs. Table S9. ANOVA with multiple comparisons and Dunnett''s post-hoc test for LNCaP and 22Rv1 cells treated with SMAP, bortezomib, and combination. Table S10. ANOVA with multiple comparisons and Tukey''s post-hoc test for relative AR protein expression in LNCaP- Small T stably expressing lines treated with SMAP. Table S11. ANOVA with multiple comparisons and Tukey''s post-hoc test for relative AR protein expression in LNCaP cells in FBS or CSS in presence or absence of R1881. Table S12. ANOVA for qRT-PCR RNA AR targets statistical analysis for LNCaP cells in FBS or CSS in presence or absence of R1881. Table S13. ANOVA with multiple comparisons and Dunnett''s post-hoc test for LnCaP/AR xenograft treatment study: vehicle control, SMAP 400mg/kg, SMAP 100mg/kg and MDV3100 100mg/kg. Table S14. ANOVA with multiple comparisons and Dunnett''s post-hoc test for castrated LNCaP/AR tumor volumes for individual treatments groups: Vehicle control, SMAP-2 100mg/kg and SMAP-2 30mg/kg. Table S15. ANOVA with multiple comparisons and Dunnett''s post-hoc test for TUNEL positive staining quantification from castrated LNCaP/AR tumors from individual treatments groups: Vehicle control, SMAP-2 30mg/kg and SMAP-2 100mg/kg. Table S16. ANOVA with multiple comparisons and Dunnett''s post-hoc test for PCNA positive staining quantification from castrated LNCaP/AR for individual treatments groups: Vehicle control, SMAP-2 100mg/kg and SMAP-2 30mg/kg.
Supplementary Figure S4 from LSR Antibody Therapy Inhibits Ovarian Epithelial Tumor Growth by Inhibiting Lipid Uptake
Authors: Hiramatsu Kosuke , Serada Satoshi , Enomoto Takayuki , Takahashi Yusuke , Nakagawa Satoshi , Nojima Satoshi , Morimoto Akiko , Matsuzaki Shinya , Yokoyama Takuhei , Takahashi Tsuyoshi , Fujimoto Minoru , Takemori Hiroshi , Ueda Yutaka , Yoshino Kiyoshi , Morii Eiichi , Kimura Tadashi , Naka Tetsuji
Published: March 2023

Thsi figure shows low expression of hLSR and no toxicity of newly developed anti-hLSR mAb in normal human and mouse tissues.
Supplementary Figure S3 from LSR Antibody Therapy Inhibits Ovarian Epithelial Tumor Growth by Inhibiting Lipid Uptake
Authors: Hiramatsu Kosuke , Serada Satoshi , Enomoto Takayuki , Takahashi Yusuke , Nakagawa Satoshi , Nojima Satoshi , Morimoto Akiko , Matsuzaki Shinya , Yokoyama Takuhei , Takahashi Tsuyoshi , Fujimoto Minoru , Takemori Hiroshi , Ueda Yutaka , Yoshino Kiyoshi , Morii Eiichi , Kimura Tadashi , Naka Tetsuji
Published: March 2023

This Figure shows lipid droplets in LSR-positive OVCAR3 xenograft tissues by electron microscopy
Figure S1-S5. from Small-Molecule Activators of Protein Phosphatase 2A for the Treatment of Castration-Resistant Prostate Cancer
Authors: McClinch Kimberly , Avelar Rita A. , Callejas David , Izadmehr Sudeh , Wiredja Danica , Perl Abbey , Sangodkar Jaya , Kastrinsky David B. , Schlatzer Daniela , Cooper Maxwell , Kiselar Janna , Stachnik Agnes , Yao Shen , Hoon Divya , McQuaid Daniel , Zaware Nilesh , Gong Yixuan , Brautigan David L. , Plymate Stephen R. , Sprenger Cynthia C.T. , Oh William K. , Levine Alice C. , Kirschenbaum Alexander , Sfakianos John P. , Sears Rosalie , DiFeo Analisa , Ioannou Yiannis , Ohlmeyer Michael , Narla Goutham , Galsky Matthew D.
Published: March 2023

Supplemental Figure 1. Comparison of the anti-proliferative activity of SMAP across a panel of cell lines. Supplemental Figure 2. The chemical structure of SMAPs utilized in the studies detailed in the manuscript. Supplemental Figure 3. The effects of SMAPs on cell proliferation and cell survival. Supplemental Figure 4. Control studies for co-immunoprecipitation experiments. Supplemental Figure 5. Activity of SMAPs in vivo with the correlation of anti-tumor activity with SMAP-2 exposure in serum of treated mice.
Supplementary Figure S1 from LSR Antibody Therapy Inhibits Ovarian Epithelial Tumor Growth by Inhibiting Lipid Uptake
Authors: Hiramatsu Kosuke , Serada Satoshi , Enomoto Takayuki , Takahashi Yusuke , Nakagawa Satoshi , Nojima Satoshi , Morimoto Akiko , Matsuzaki Shinya , Yokoyama Takuhei , Takahashi Tsuyoshi , Fujimoto Minoru , Takemori Hiroshi , Ueda Yutaka , Yoshino Kiyoshi , Morii Eiichi , Kimura Tadashi , Naka Tetsuji
Published: March 2023

This figure shows binding of newly developed anti-hLSR monoclonal antibody to cell surface LSR.