bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Video Legend from The Heterochronic microRNA let-7 Inhibits Cell Motility by Regulating the Genes in the Actin Cytoskeleton Pathway in Breast Cancer
Authors: Hu Xiaowen , Guo Jinyi , Zheng Lan , Li Chunsheng , Zheng Tim M. , Tanyi Janos L. , Liang Shun , Benedetto Chiara , Mitidieri Marco , Katsaros Dionyssios , Zhao Xia , Zhang Youcheng , Huang Qihong , Zhang Lin
Published: April 2023

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Supplementary Table 2 from Primary Glioblastomas Express Mesenchymal Stem-Like Properties
Authors: Tso Cho-Lea , Shintaku Peter , Chen James , Liu Qinghai , Liu Jason , Chen Zugen , Yoshimoto Koji , Mischel Paul S. , Cloughesy Timothy F. , Liau Linda M. , Nelson Stanley F.
Published: April 2023

Supplementary Table 2 from Primary Glioblastomas Express Mesenchymal Stem-Like Properties
Supplementary Table 1 from Primary Glioblastomas Express Mesenchymal Stem-Like Properties
Authors: Tso Cho-Lea , Shintaku Peter , Chen James , Liu Qinghai , Liu Jason , Chen Zugen , Yoshimoto Koji , Mischel Paul S. , Cloughesy Timothy F. , Liau Linda M. , Nelson Stanley F.
Published: April 2023

Supplementary Table 1 from Primary Glioblastomas Express Mesenchymal Stem-Like Properties
Supplementary Figure S1 from Endogenous γ-H2AX-ATM-Chk2 Checkpoint Activation in Bloom's Syndrome Helicase–Deficient Cells Is Related to DNA Replication Arrested Forks
Authors: Rao V. Ashutosh , Conti Chiara , Guirouilh-Barbat Josee , Nakamura Asako , Miao Ze-Hong , Davies Sally L. , Saccá Barbara , Hickson Ian D. , Bensimon Aaron , Pommier Yves
Published: April 2023

Supplementary Figure S1 from Endogenous γ-H2AX-ATM-Chk2 Checkpoint Activation in Bloom's Syndrome Helicase–Deficient Cells Is Related to DNA Replication Arrested Forks
Supplementary Figures & Legends from Meta-Analysis and Systematic Review of the Genomics of Mucosal Melanoma
Authors: Broit Natasa , Johansson Peter A. , Rodgers Chloe B. , Walpole Sebastian T. , Newell Felicity , Hayward Nicholas K. , Pritchard Antonia L.
Published: April 2023

Supplementary Figures 1-8 and corresponding figure legends
Supplementary Tables 1-3 from RAF-Mutant Melanomas Differentially Depend on ERK2 Over ERK1 to Support Aberrant MAPK Pathway Activation and Cell Proliferation
Authors: Crowe Matthew S. , Zavorotinskaya Tatiana , Voliva Charles F. , Shirley Matthew D. , Wang Yanqun , Ruddy David A. , Rakiec Daniel P. , Engelman Jeffery A. , Stuart Darrin D. , Freeman Alyson K.
Published: April 2023

Supplementary Table S1 contains contingency tables used for Fisher's Exact Test to determine enrichment of binary features in genetic dependency profiles for BRAF, MAPK1 (ERK2), and MAPK3 (ERK1) by BRAFV600 mutation status from three independent screens: DRIVE, ACHILLES, and AVANA. Supplementary Table S2 contains genetic dependency scores for BRAF, MAPK1 (ERK2), and MAPK3 (ERK1) in all BRAF-mutant melanoma cell lines included in three independent screens: DRIVE, ACHILLES, and AVANA. Supplementary Table S3 contains gene set enrichment analysis of RNAseq data from A375 cells with ERK1 or ERK2 knockdown.
Supplementary Legends from RAF-Mutant Melanomas Differentially Depend on ERK2 Over ERK1 to Support Aberrant MAPK Pathway Activation and Cell Proliferation
Authors: Crowe Matthew S. , Zavorotinskaya Tatiana , Voliva Charles F. , Shirley Matthew D. , Wang Yanqun , Ruddy David A. , Rakiec Daniel P. , Engelman Jeffery A. , Stuart Darrin D. , Freeman Alyson K.
Published: April 2023

All supplementary figure and table titles and legends.
Supplementary Movie 1 from SPANX Control of Lamin A/C Modulates Nuclear Architecture and Promotes Melanoma Growth
Authors: Lazar Ikrame , Fabre Bertrand , Feng Yongmei , Khateb Ali , Turko Patrick , Martinez Gomez Julia M. , Frederick Dennie T. , Levesque Mitchell P. , Feld Lea , Zhang Gao , Zhang Tongwu , James Brian , Shklover Jeny , Avitan-Hersh Emily , Livneh Ido , Scortegagna Marzia , Brown Kevin , Larsson Ola , Topisirovic Ivan , Wolfenson Haguy , Herlyn Meenhard , Flaherty Keith , Dummer Reinhard , Ronai Ze'ev A.
Published: April 2023

Supplementary Movie S1 - 3D representation around the Y axis of A375 cell nucleus
Figure S2: Optimizing 5-Aza dosage regimen in wild-type TF1. from 5-Azacytidine Transiently Restores Dysregulated Erythroid Differentiation Gene Expression in TET2-Deficient Erythroleukemia Cells
Authors: Reilly Brian M. , Luger Timothy , Park Soo , Lio Chan-Wang Jerry , González-Avalos Edahí , Wheeler Emily C. , Lee Minjung , Williamson Laura , Tanaka Tiffany , Diep Dinh , Zhang Kun , Huang Yun , Rao Anjana , Bejar Rafael
Published: April 2023

A) Dose-response curve of wild-type TF1 cell viability for three different lengths of 5-Aza treatments (1 dose per day for a total length of treatment between 1 and 3 days). Points represent replicates per condition, shaded region corresponds to 95% confidence band estimated by 4 parameter logistic regression model (EC50 and slope as parameter and lower bounded at zero; modeled with R package "drc"). B) Dose-response of DNMT1 downregulation 24 hours after the indicated 5-Aza dose. C) Time course of DNMT1 downregulation following the indicated dosage schedules.
Supplementary Figures 1-3 from Proteomic Analysis of Src Family Kinase Phosphorylation States in Cancer Cells Suggests Deregulation of the Unique Domain
Authors: Ruiz-Saenz Ana , Zahedi Farima , Peterson Elliott , Yoo Ashley , Dreyer Courtney A. , Spassov Danislav S. , Oses-Prieto Juan , Burlingame Alma , Moasser Mark M.
Published: April 2023

All supplementary figures
Table S2 from NF-κB Blockade with Oral Administration of Dimethylaminoparthenolide (DMAPT), Delays Prostate Cancer Resistance to Androgen Receptor (AR) Inhibition and Inhibits AR Variants
Authors: Morel Katherine L. , Hamid Anis A. , Clohessy John G. , Pandell Nicole , Ellis Leigh , Sweeney Christopher J.
Published: April 2023

List of antibodies.
Table S2 from Chemical Screen Identifies Diverse and Novel Histone Deacetylase Inhibitors as Repressors of NUT Function: Implications for NUT Carcinoma Pathogenesis and Treatment
Authors: Shiota Hitoshi , Alekseyenko Artyom A. , Wang Zhipeng A. , Filic Ivona , Knox Tatiana M. , Luong Nhi M. , Huang Yeying , Scott David A. , Jones Kristen L. , Gokhale Prafulla C. , Lemieux Madeleine E. , Cole Philip A. , Kuroda Mitzi I. , French Christopher A.
Published: April 2023

Supplemental Table
Table S1 from NF-κB Blockade with Oral Administration of Dimethylaminoparthenolide (DMAPT), Delays Prostate Cancer Resistance to Androgen Receptor (AR) Inhibition and Inhibits AR Variants
Authors: Morel Katherine L. , Hamid Anis A. , Clohessy John G. , Pandell Nicole , Ellis Leigh , Sweeney Christopher J.
Published: April 2023

List of qPCR primers.
Supplementary Methods from Chemical Screen Identifies Diverse and Novel Histone Deacetylase Inhibitors as Repressors of NUT Function: Implications for NUT Carcinoma Pathogenesis and Treatment
Authors: Shiota Hitoshi , Alekseyenko Artyom A. , Wang Zhipeng A. , Filic Ivona , Knox Tatiana M. , Luong Nhi M. , Huang Yeying , Scott David A. , Jones Kristen L. , Gokhale Prafulla C. , Lemieux Madeleine E. , Cole Philip A. , Kuroda Mitzi I. , French Christopher A.
Published: April 2023

Supplementary Methods
Table S4 from The Epithelial–Stromal Microenvironment in Early Colonic Neoplasia
Authors: Ideta Takayasu , Li Boyang , Flynn Christopher , Igarashi Yuichi , Lowman Geoffrey , Looney Tim , Devers Thomas J. , Birk John , Forouhar Faripour , Giardina Charles , Rosenberg Daniel W.
Published: April 2023

Raw expression counts matrix from both replicates and sample information
Supplementary excel file from Transcriptomic Analysis of Diffuse Intrinsic Pontine Glioma (DIPG) Identifies a Targetable ALDH-Positive Subset of Highly Tumorigenic Cancer Stem-like Cells
Authors: Surowiec Rachel K. , Ferris Sarah F. , Apfelbaum April , Espinoza Carlos , Mehta Ranjit K. , Monchamp Karamoja , Sirihorachai Veerin R. , Bedi Karan , Ljungman Mats , Galban Stefanie
Published: April 2023

Combined pathway analyses of sequencing data
Table S2 from The Epithelial–Stromal Microenvironment in Early Colonic Neoplasia
Authors: Ideta Takayasu , Li Boyang , Flynn Christopher , Igarashi Yuichi , Lowman Geoffrey , Looney Tim , Devers Thomas J. , Birk John , Forouhar Faripour , Giardina Charles , Rosenberg Daniel W.
Published: April 2023

Supplemental Table S2: The synchronous polyp data in proximal colon
Supplementary Figures 1-7 & Supplementary Tables 1-4 from Transcriptomic Analysis of Diffuse Intrinsic Pontine Glioma (DIPG) Identifies a Targetable ALDH-Positive Subset of Highly Tumorigenic Cancer Stem-like Cells
Authors: Surowiec Rachel K. , Ferris Sarah F. , Apfelbaum April , Espinoza Carlos , Mehta Ranjit K. , Monchamp Karamoja , Sirihorachai Veerin R. , Bedi Karan , Ljungman Mats , Galban Stefanie
Published: April 2023

Supplemental Figure S1. FACS analysis of Aldefluor stained SU-DIPG XIII cells. Supplemental Figure S2: Downstream signaling changes by inhibition of MAPK and PI3K/mTOR in DIPG cells. Supplemental Figure S3. Bru-sequencing transcriptome analysis identifies gene sets regulated by MAPK and PI3K/mTOR inhibition in ALDH positive SU-DIPG XIII cells. Supplemental Figure S4. A-C. Heatmaps of Bru-seq RPKM values in single agent treated (901 or GSK) ALDH+ SU-DIPG XII cells highlight treatment effects on "stemness" and DDR genes. Supplemental Figure S5: A.-B. Illustrative result of BOILED-Egg predictive model for GSK-458 and GDC-0084, respectively. Supplemental Figure S6: A-C. SU-DIPG-XIII cells were Aldefluor stained and sorted into an ALDH+ and ALDH- population. Supplemental Figure S7: A. Aldefluor stain and FACS of SU-DIPG XIII cells. B. ALDH+ cells were treated with 50 nM 901+GSK each and 24 hrs later Aldefluor re-stained and analyzed by flow cytometry. Table S1. Characteristics of Patient-Derived Diffuse Intrinsic Pontine Glioma (DIPG) Cells. Table S2. Selected Genes Upregulated in ALDH+ DIPG cells Table S3. Selected Metabolome Genes Upregulated in ALDH+ DIPG Cells. Table S4. RT-qPCR primer sequences.
Figure S3 from The Epithelial–Stromal Microenvironment in Early Colonic Neoplasia
Authors: Ideta Takayasu , Li Boyang , Flynn Christopher , Igarashi Yuichi , Lowman Geoffrey , Looney Tim , Devers Thomas J. , Birk John , Forouhar Faripour , Giardina Charles , Rosenberg Daniel W.
Published: April 2023

Supplemental Figure S3. Expression of differentially expressed genes identified in epithelial samples. (A) 38 up-regulated genes. (B) 50 down-regulated genes
Figure S2 from The Epithelial–Stromal Microenvironment in Early Colonic Neoplasia
Authors: Ideta Takayasu , Li Boyang , Flynn Christopher , Igarashi Yuichi , Lowman Geoffrey , Looney Tim , Devers Thomas J. , Birk John , Forouhar Faripour , Giardina Charles , Rosenberg Daniel W.
Published: April 2023

Supplemental Figure S2. Heatmap of differentially expressed genes. (A) Heatmap of 88 differentially expressed genes in normal (left) and ACF (right) epithelial samples. (B) Heatmap of 82 differentially expressed genes in normal (left) and ACF (right) stromal samples
Supplementary Data, Supplementary Figures 1 and 2, Supplementary Tables 1-6 from Radium-223–Induced Bystander Effects Cause DNA Damage and Apoptosis in Disseminated Tumor Cells in Bone Marrow
Authors: Canter Brian S. , Leung Calvin N. , Fritton J. Christopher , Bäck Tom , Rajon Didier , Azzam Edouard I. , Howell Roger W.
Published: April 2023

Supplementary Figure S1. Estimating regional tumor volume within transverse sections. Table S1. Tumor dimensions of the human breast cancer cells inoculated into tibiae Supplementary Figure S2. Clonogenic survival of alpha-particle irradiated MDA-MB-231 (solid line) and MCF-7 (dashed line) human breast cancer cells. Table S2. Statistical significance within treatment groups and timepoints forpercentage ofcells withone or more y-H2AX foci Table S3. Statistical significance within treatment groups and timepoints for percentage of bystander cancer cells with 0, 1-2, 3-5 and 5+ y-H2AX foci Table S4. Statistical significance within treatment groups and timepoints for percentage of irradiated cancer cells with 0, 1-2, 3-5 and 5+ y-H2AX foci Table S5. Statistical significance within treatment groups and timepoints for percentage of osteocyte cells with 0, 1-2, 3-5 and 5+ y-H2AX foci Table S6. Statistical significance within treatment groups and timepoints for percentage of cells that are TUNEL+.
Table S1 from p53 Is Not Required for High CIN to Induce Tumor Suppression
Authors: Funk Laura C. , Wan Jun , Ryan Sean D. , Kaur Charanjeet , Sullivan Ruth , Roopra Avtar , Weaver Beth A.
Published: April 2023

Table S1 shows expected and observed birth frequencies.
Supplementary Table 1 from Comprehensive Molecular Profiling of Desmoplastic Small Round Cell Tumor
Authors: Slotkin Emily K. , Bowman Anita S. , Levine Max F. , Dela Cruz Filemon , Coutinho Diego F. , Sanchez Glorymar I. , Rosales Nestor , Modak Shakeel , Tap William D. , Gounder Mrinal M. , Thornton Katherine A. , Bouvier Nancy , You Daoqi , Gundem Gunes , Gerstle Justin T. , Heaton Todd E. , LaQuaglia Michael P. , Wexler Leonard H. , Meyers Paul A. , Kung Andrew L. , Papaemmanuil Elli , Zehir Ahmet , Ladanyi Marc , Shukla Neerav
Published: April 2023

Supplementary Table 1 shows point mutations found in DSRCT samples
Supplementary Figure 2 from Comprehensive Molecular Profiling of Desmoplastic Small Round Cell Tumor
Authors: Slotkin Emily K. , Bowman Anita S. , Levine Max F. , Dela Cruz Filemon , Coutinho Diego F. , Sanchez Glorymar I. , Rosales Nestor , Modak Shakeel , Tap William D. , Gounder Mrinal M. , Thornton Katherine A. , Bouvier Nancy , You Daoqi , Gundem Gunes , Gerstle Justin T. , Heaton Todd E. , LaQuaglia Michael P. , Wexler Leonard H. , Meyers Paul A. , Kung Andrew L. , Papaemmanuil Elli , Zehir Ahmet , Ladanyi Marc , Shukla Neerav
Published: April 2023

Supplementary Figure 2 depicts whole genome sequencing findings
Supplementary Figure 1 from Comprehensive Molecular Profiling of Desmoplastic Small Round Cell Tumor
Authors: Slotkin Emily K. , Bowman Anita S. , Levine Max F. , Dela Cruz Filemon , Coutinho Diego F. , Sanchez Glorymar I. , Rosales Nestor , Modak Shakeel , Tap William D. , Gounder Mrinal M. , Thornton Katherine A. , Bouvier Nancy , You Daoqi , Gundem Gunes , Gerstle Justin T. , Heaton Todd E. , LaQuaglia Michael P. , Wexler Leonard H. , Meyers Paul A. , Kung Andrew L. , Papaemmanuil Elli , Zehir Ahmet , Ladanyi Marc , Shukla Neerav
Published: April 2023

Supplementary Figure 1 depicts copy number alterations in the described cohort
Supplementary Figures 1 and 2 from MYC Hyperactivates Wnt Signaling in APC/CTNNB1-Mutated Colorectal Cancer Cells through miR-92a–Dependent Repression of DKK3
Authors: Sehgal Priyanka , Lanauze Claudia , Wang Xin , Hayer Katharina E. , Torres-Diz Manuel , Leu N. Adrian , Sela Yogev , Stanger Ben Z. , Lengner Christopher J. , Thomas-Tikhonenko Andrei
Published: April 2023

S1. DKK3 and Wnt signaling in CRC cells. S2. Derivation of murine colorectal tumoroids.
Supplemental Figure Legends from In Situ Analysis of N-Linked Glycans as Potential Biomarkers of Clinical Course in Human Prostate Cancer
Authors: Conroy Lindsey R. , Stanback Alexandra E. , Young Lyndsay E.A. , Clarke Harrison A. , Austin Grant L. , Liu Jinze , Allison Derek B. , Sun Ramon C.
Published: April 2023

Supplemental Figure Legends 1-6
Supplementary Video: HPV- (HN31) from Palbociclib Renders Human Papilloma Virus–Negative Head and Neck Squamous Cell Carcinoma Vulnerable to the Senolytic Agent Navitoclax
Authors: Gadsden Nicholas J. , Fulcher Cory D. , Li Daniel , Shrivastava Nitisha , Thomas Carlos , Segall Jeffrey E. , Prystowsky Michael B. , Schlecht Nicolas F. , Gavathiotis Evripidis , Ow Thomas J.
Published: April 2023

Supplementary Video: HPV- (HN31) is a time-lapse video illustrating a HPV- cell line's response to palbociclib treatment.
Supplemental Figure 5 from In Situ Analysis of N-Linked Glycans as Potential Biomarkers of Clinical Course in Human Prostate Cancer
Authors: Conroy Lindsey R. , Stanback Alexandra E. , Young Lyndsay E.A. , Clarke Harrison A. , Austin Grant L. , Liu Jinze , Allison Derek B. , Sun Ramon C.
Published: April 2023

Supplemental Figure 5. N-glycans as a potential biomarker for disease recurrence in Black prostate cancer patients.
Supplemental Figure 3 from In Situ Analysis of N-Linked Glycans as Potential Biomarkers of Clinical Course in Human Prostate Cancer
Authors: Conroy Lindsey R. , Stanback Alexandra E. , Young Lyndsay E.A. , Clarke Harrison A. , Austin Grant L. , Liu Jinze , Allison Derek B. , Sun Ramon C.
Published: April 2023

Supplemental Figure 3. Elevated N-glycans detected in grade group 1 Black patient sample.
Supplementary Figure 1 & 2 from Palbociclib Renders Human Papilloma Virus–Negative Head and Neck Squamous Cell Carcinoma Vulnerable to the Senolytic Agent Navitoclax
Authors: Gadsden Nicholas J. , Fulcher Cory D. , Li Daniel , Shrivastava Nitisha , Thomas Carlos , Segall Jeffrey E. , Prystowsky Michael B. , Schlecht Nicolas F. , Gavathiotis Evripidis , Ow Thomas J.
Published: April 2023

Supplementary Figure 1 shows phosphorylated-retinoblastoma protein (p-Rb) and retinoblastoma protein (Rb) expression after incubation with palbociclib among the panel of head and neck squamous cell carcinoma (HNSCC) lines. Supplementary Figure 2 shows b-galactosidase, BCL-xL, BCL-2, and BCL-w protein expression after incubation with palbociclib among the panel of head and neck squamous cell carcinoma (HNSCC) lines.
Supplementary Tables from The Heme-Regulated Inhibitor Pathway Modulates Susceptibility of Poor Prognosis B-Lineage Acute Leukemia to BH3-Mimetics
Authors: Smith Kaitlyn H. , Budhraja Amit , Lynch John , Roberts Kathryn , Panetta John C. , Connelly Jon P. , Turnis Meghan E. , Pruett-Miller Shondra M. , Schuetz John D. , Mullighan Charles G. , Opferman Joseph T.
Published: April 2023

sgRNA sequences for knockout cell lines and Synergy analysis of combinatorial drug treatments, determined by response surface modeling.
Supplementary Figure 7 from EMT-Derived Alterations in Glutamine Metabolism Sensitize Mesenchymal Breast Cells to mTOR Inhibition
Authors: Karvelsson Sigurdur Trausti , Sigurdsson Arnar , Seip Kotryna , Grinde Maria Tunset , Wang Qiong , Johannsson Freyr , Mælandsmo Gunhild Mari , Moestue Siver Andreas , Rolfsson Ottar , Halldorsson Skarphedinn
Published: April 2023

Summarized significance (-log(p-value)) of drug module members Spearman correlation to levels of A) Reduced glutathione (GSH) and B) Oxidized glutathione (GSSG). The p-values in the title represents significance values from Kruskal-Wallis tests for differences in significance value distributions between modules.
Supplementary Data S6 from The Heme-Regulated Inhibitor Pathway Modulates Susceptibility of Poor Prognosis B-Lineage Acute Leukemia to BH3-Mimetics
Authors: Smith Kaitlyn H. , Budhraja Amit , Lynch John , Roberts Kathryn , Panetta John C. , Connelly Jon P. , Turnis Meghan E. , Pruett-Miller Shondra M. , Schuetz John D. , Mullighan Charles G. , Opferman Joseph T.
Published: April 2023

Synergy analysis of DHA or BTdPCU combined with BH3-mimetics in PDX cells
Supplementary Figure 5 from EMT-Derived Alterations in Glutamine Metabolism Sensitize Mesenchymal Breast Cells to mTOR Inhibition
Authors: Karvelsson Sigurdur Trausti , Sigurdsson Arnar , Seip Kotryna , Grinde Maria Tunset , Wang Qiong , Johannsson Freyr , Mælandsmo Gunhild Mari , Moestue Siver Andreas , Rolfsson Ottar , Halldorsson Skarphedinn
Published: April 2023

Western blot showing levels of IDH2 in D492 and D492M. A) IDH2 and β-actin intensity levels in D492 and D492M. B) IDH2 band intensity normalized to the β-actin loading control in D492 and D492M (n=4). Student's two-tailed t-test was used to estimate significance of results. The difference between D492 and D492M in normalized IDH2 band intensity was not significant (p = 0.08).
Supplementary Figure 3 from EMT-Derived Alterations in Glutamine Metabolism Sensitize Mesenchymal Breast Cells to mTOR Inhibition
Authors: Karvelsson Sigurdur Trausti , Sigurdsson Arnar , Seip Kotryna , Grinde Maria Tunset , Wang Qiong , Johannsson Freyr , Mælandsmo Gunhild Mari , Moestue Siver Andreas , Rolfsson Ottar , Halldorsson Skarphedinn
Published: April 2023

Dependency of D492 and D492M on glucose and glutamine. Cell number of D492 and D492M in full H14 medium, H14 without glucose and H14 without glutamine. Values are presented as mean + standard error (n{greater than or equal to}6). Asterisks represent significance of pairwise comparison between full medium and the depleted medium.
Supplementary Figure 1 from EMT-Derived Alterations in Glutamine Metabolism Sensitize Mesenchymal Breast Cells to mTOR Inhibition
Authors: Karvelsson Sigurdur Trausti , Sigurdsson Arnar , Seip Kotryna , Grinde Maria Tunset , Wang Qiong , Johannsson Freyr , Mælandsmo Gunhild Mari , Moestue Siver Andreas , Rolfsson Ottar , Halldorsson Skarphedinn
Published: April 2023

NMR data from 1H and 13C labelling experiments of D492 and D492M A) PC 1 scores after Principal Component Analysis of 1H NMR data and B) Corresponding loading plot from PC 1£. C) NMR peak area after incubation with 1-13C-glutamine for 6 hours. The metabolites show integrated peak areas of 1-13C glutamate and 1-13C glutathione (GSH). £: Peak assignment: a: isoleucine, b: leucine, c: valine, d: lactate, e: alanine, f: arginine, g: glutamine, h: glutamate, i: glutathione, j: phosphocholine (10 times higher than shown), k: myo-inositol, l: glycine, m: asparagine, n: proline, o: amp, p: adp, q: atp: r: threonine, s: glucose, t: fumarate, u: tyrosine, v: phenylalanine, w: NAD+, x: NADP, y: NADH.
Supplementary Figures 1-7 from Oncogenic KrasG12D Activation in the Nonhematopoietic Bone Marrow Microenvironment Causes Myelodysplastic Syndrome in Mice
Authors: Osswald Lena , Hamarsheh Shaima'a , Uhl Franziska Maria , Andrieux Geoffroy , Klein Claudius , Dierks Christine , Duquesne Sandra , Braun Lukas M. , Schmitt-Graeff Annette , Duyster Justus , Boerries Melanie , Brummer Tilman , Zeiser Robert
Published: April 2023

S1. KrasG12D recipient mice develop a myelodysplastic syndrome within the transferred WT hematopoietic system. S2. Gating strategy used for the isolation of bone marrow (BM) niche cells. S3. The frequency of BM niche cells is not affected in KrasG12D recipient mice. S4. Differential pathway analysis in MSPCs and endothelial cells of KrasG12D versus WT mice. S5. Differential pathways analysis in CaR and osteoblast cells of KrasG12D versus WT recipient mice. S6. Expression of phosphorylated H2AX (γ-H2AX) in BM of WT or KrasG12D recipient mice. S7. Analysis of patient-derived BM for KRAS mutations by digital droplet polymerase chain reaction (ddPCR).
Figure S5 from Hypoxic Induction of Exosome Uptake through Proteoglycan-Dependent Endocytosis Fuels the Lipid Droplet Phenotype in Glioma
Authors: Cerezo-Magaña Myriam , Christianson Helena C. , van Kuppevelt Toin H. , Forsberg-Nilsson Karin , Belting Mattias
Published: April 2023

(A) Cell-surface HS staining in untreated (Ctrl) and HS lyase treated U87 MG cells as control for Figure 7B. (B) Bodipy-FA specifically labels vesicular lipid membranes of U87 MG cells as donors of BodipyFA-EVs applied in Figure 7C. (C) Quantification and visualization of BodipyFA-EV uptake in relation to PKH-labelled EVs by flow cytometry (left panel) and confocal microscopy (right panel), respectively. (D) Free Bodipy-FA does not directly label LDs. Hypoxic U87 MG cells were allowed to form LDs by incubation with EVs for 48 h, and were then stained with LipidTox (red) and Bodipy-FA (yellow). White square indicates zoomed in area for detailed view. Scale bars=20 μm.
Supplementary Figure S1 from EWS-FLI1 and Menin Converge to Regulate ATF4 Activity in Ewing Sarcoma
Authors: Jiménez Jennifer A. , Apfelbaum April A. , Hawkins Allegra G. , Svoboda Laurie K. , Kumar Abhijay , Ruiz Ramon Ocadiz , Garcia Alessandra X. , Haarer Elena , Nwosu Zeribe C. , Bradin Joshua , Purohit Trupta , Chen Dong , Cierpicki Tomasz , Grembecka Jolanta , Lyssiotis Costas A. , Lawlor Elizabeth R.
Published: April 2023

Supplementary Figure S1. Real-time cell proliferation analysis of shATF4, MI-503 treatment, and dox-inducible shMEN1 knockdown in Ewing sarcoma cells.
Figure S3 from Hypoxic Induction of Exosome Uptake through Proteoglycan-Dependent Endocytosis Fuels the Lipid Droplet Phenotype in Glioma
Authors: Cerezo-Magaña Myriam , Christianson Helena C. , van Kuppevelt Toin H. , Forsberg-Nilsson Karin , Belting Mattias
Published: April 2023

(A) α-HS cell-surface binding in untreated (Ctrl) and sodium chlorate treated normoxic and hypoxic U87 MG cells. (B) α-HS (clone AO4B08) internalization in normoxic and hypoxic U87 MG cells. (C) α-CS (clone GD3G7) internalization in normoxic and hypoxic U87 MG cells. Results were normalized to normoxic Ctrl (set at 1) and are presented as the mean fold {plus minus} SD. * p< 0.05. NS, nonsignificant.
Figure S2 from Hypoxic Induction of Exosome Uptake through Proteoglycan-Dependent Endocytosis Fuels the Lipid Droplet Phenotype in Glioma
Authors: Cerezo-Magaña Myriam , Christianson Helena C. , van Kuppevelt Toin H. , Forsberg-Nilsson Karin , Belting Mattias
Published: April 2023

(A) Hypoxic induction of EV uptake in mouse HGG cells. Similar experiment as in Figure 2A with GL261 cells. Data shown is the mean fold {plus minus} SD (n = 6, from two independent experiments). (B) Hypoxic induction of EV uptake in mouse HGG cells is transient. Similar experiment as in Figure 2B with GL261 cells. Data shown is the mean fold {plus minus} SD (n = 6, from two independent experiments). (C) EV internalization in hypoxic U87 MG cells is temperature-dependent, as assessed by flow cytometry (n = 3, from a representative experiment).
Figure S1 from Hypoxic Induction of Exosome Uptake through Proteoglycan-Dependent Endocytosis Fuels the Lipid Droplet Phenotype in Glioma
Authors: Cerezo-Magaña Myriam , Christianson Helena C. , van Kuppevelt Toin H. , Forsberg-Nilsson Karin , Belting Mattias
Published: April 2023

(A) Characterization of U87 MG-derived EVs. Immunoblotting for typical EV markers (CD9, CD63, TSG101) and control proteins (EEA1, GM130, α-tubulin, calnexin) in cell lysate (CL) and isolated EVs (EV). Equal total protein was loaded from CL and EVs. (B) U87 MG EVs show size distribution typical of exosome-like EVs, as determined by Zetaview nanoparticle tracking analysis. (C) Lipid droplet (LD) staining of primary human HGG cells (U3065 and U3082) incubated without (Ctrl) or with EVs in normoxia (N) or hypoxia (H) for 48 h. Representative images show EV-induced LD formation in H cells. Scale bars, 20µm. (D) LD staining of hypoxic U87 MG cells after 3 h internalization of unstained EVs or SF only (Ctrl). (E) Dose-response curve shows sensitivity of hypoxic U87 MG cells to fatty acid synthase (FASN) inhibition using two different agents, as indicated (GSK2194069 and Fasnall). (F) EV-mediated LD induction in the presence of FASN inhibition. Left panel: LD staining of hypoxic U87 MG cells after 48 h without (Ctrl) or with EVs in the absence (DMSO) or presence of FASN inhibitors (Fasnall or GSK2194069). Right panel: LD area quantification from corresponding confocal images. Data were normalized for DMSO Ctrl and are expressed as the mean fold {plus minus} SEM. (n {greater than or equal to} 8 images, from two independent experiments).
Supplementary Table 1 from TSC2 Interacts with HDLBP/Vigilin and Regulates Stress Granule Formation
Authors: Kosmas Kosmas , Filippakis Harilaos , Khabibullin Damir , Turkiewicz Michal , Lam Hilaire C. , Yu Jane , Kedersha Nancy L. , Anderson Paul J. , Henske Elizabeth P.
Published: April 2023

Selected list of putative interacting TSC2 partners identified by yeast 2-hybrid analysis.
Figure S4 from Heparan Sulfate Synthesized by Ext1 Regulates Receptor Tyrosine Kinase Signaling and Promotes Resistance to EGFR Inhibitors in GBM
Authors: Ohkawa Yuki , Wade Anna , Lindberg Olle R. , Chen Katharine Y. , Tran Vy M. , Brown Spencer J. , Kumar Anupam , Kalita Mausam , James C. David , Phillips Joanna J.
Published: April 2023

Enzymatic removal of cell surface heparan sulfate and chondroitin sulfate and influence on PDGF-BB binding.
Figure S2 from Heparan Sulfate Synthesized by Ext1 Regulates Receptor Tyrosine Kinase Signaling and Promotes Resistance to EGFR Inhibitors in GBM
Authors: Ohkawa Yuki , Wade Anna , Lindberg Olle R. , Chen Katharine Y. , Tran Vy M. , Brown Spencer J. , Kumar Anupam , Kalita Mausam , James C. David , Phillips Joanna J.
Published: April 2023

Phosphorylation pattern for receptor tyrosine kinases (RTKs) in HS-null and HS-wt cells.
Figure S1 from Heparan Sulfate Synthesized by Ext1 Regulates Receptor Tyrosine Kinase Signaling and Promotes Resistance to EGFR Inhibitors in GBM
Authors: Ohkawa Yuki , Wade Anna , Lindberg Olle R. , Chen Katharine Y. , Tran Vy M. , Brown Spencer J. , Kumar Anupam , Kalita Mausam , James C. David , Phillips Joanna J.
Published: April 2023

Properties of HS-wt and HS-null cells.
Supplementary Table S1 from A Novel Therapeutic Strategy Targeting the Mesenchymal Phenotype of Malignant Pleural Mesothelioma by Suppressing LSD1
Authors: Wirawan Aditya , Tajima Ken , Takahashi Fumiyuki , Mitsuishi Yoichiro , Winardi Wira , Hidayat Moulid , Hayakawa Daisuke , Matsumoto Naohisa , Izumi Kenta , Asao Tetsuhiko , Ko Ryo , Shimada Naoko , Takamochi Kazuya , Suzuki Kenji , Abe Masaaki , Hino Okio , Sekido Yoshitaka , Takahashi Kazuhisa
Published: April 2023

Supplementary Table S1 shows the selected genes with statistically significant changes in transcriptome analysis using two different shRNA constructs.
Supplementary Figure S2 from A Novel Therapeutic Strategy Targeting the Mesenchymal Phenotype of Malignant Pleural Mesothelioma by Suppressing LSD1
Authors: Wirawan Aditya , Tajima Ken , Takahashi Fumiyuki , Mitsuishi Yoichiro , Winardi Wira , Hidayat Moulid , Hayakawa Daisuke , Matsumoto Naohisa , Izumi Kenta , Asao Tetsuhiko , Ko Ryo , Shimada Naoko , Takamochi Kazuya , Suzuki Kenji , Abe Masaaki , Hino Okio , Sekido Yoshitaka , Takahashi Kazuhisa
Published: April 2023

Supplementary Figure S2 shows that Snail-1 induces a mesenchymal phenotype in MPM cells.
Table S3 from Oncogenic Gene-Expression Programs in Leiomyosarcoma and Characterization of Conventional, Inflammatory, and Uterogenic Subtypes
Authors: Hemming Matthew L. , Fan Changyu , Raut Chandrajit P. , Demetri George D. , Armstrong Scott A. , Sicinska Ewa , George Suzanne
Published: April 2023

Table S3. LMS genes within recurrently amplified regions.
Table S1 from Oncogenic Gene-Expression Programs in Leiomyosarcoma and Characterization of Conventional, Inflammatory, and Uterogenic Subtypes
Authors: Hemming Matthew L. , Fan Changyu , Raut Chandrajit P. , Demetri George D. , Armstrong Scott A. , Sicinska Ewa , George Suzanne
Published: April 2023

Table S1. TCGA cancer subtypes.
Supplementary Figures 1-6 from Oncogenic Gene-Expression Programs in Leiomyosarcoma and Characterization of Conventional, Inflammatory, and Uterogenic Subtypes
Authors: Hemming Matthew L. , Fan Changyu , Raut Chandrajit P. , Demetri George D. , Armstrong Scott A. , Sicinska Ewa , George Suzanne
Published: April 2023

Figure S1. Smooth muscle enriched gene sets and tumor suppressors in LMS. Figure S2. A unique subset of genes differentiates molecular subtypes of LMS. Figure S3. Validation of LMS subtypes in separate cohorts. Figure S4. Expression of previously described differentiating transcripts in LMS subtypes. Figure S5. Kaplan-Meier analysis of LMS subtypes. Figure S6. LMS cell lines lack an LMS-related gene expression program.
Supplementary Tables 2-6 from Destrin Contributes to Lung Adenocarcinoma Progression by Activating Wnt/β-Catenin Signaling Pathway
Authors: Zhang Hui-Juan , Chang Wen-Jing , Jia Cai-Yun , Qiao Ling , Zhou Jing , Chen Qing , Zheng Xiao-Wei , Zhang Jian-Hua , Li Hong-Chao , Yang Zheng-Yan , Liu Zhong-Hua , Liu Guang-Chao , Ji Shao-Ping , Lu Feng
Published: April 2023

Supplementary Table 2.Proteins chosen for immunohistochemistry and Western blot validation. Supplementary Table 3. Correlations between clinicopathologic factors and destrin expression. Supplementary Table 4. Multivariate Cox regression analysis of survival rate in 86 lung. Supplementary Table 5. The primers used in this study for plasmid construction. Supplementary Table 6. The primers used in this study for reverse transcription-quantitative polymerasechain reaction analysis.
FigureS8 from Adipokine Apelin/APJ Pathway Promotes Peritoneal Dissemination of Ovarian Cancer Cells by Regulating Lipid Metabolism
Authors: Dogra Samrita , Neelakantan Deepika , Patel Maulin M. , Griesel Beth , Olson Ann , Woo Sukyung
Published: April 2023

TCGA data analysis for correlation between APJ and CD36, STAT3.
Supplementary Tables, Figures, References from Selective ERBB2 and BCL2 Inhibition Is Synergistic for Mitochondrial-Mediated Apoptosis in MDS and AML Cells
Authors: Kam Angel Y.F. , Piryani Sadhna O. , Lee Chang-Lung , Rizzieri David A. , Spector Neil L. , Sarantopoulos Stefanie , Doan Phuong L.
Published: April 2023

Supplemental Table 1. AML Patient demographics Supplemental Table 2. MDS Patient demographics Figure S1. ERBB2 is overexpressed and truncated in MDS and AML cells. Figure S2. Lapatinib effectively reduces levels of phospho-ERBB2 in MDS-L and K562 cells. Figure S3. ERBB2 inhibition with Lapatinib impairs MDS and AML cell proliferation. Figure S4. Afatinib and neratinib promotes leukemic cell death. Figure S5. ERBB2 inhibition with Lapatinib decreases MDS xenograft. Figure S6. Inhibition of MCL1 by AZD5991 enhances MDS-L cell death. Figure S7. Dual inhibition of ERBB2 and BCL-2 is synergistic to promote cancer death compared to monotherapy.
Supplementary Figure S4 from Platinum-Induced Ubiquitination of Phosphorylated H2AX by RING1A Is Mediated by Replication Protein A in Ovarian Cancer
Authors: Sriramkumar Shruthi , Matthews Timothy D. , Ghobashi Ahmed H. , Miller Samuel A. , VanderVere-Carozza Pamela S. , Pawelczak Katherine S. , Nephew Kenneth P. , Turchi John J. , O'Hagan Heather M.
Published: April 2023

Rad51 colocalizes with phosphoH2AX in response to cisplatin treatment
Supplementary Figure S3 from Platinum-Induced Ubiquitination of Phosphorylated H2AX by RING1A Is Mediated by Replication Protein A in Ovarian Cancer
Authors: Sriramkumar Shruthi , Matthews Timothy D. , Ghobashi Ahmed H. , Miller Samuel A. , VanderVere-Carozza Pamela S. , Pawelczak Katherine S. , Nephew Kenneth P. , Turchi John J. , O'Hagan Heather M.
Published: April 2023

Effects of CSB or XPC knockdown on platinum-induced phosphoH2AXub1
Supplementary Fig. S3 from AXL Inhibition Induces DNA Damage and Replication Stress in Non–Small Cell Lung Cancer Cells and Promotes Sensitivity to ATR Inhibitors
Authors: Ramkumar Kavya , Stewart C. Allison , Cargill Kasey R. , Della Corte Carminia M. , Wang Qi , Shen Li , Diao Lixia , Cardnell Robert J. , Peng David H. , Rodriguez B. Leticia , Fan You-Hong , Heymach John V. , Wang Jing , Gay Carl M. , Gibbons Don L. , Byers Lauren A.
Published: April 2023

Supplementary Fig. S3: BGB324 inhibits AXL downstream signaling.
Supplementary Figures 1-12 from Genomically Complex Human Angiosarcoma and Canine Hemangiosarcoma Establish Convergent Angiogenic Transcriptional Programs Driven by Novel Gene Fusions
Authors: Kim Jong Hyuk , Megquier Kate , Thomas Rachael , Sarver Aaron L. , Song Jung Min , Kim Yoon Tae , Cheng Nuojin , Schulte Ashley J. , Linden Michael A. , Murugan Paari , Oseth LeAnn , Forster Colleen L. , Elvers Ingegerd , Swofford Ross , Turner-Maier Jason , Karlsson Elinor K. , Breen Matthew , Lindblad-Toh Kerstin , Modiano Jaime F.
Published: April 2023

S1. Representative putative inter-chromosomal fusion transcripts in human AS and canine HSA. SCLT1-NIPBL fusion in human angiosarcoma. S2. Fusion genes and their association with tumor content and sequencing depth in canine HSA tissues. S3. A, Primers designed for amplification of SCLT1-NIPBL fusion transcripts identified in human angiosarcoma. B, SCLT1-NIPBL fusion gene amplification by quantitative RT-PCR. Expression value represents 2(-â^†Ct)(Fusion gene/GAPDH). C, Primers designed for amplification of four fusion transcripts identified in canine hemangiosarcomas. D, Fusion gene amplification was confirmed in canine tumors by quantitative RT-PCR. E, Electrophoresis (1% agarose gel) of DNA product by RTPCR was done. S4. Genetic alterations of fusion partner genes identified in human AS. S5. Cell type enrichment analysis in ASs and TCGA sarcomas. S6. Three distinct molecular groups of canine HSAs. S7. Kaplan-Meier probability of survival for dogs with angiogenic and inflammatory HSA. S8. Association of the fusion events with demographic and histopathologic features in canine HSA. S9. Gene pathways associated with commonly enriched genes in tumors with fusion genes and TP53 mutations in canine HSA. S10. Violin plots display IHC scores of p53, p-p53 (Ser15), and p-p53 (Ser20) in human AS and canine HSA. S11. Violin plots present IHC scores of AKT and p-AKT (Thr308) in human AS and canine HSA. S12. IHC scores of mTOR and p-mTOR (Ser2448) in human AS.
Supplementary Figure S2 from Aberrant Claudin-6–Adhesion Signaling Promotes Endometrial Cancer Progression via Estrogen Receptor α
Authors: Kojima Manabu , Sugimoto Kotaro , Kobayashi Makoto , Ichikawa-Tomikawa Naoki , Kashiwagi Korehito , Watanabe Takafumi , Soeda Shu , Fujimori Keiya , Chiba Hideki
Published: April 2023

S2. Apoptosis is not detected in Ishikawa and Ishikawa:CLDN6cells.
Supplementary Figure S1 from Aberrant Claudin-6–Adhesion Signaling Promotes Endometrial Cancer Progression via Estrogen Receptor α
Authors: Kojima Manabu , Sugimoto Kotaro , Kobayashi Makoto , Ichikawa-Tomikawa Naoki , Kashiwagi Korehito , Watanabe Takafumi , Soeda Shu , Fujimori Keiya , Chiba Hideki
Published: April 2023

S1. Expression of CLDN6 and ERαin endometrial cancer cell lines and tissues.
Supplemental Figure Legends from Aberrant Claudin-6–Adhesion Signaling Promotes Endometrial Cancer Progression via Estrogen Receptor α
Authors: Kojima Manabu , Sugimoto Kotaro , Kobayashi Makoto , Ichikawa-Tomikawa Naoki , Kashiwagi Korehito , Watanabe Takafumi , Soeda Shu , Fujimori Keiya , Chiba Hideki
Published: April 2023

Supplementary Figures 1-3
Supplementary Data from Role of TET1 and 5hmC in an Obesity-Linked Pathway Driving Cancer Stem Cells in Triple-Negative Breast Cancer
Authors: Bao Bin , Teslow Emily A. , Mitrea Cristina , Boerner Julie L. , Dyson Greg , Bollig-Fischer Aliccia
Published: April 2023

Supplementary Data Figures S1-S4
Supplemental Figures 1-5 and figure legends from Cell-Intrinsic Tumorigenic Functions of PPARγ in Bladder Urothelial Carcinoma
Authors: Sanchez Danielle J. , Missiaen Rindert , Skuli Nicolas , Steger David J. , Simon M. Celeste
Published: April 2023

S1. Determination of PPARγ expression in UC and subtyping of UC cell lines. S2. Effect of pharmacological PPARγ inhibition on gene expression and cell cycle progression. S3. Validation of PPARG CRISPR KO and shRNA rescue experiment. S4. Validation of ChIP-seq data from the 5637 cell line. S5. PPARγ regulates proliferation and migration through SHH in UC.
Figure S1 from N-Glycosylation Patterns Correlate with Hepatocellular Carcinoma Genetic Subtypes
Authors: DelaCourt Andrew , Black Alyson , Angel Peggi , Drake Richard , Hoshida Yujin , Singal Amit , Lewin David , Taouli Bachir , Lewis Sara , Schwarz Myron , Fiel M. Isabel , Mehta Anand S.
Published: April 2023

The full workflow to prepare FFPE tissues for MALDI-IMS analysis.
Supplementary Data from Demethylation of the SFRP4 Promoter Drives Gastric Cancer Progression via the Wnt Pathway
Authors: Li Haojie , Zhao Junjie , Sun Jie , Tian Chenyu , Jiang Quan , Ding Chen , Gan Qiangjun , Shu Ping , Wang Xuefei , Qin Jing , Sun Yihong
Published: April 2023

Supplementary Data from Demethylation of the SFRP4 Promoter Drives Gastric Cancer Progression via the Wnt Pathway
Supplementary Table from Mutations in Noncoding Cis-Regulatory Elements Reveal Cancer Driver Cistromes in Luminal Breast Cancer
Authors: El Ghamrasni Samah , Quevedo Rene , Hawley James , Mazrooei Parisa , Hanna Youstina , Cirlan Iulia , Zhu Helen , Bruce Jeff P. , Oldfield Leslie E. , Yang S.Y. Cindy , Guilhamon Paul , Reimand Jüri , Cescon Dave W. , Done Susan J. , Lupien Mathieu , Pugh Trevor J.
Published: April 2023

Supplementary Table from Mutations in Noncoding Cis-Regulatory Elements Reveal Cancer Driver Cistromes in Luminal Breast Cancer
Table S3 from Fatty Acid Oxidation Is an Adaptive Survival Pathway Induced in Prostate Tumors by HSP90 Inhibition
Authors: Nassar Zeyad D. , Mah Chui Yan , Centenera Margaret M. , Irani Swati , Sadowski Martin C. , Scott Julia S. , Nguyen Elizabeth V. , Nagarajan Shilpa R. , Moldovan Max , Lynn David J. , Daly Roger J. , Hoy Andrew J. , Butler Lisa M.
Published: April 2023

Supplementary Data Table
Table S1 from Fatty Acid Oxidation Is an Adaptive Survival Pathway Induced in Prostate Tumors by HSP90 Inhibition
Authors: Nassar Zeyad D. , Mah Chui Yan , Centenera Margaret M. , Irani Swati , Sadowski Martin C. , Scott Julia S. , Nguyen Elizabeth V. , Nagarajan Shilpa R. , Moldovan Max , Lynn David J. , Daly Roger J. , Hoy Andrew J. , Butler Lisa M.
Published: April 2023

Primary antibodies and stains details
Supplementary Figure 6 from ADGRL4/ELTD1 Expression in Breast Cancer Cells Induces Vascular Normalization and Immune Suppression
Authors: Sheldon Helen , Bridges Esther , Silva Ildefonso , Masiero Massimo , Favara David M. , Wang Dian , Leek Russell , Snell Cameron , Roxanis Ioannis , Kreuzer Mira , Gileadi Uzi , Buffa Francesca M. , Banham Alison , Harris Adrian L.
Published: April 2023

S6. Eltd1 increases myeloid accumulation in the spleen.
Supplementary Figure 5 from ADGRL4/ELTD1 Expression in Breast Cancer Cells Induces Vascular Normalization and Immune Suppression
Authors: Sheldon Helen , Bridges Esther , Silva Ildefonso , Masiero Massimo , Favara David M. , Wang Dian , Leek Russell , Snell Cameron , Roxanis Ioannis , Kreuzer Mira , Gileadi Uzi , Buffa Francesca M. , Banham Alison , Harris Adrian L.
Published: April 2023

S5. Representative flow cytometry dot plots indicating the gating strategy for identification of myeloid and lymphoid populations and PD-L1.
Supplementary Figure 1 from ADGRL4/ELTD1 Expression in Breast Cancer Cells Induces Vascular Normalization and Immune Suppression
Authors: Sheldon Helen , Bridges Esther , Silva Ildefonso , Masiero Massimo , Favara David M. , Wang Dian , Leek Russell , Snell Cameron , Roxanis Ioannis , Kreuzer Mira , Gileadi Uzi , Buffa Francesca M. , Banham Alison , Harris Adrian L.
Published: April 2023

S1. Expression of mcoEltd1 in E0771 cells does not affect cell growth or invasion.
Supplementary Data 1 from High Response Rate and Durability Driven by HLA Genetic Diversity in Patients with Kidney Cancer Treated with Lenvatinib and Pembrolizumab
Authors: Lee Chung-Han , DiNatale Renzo G. , Chowell Diego , Krishna Chirag , Makarov Vladimir , Valero Cristina , Vuong Lynda , Lee Mark , Weiss Kate , Hoen Doug , Morris Luc , Reznik Ed , Murray Samuel , Kotecha Ritesh , Voss Martin H. , Carlo Maria I. , Feldman Darren , Sachdev Pallavi , Adachi Yusuke , Minoshima Yukinori , Matsui Junji , Funahashi Yasuhiro , Nomoto Kenichi , Hakimi A. Ari , Motzer Robert J. , Chan Timothy A.
Published: April 2023

Mutation annotation file (MAF) showing all nonsynonymous exonic mutations identified in the lenvatinib/pembrolizumab cohort.
Supplementary Figure S3 from Crucial Functions of the JMJD1/KDM3 Epigenetic Regulators in Cancer
Authors: Sui Yuan , Gu Ruicai , Janknecht Ralf
Published: April 2023

Somatic mutations across JMJD1 proteins.
Supplementary Figure S2 from Crucial Functions of the JMJD1/KDM3 Epigenetic Regulators in Cancer
Authors: Sui Yuan , Gu Ruicai , Janknecht Ralf
Published: April 2023

JMJD1 gene alteration frequencies.
Supplementary Figure 6 from Identification and Characterization of Cancer Cells That Initiate Metastases to the Brain and Other Organs
Authors: Berghoff Anna. S. , Liao Yunxiang , Karreman Matthia A. , Ilhan-Mutlu Ayseguel , Gunkel Katharina , Sprick Martin R. , Eisen Christian , Kessler Tobias , Osswald Matthias , Wünsche Susanne , Feinauer Manuel , Gril Brunhilde , Marmé Frederic , Michel Laura L. , Bago-Horvath Zuszanna , Sahm Felix , Becker Natalia , Breckwoldt Michael O. , Solecki Gergely , Gömmel Miriam , Huang Lulu , Rübmann Petra , Thome Carina M. , Ratliff Miriam , Trumpp Andreas , Steeg Patricia S. , Preusser Matthias , Wick Wolfgang , Winkler Frank
Published: April 2023

Supplementary Figure 6 shows NDRG1 expression in several cell lines.
Supplementary Figure 4 from Identification and Characterization of Cancer Cells That Initiate Metastases to the Brain and Other Organs
Authors: Berghoff Anna. S. , Liao Yunxiang , Karreman Matthia A. , Ilhan-Mutlu Ayseguel , Gunkel Katharina , Sprick Martin R. , Eisen Christian , Kessler Tobias , Osswald Matthias , Wünsche Susanne , Feinauer Manuel , Gril Brunhilde , Marmé Frederic , Michel Laura L. , Bago-Horvath Zuszanna , Sahm Felix , Becker Natalia , Breckwoldt Michael O. , Solecki Gergely , Gömmel Miriam , Huang Lulu , Rübmann Petra , Thome Carina M. , Ratliff Miriam , Trumpp Andreas , Steeg Patricia S. , Preusser Matthias , Wick Wolfgang , Winkler Frank
Published: April 2023

Supplementary Figure 4 shows IVIS results.
Supplementary Figure 3 from Identification and Characterization of Cancer Cells That Initiate Metastases to the Brain and Other Organs
Authors: Berghoff Anna. S. , Liao Yunxiang , Karreman Matthia A. , Ilhan-Mutlu Ayseguel , Gunkel Katharina , Sprick Martin R. , Eisen Christian , Kessler Tobias , Osswald Matthias , Wünsche Susanne , Feinauer Manuel , Gril Brunhilde , Marmé Frederic , Michel Laura L. , Bago-Horvath Zuszanna , Sahm Felix , Becker Natalia , Breckwoldt Michael O. , Solecki Gergely , Gömmel Miriam , Huang Lulu , Rübmann Petra , Thome Carina M. , Ratliff Miriam , Trumpp Andreas , Steeg Patricia S. , Preusser Matthias , Wick Wolfgang , Winkler Frank
Published: April 2023

Supplementary Figure 3 shows PKH26 intensity and depth of the cell in relation to the successful establishment of a metastasis. Further, the brain metastatic cascade for PKH26 low (slow cycling) and PKH26 (high) (ultra slow cycling) cells is illustrated.
Supplementary Methods Figures 1-7 from Metabolic Regulator IAPP (Amylin) Is Required for BRAF and RAS Oncogene-Induced Senescence
Authors: Garnett Sam , de Bruyns Angeline , Provencher-Tom Veronique , Dutchak Kendall , Shu Ran , Dankort David
Published: April 2023

Figure S1. Creation of Inducible-BRAF-Inducible Senescent Cells. Figure S2. Summary of lentiviral based shRNA screen for OIS targets. Figure S3. Knockdown of IAPP expression by shRNA. Figure S4. Perturbation of IAPP and ERK2. Figure S5. Loss of IAPP can bypass RAS induced senescence. Figure S6. RAMP3 inhibition affects proliferation arrest. Figure S7. IAPP knockdown cells have a unique profile of glucose metabolites.
Supplementary Figures 1-8 from CHK2 Inhibition Provides a Strategy to Suppress Hematologic Toxicity from PARP Inhibitors
Authors: Xu Zhen , Vandenberg Cassandra J. , Lieschke Elizabeth , Di Rago Ladina , Scott Clare L. , Majewski Ian J.
Published: April 2023

Supplementary material, including Supplementary Figures (1-8) with legends, description of Supplementary Tables, and Supplementary Materials and Methods.