bluuebunny/crossref_metadata_2025 huggingface dataset:
Table S2 from c-MYC Generates Repair Errors via Increased Transcription of Alternative-NHEJ Factors, LIG3 and PARP1, in Tyrosine Kinase–Activated Leukemias
Authors: Muvarak Nidal , Kelley Shannon , Robert Carine , Baer Maria R. , Perrotti Danilo , Gambacorti-Passerini Carlo , Civin Curt , Scheibner Kara , Rassool Feyruz V.
Published: April 2023

Table S2. Predicted C-MYC-regulated MicroRNA Binding Sites in the Coding Region and 3'UTR of LIG3 and PARP1.
FIGURE S2 from c-MYC Generates Repair Errors via Increased Transcription of Alternative-NHEJ Factors, LIG3 and PARP1, in Tyrosine Kinase–Activated Leukemias
Authors: Muvarak Nidal , Kelley Shannon , Robert Carine , Baer Maria R. , Perrotti Danilo , Gambacorti-Passerini Carlo , Civin Curt , Scheibner Kara , Rassool Feyruz V.
Published: April 2023

FIGURE S2. Luciferase activity for LIG3 and PARP1 and promoterless controls in Mo7e-BCR-ABL and 32D-FLT3/ITD Cells; Relative luciferase activity in 293T cells transfected with c-MYC expression contruct (pcDNA3-c-myc) and control vector (pcDNA3)
Supplemental Figure 2 from Cholesterol Sulfonation Enzyme, SULT2B1b, Modulates AR and Cell Growth Properties in Prostate Cancer
Authors: Vickman Renee E. , Crist Scott A. , Kerian Kevin , Eberlin Livia , Cooks R. Graham , Burcham Grant N. , Buhman Kimberly K. , Hu Chang-Deng , Mesecar Andrew D. , Cheng Liang , Ratliff Timothy L.
Published: April 2023

Modulation of SULT2B1b alters relative abundance of CS in LNCaP cells.
Supplemental Figure Legends from ERK/MAPK Signaling Drives Overexpression of the Rac-GEF, PREX1, in BRAF- and NRAS-Mutant Melanoma
Authors: Ryan Meagan B. , Finn Alexander J. , Pedone Katherine H. , Thomas Nancy E. , Der Channing J. , Cox Adrienne D.
Published: April 2023

Supplemental figure legends for Figure S1, S2, S3, S4, and S5
Figure S5 from ERK/MAPK Signaling Drives Overexpression of the Rac-GEF, PREX1, in BRAF- and NRAS-Mutant Melanoma
Authors: Ryan Meagan B. , Finn Alexander J. , Pedone Katherine H. , Thomas Nancy E. , Der Channing J. , Cox Adrienne D.
Published: April 2023

Differential regulation of PREX1 by ERK in breast cancer and prostate cancer cell lines
Supplementary Table S1 from AMPK-Independent LKB1 Activity Is Required for Efficient Epithelial Ovarian Cancer Metastasis
Authors: Buensuceso Adrian , Ramos-Valdes Yudith , DiMattia Gabriel E. , Shepherd Trevor G.
Published: April 2023

Number of mice with tumor lesions at specific anatomical sites and ascites
Supplementary Figure S3 from AMPK-Independent LKB1 Activity Is Required for Efficient Epithelial Ovarian Cancer Metastasis
Authors: Buensuceso Adrian , Ramos-Valdes Yudith , DiMattia Gabriel E. , Shepherd Trevor G.
Published: April 2023

Spheroids isolated from tumor cell mouse xenograft ascites.
S4 from Augmented TME O-GlcNAcylation Promotes Tumor Proliferation through the Inhibition of p38 MAPK
Authors: Moriwaki Kazumasa , Asahi Michio
Published: April 2023

Supplemental Table 1.
S3 from Augmented TME O-GlcNAcylation Promotes Tumor Proliferation through the Inhibition of p38 MAPK
Authors: Moriwaki Kazumasa , Asahi Michio
Published: April 2023

Supplemental Figure 3. The elevated O-GlcNAcylation induced by Thiamet G does not affect the phosphorylation level of p38 MAPK in the cultured B16 melanoma cells.
Supplementary Figure 6 from TGFβ and Hippo Pathways Cooperate to Enhance Sarcomagenesis and Metastasis through the Hyaluronan-Mediated Motility Receptor (HMMR)
Authors: Ye Shuai , Liu Ying , Fuller Ashley M. , Katti Rohan , Ciotti Gabrielle E. , Chor Susan , Alam Md. Zahidul , Devalaraja Samir , Lorent Kristin , Weber Kristy , Haldar Malay , Pack Michael A. , Eisinger-Mathason T.S. Karin
Published: April 2023

S6. The role of RHAMM in UPS migration
Supplementary Figure 4 from TGFβ and Hippo Pathways Cooperate to Enhance Sarcomagenesis and Metastasis through the Hyaluronan-Mediated Motility Receptor (HMMR)
Authors: Ye Shuai , Liu Ying , Fuller Ashley M. , Katti Rohan , Ciotti Gabrielle E. , Chor Susan , Alam Md. Zahidul , Devalaraja Samir , Lorent Kristin , Weber Kristy , Haldar Malay , Pack Michael A. , Eisinger-Mathason T.S. Karin
Published: April 2023

S4. HMMR expression in human UPS
Supplementary Figure 3 from TGFβ and Hippo Pathways Cooperate to Enhance Sarcomagenesis and Metastasis through the Hyaluronan-Mediated Motility Receptor (HMMR)
Authors: Ye Shuai , Liu Ying , Fuller Ashley M. , Katti Rohan , Ciotti Gabrielle E. , Chor Susan , Alam Md. Zahidul , Devalaraja Samir , Lorent Kristin , Weber Kristy , Haldar Malay , Pack Michael A. , Eisinger-Mathason T.S. Karin
Published: April 2023

S3. YAP1 target expression in human and mouse UPS
Supplementary Figure 1 from TGFβ and Hippo Pathways Cooperate to Enhance Sarcomagenesis and Metastasis through the Hyaluronan-Mediated Motility Receptor (HMMR)
Authors: Ye Shuai , Liu Ying , Fuller Ashley M. , Katti Rohan , Ciotti Gabrielle E. , Chor Susan , Alam Md. Zahidul , Devalaraja Samir , Lorent Kristin , Weber Kristy , Haldar Malay , Pack Michael A. , Eisinger-Mathason T.S. Karin
Published: April 2023

S1. MAPK dependence in UPS and HT-1080 cells
Figure S2 from Circadian Oscillations Persist in Cervical and Esophageal Cancer Cells Displaying Decreased Expression of Tumor-Suppressing Circadian Clock Genes
Authors: van der Watt Pauline J. , Roden Laura C. , Davis Kate T. , Parker M. Iqbal , Leaner Virna D.
Published: April 2023

Relative circadian clock gene expression in normal and cancer tissue, as calculated based on data generated by the TCGA Research Network (https://www.cancer.gov/tcga) and The Genotype Tissue Expression (GTEx) project (https://www.gtexportal.org/home/). A. Circadian clock gene expression in normal cervical epithelium vs cervical cancer tissue. B. Expression of KI67 and p16, known to be upregulated in cervical cancer. C. Circadian clock gene expression in normal oesophageal epithelium vs oesophageal cancer tissue. D. Expression of KI67 and KPNα2, known to be upregulated in oesophageal cancer (*p<0.05).
Figure S1 from Circadian Oscillations Persist in Cervical and Esophageal Cancer Cells Displaying Decreased Expression of Tumor-Suppressing Circadian Clock Genes
Authors: van der Watt Pauline J. , Roden Laura C. , Davis Kate T. , Parker M. Iqbal , Leaner Virna D.
Published: April 2023

Microarray analysis showing significant downregulation of circadian clock gene, PER2, in cervical cancer tissue specimens (n = 16) compared to normal cervical epithelium (n = 8); *p < 0.0005.
Supplementary figures S1-S6, tables 1 and 2 from Mechanistic Dissection of PARP1 Trapping and the Impact on In Vivo Tolerability and Efficacy of PARP Inhibitors
Authors: Hopkins Todd A. , Shi Yan , Rodriguez Luis E. , Solomon Larry R. , Donawho Cherrie K. , DiGiammarino Enrico L. , Panchal Sanjay C. , Wilsbacher Julie L. , Gao Wenqing , Olson Amanda M. , Stolarik DeAnne F. , Osterling Donald J. , Johnson Eric F. , Maag David
Published: April 2023

Supplementary figures S1-S6, tables 1 and 2. Table S1. Body weight loss and health observations in HeyA8 xenograft tumor-bearing mice treated with PARP inhibitors or TMZ alone or in combination. Table S2. Summary of PK parameters in HeyA8 xenograft tumor-bearing mice. Figure S1. PARP inhibitors potentiate the activity of alkylating agents in vitro. Figure S2. Equilibrium binding of PARP inhibitors to PARP1. Figure S3. Analysis of PARP1-DNA binding kinetics by BLI. Figure S4. Michaelis-Menten analysis of the mode of inhibition of different PARP inhibitors. Figure S5. γH2AX levels by cell cycle phase in HeyA8 cells treated with MMS and PARP inhibitors alone and in combination. Figure S6. Pharmacokinetics and pharmacodynamics in HeyA8 xenograft tumor-bearing mice.
Supplementary Figure 3 from Defective Myb Function Ablates Cyclin E1 Expression and Perturbs Intestinal Carcinogenesis
Authors: Cheasley Dane , Pereira Lloyd , Sampurno Shienny , Sieber Oliver , Jorissen Robert , Xu Huiling , Germann Markus , Yuqian Yan , Ramsay Robert G. , Malaterre Jordane
Published: April 2023

Supplementary Figure 3. MybPlt4 exacerbates hematopoietic defects in ApcMin/+ mice.
Table S6 from NRF2-Driven KEAP1 Transcription in Human Lung Cancer
Authors: Tian Yijun , Liu Qian , Yu Shengnan , Chu Qian , Chen Yuan , Wu Kongming , Wang Liang
Published: April 2023

Previously published NRF2 signatures
Supplementary Figure 4 from Colorectal Carcinogenesis: Connecting K-RAS–Induced Transformation and CREB Activity In Vitro and In Vivo
Authors: Steven André , Heiduk Max , Recktenwald Christian V. , Hiebl Bernhard , Wickenhauser Claudia , Massa Chiara , Seliger Barbara
Published: April 2023

Supplementary Figure 4: Distinct adhesion capacities of RASV12 transformants
Supplementary Figure 3 from Colorectal Carcinogenesis: Connecting K-RAS–Induced Transformation and CREB Activity In Vitro and In Vivo
Authors: Steven André , Heiduk Max , Recktenwald Christian V. , Hiebl Bernhard , Wickenhauser Claudia , Massa Chiara , Seliger Barbara
Published: April 2023

Supplementary Figure 3: Altered phenotype and growth properties of RAS transformants by CREB silencing
Table S1 from NRF2-Driven KEAP1 Transcription in Human Lung Cancer
Authors: Tian Yijun , Liu Qian , Yu Shengnan , Chu Qian , Chen Yuan , Wu Kongming , Wang Liang
Published: April 2023

NRF2-KEAP1 mutation annotation
Supplementary Figure 1 from Colorectal Carcinogenesis: Connecting K-RAS–Induced Transformation and CREB Activity In Vitro and In Vivo
Authors: Steven André , Heiduk Max , Recktenwald Christian V. , Hiebl Bernhard , Wickenhauser Claudia , Massa Chiara , Seliger Barbara
Published: April 2023

Supplementary Figure 1: Influence of signal transduction inhibitors and/or the farnesyltransferase inhibitor tipifarnib on the CREB activity and/or growth properties in murine and human (tumor) cells
Figure S4 from NRF2-Driven KEAP1 Transcription in Human Lung Cancer
Authors: Tian Yijun , Liu Qian , Yu Shengnan , Chu Qian , Chen Yuan , Wu Kongming , Wang Liang
Published: April 2023

Crucial NRF2 pathway gene alterations in TCGA lung adenocarcinoma and squamous cell cancer datasets
Supplementary Figure 5 from The Chemokine (CCL2–CCR2) Signaling Axis Mediates Perineural Invasion
Authors: He Shizhi , He Shuangba , Chen Chun-Hao , Deborde Sylvie , Bakst Richard L. , Chernichenko Natalya , McNamara William F. , Lee Sei Young , Barajas Fernando , Yu Zhenkun , Al-Ahmadie Hikmat A. , Wong Richard J.
Published: April 2023

Sciatic nerve invasion length based on MRI imaging depicted in Figure 5 was assessed for mice injected with shControl or shCCR2 PC-3 cells. Images showing a thickened sciatic nerve were selected and analyzed with ImageJ (* p<0.05, t-test).
Figure S1 from NRF2-Driven KEAP1 Transcription in Human Lung Cancer
Authors: Tian Yijun , Liu Qian , Yu Shengnan , Chu Qian , Chen Yuan , Wu Kongming , Wang Liang
Published: April 2023

Evidence for selecting TXN as KEAP1 transcription footprint.
Supplementary Figure Legend from Hypoxia Promotes Dissemination and Colonization in New Bone Marrow Niches in Waldenström Macroglobulinemia
Authors: Muz Barbara , de la Puente Pilar , Azab Feda , Ghobrial Irene M. , Azab Abdel Kareem
Published: April 2023

Supplementary Figure Legend
Supplemental Table S1 from The Histone Demethylase Jumonji Coordinates Cellular Senescence Including Secretion of Neural Stem Cell–Attracting Cytokines
Authors: Perrigue Patrick M. , Silva Michael E. , Warden Charles D. , Feng Nathan L. , Reid Michael A. , Mota Daniel J. , Joseph Lauren P. , Tian Yangzi Isabel , Glackin Carlotta A. , Gutova Margarita , Najbauer Joseph , Aboody Karen S. , Barish Michael E.
Published: April 2023

Table S1. Ratios (U251.JMJD3wt vs. vector control) and p-values for 37,814 transcripts and 20,661 genes (duplicate transcripts removed) affected by JMJD3 over-expression in U251 cells.
Supplementary Figure 1 from Hypoxia Promotes Dissemination and Colonization in New Bone Marrow Niches in Waldenström Macroglobulinemia
Authors: Muz Barbara , de la Puente Pilar , Azab Feda , Ghobrial Irene M. , Azab Abdel Kareem
Published: April 2023

Supplementary Figure 1. Hypoxia regulates WM cell formation of clumps in an E-cadherin-dependent manner. The effect of E-cadherin blocking antibody (5 μg/mL) on the size of colonies created by BCWM.1 cells in normoxia or hypoxia normalized to normoxic untreated cells (A); and on the colony formation by BCWM.1 cells as shown by representative pictures (scale bar represents 1 micrometer) (B).
Supplemental Tables 1 - 4 from LncRNA Expression Discriminates Karyotype and Predicts Survival in B-Lymphoblastic Leukemia
Authors: Fernando Thilini R. , Rodriguez-Malave Norma I. , Waters Ella V. , Yan Weihong , Casero David , Basso Giuseppe , Pigazzi Martina , Rao Dinesh S.
Published: April 2023

Supplemental Tables 1 - 4. Supplemental Table 1: Patient characteristics for use in this study. Supplemental Table 2: Correlational bivariate analyses between ordinal variable clinicopathologic characteristics. Supplemental Table 3: Results of Cox Regression analysis using BALR-2, Translocation, and Prednisone Response as co-variates.
Supplemental Figure S1 from The Histone Demethylase Jumonji Coordinates Cellular Senescence Including Secretion of Neural Stem Cell–Attracting Cytokines
Authors: Perrigue Patrick M. , Silva Michael E. , Warden Charles D. , Feng Nathan L. , Reid Michael A. , Mota Daniel J. , Joseph Lauren P. , Tian Yangzi Isabel , Glackin Carlotta A. , Gutova Margarita , Najbauer Joseph , Aboody Karen S. , Barish Michael E.
Published: April 2023

Figure S1. Effect of JMJD3 on nuclear architecture.
Supplemental Information from LncRNA Expression Discriminates Karyotype and Predicts Survival in B-Lymphoblastic Leukemia
Authors: Fernando Thilini R. , Rodriguez-Malave Norma I. , Waters Ella V. , Yan Weihong , Casero David , Basso Giuseppe , Pigazzi Martina , Rao Dinesh S.
Published: April 2023

Supplemental Information. Additional Methods and Supplemental Figure Legends
Supplemental Figures 1-7 from LncRNA Expression Discriminates Karyotype and Predicts Survival in B-Lymphoblastic Leukemia
Authors: Fernando Thilini R. , Rodriguez-Malave Norma I. , Waters Ella V. , Yan Weihong , Casero David , Basso Giuseppe , Pigazzi Martina , Rao Dinesh S.
Published: April 2023

Supplemental Figures 1-7. Supplemental Figure 1: Schematic depiction of the pipeline to determine pathophysiologically important lncRNAs. Supplemental Figure 2: LncRNA expression can predict the cytogenetic subtype of B-ALL. Supplemental Figure 3: Two step cluster analysis identified two clusters of expressors. Supplemental Figure 4: LncRNA positional information and molecular characterization of BALR-2. Supplemental Figure 5: BALR-2 has an expression pattern similar to known glucocorticoid genes. Supplemental Figure 6: Critical glucocorticoid responsive genes show altered expression after knockdown of BALR-2 in leukemic cell lines, mirroring the effects of glucocorticoid receptor engagement. Supplemental Figure 7: Proposed mechanism of action of BALR-2 in the glucocorticoid response pathway.
Supplementary Online Methods from PPARδ Interacts with the Hippo Coactivator YAP1 to Promote SOX9 Expression and Gastric Cancer Progression
Authors: Song Shumei , Wang Zhenning , Li Yuan , Ma Lang , Jin Jiankang , Scott Ailing W. , Xu Yan , Estrella Jeannelyn Santiano , Song Yongxi , Liu Bin , Johnson Randy L. , Ajani Jaffer A.
Published: April 2023

Supplementary Online Methods
Supplementary Tables S1-S8 from Interplay Between V-ATPase G1 and Small EV-miRNAs Modulates ERK1/2 Activation in GBM Stem Cells and Nonneoplastic Milieu
Authors: Bertolini Irene , Storaci Alessandra Maria , Terrasi Andrea , Cristofori Andrea Di , Locatelli Marco , Caroli Manuela , Ferrero Stefano , Altieri Dario C. , Vaira Valentina
Published: April 2023

Table S1. Proteins investigated by the PathScan Intracellular Signaling Membrane Array Kit in MG cells after coculture with small EVs. Table S2. Significant analysis of microarray (SAM) of small EVs miRNAs. Table S3. KEGG or Reactome pathways enrichment of miRNA's predicted targets. Table S4. Analysis of possible targeted pathways of the predicted miRNA targets with WebGestalt. Table S5. List of genes investigated with the Human Molecular Mechanisms of Cancer 96-well plate. Table S6. Targets of the differentially expressed miRNAs searched using miRTargetLink Human web tool. Table S7. List of TaqMan Assay used to evaluate gene expression. Table S8. List of investigated genes in sEV derived from V1G1LOW or -HIGH NS.
FigureS6 from Clinical Characteristics and Exploratory Genomic Analyses of Germline BRCA1 or BRCA2 Mutations in Breast Cancer
Authors: Park Sehhoon , Lee Eunjin , Park Seri , Lee Sohee , Nam Seok Jin , Kim Seok Won , Lee Jeong Eon , Yu Jong-Han , Kim Ji-Yeon , Ahn Jin Seok , Im Young-Hyuck , Park Woong-Yang , Park Kyunghee , Park Yeon Hee
Published: April 2023

Figure S6. (A) Volcano plot of GSVA analyses showing the difference between samples with gBRCA1 and gBRCA2 mutations. (B) Gene sets enriched in either gBRCA1 mutants or gBRCA2 mutants.
FigureS4 from Clinical Characteristics and Exploratory Genomic Analyses of Germline BRCA1 or BRCA2 Mutations in Breast Cancer
Authors: Park Sehhoon , Lee Eunjin , Park Seri , Lee Sohee , Nam Seok Jin , Kim Seok Won , Lee Jeong Eon , Yu Jong-Han , Kim Ji-Yeon , Ahn Jin Seok , Im Young-Hyuck , Park Woong-Yang , Park Kyunghee , Park Yeon Hee
Published: April 2023

Figure S4. Gene expression profile of pre-selected representative genes of interest based on concordance of immunohistochemistry (IHC) subtype and molecular subtype identified by PAM50. (IHC subtype > PAM50 subtype)
FigureS2 from Clinical Characteristics and Exploratory Genomic Analyses of Germline BRCA1 or BRCA2 Mutations in Breast Cancer
Authors: Park Sehhoon , Lee Eunjin , Park Seri , Lee Sohee , Nam Seok Jin , Kim Seok Won , Lee Jeong Eon , Yu Jong-Han , Kim Ji-Yeon , Ahn Jin Seok , Im Young-Hyuck , Park Woong-Yang , Park Kyunghee , Park Yeon Hee
Published: April 2023

Figure S2. Hazard ratio based on individual mutations in BRCA2 and survival curves from representative loci and ranges.
FigureS1 from Clinical Characteristics and Exploratory Genomic Analyses of Germline BRCA1 or BRCA2 Mutations in Breast Cancer
Authors: Park Sehhoon , Lee Eunjin , Park Seri , Lee Sohee , Nam Seok Jin , Kim Seok Won , Lee Jeong Eon , Yu Jong-Han , Kim Ji-Yeon , Ahn Jin Seok , Im Young-Hyuck , Park Woong-Yang , Park Kyunghee , Park Yeon Hee
Published: April 2023

Figure S1. (A) Statistics for deep target sequencing data (CancerSCANTM) from study patients (n = 45). (B) Quality control data for whole transcriptome sequencing from the study population (n = 34).
Supplementary Material and Methods and Supplementary Figure Legends from Structure, Dynamics, and Functionality of Tankyrase Inhibitor-Induced Degradasomes
Authors: Thorvaldsen Tor Espen , Pedersen Nina Marie , Wenzel Eva M. , Schultz Sebastian W. , Brech Andreas , Liestøl Knut , Waaler Jo , Krauss Stefan , Stenmark Harald
Published: April 2023

Supplementary material and methods and Supplementary figure legends
Supplementary Figure 8 from Structure, Dynamics, and Functionality of Tankyrase Inhibitor-Induced Degradasomes
Authors: Thorvaldsen Tor Espen , Pedersen Nina Marie , Wenzel Eva M. , Schultz Sebastian W. , Brech Andreas , Liestøl Knut , Waaler Jo , Krauss Stefan , Stenmark Harald
Published: April 2023

AXIN2 and Î²-catenin colocalize with GFP-TNKS1 in cytoplasmic degradasomes shortly after addition of G007-LK.
Supplementary Figure 6 from Structure, Dynamics, and Functionality of Tankyrase Inhibitor-Induced Degradasomes
Authors: Thorvaldsen Tor Espen , Pedersen Nina Marie , Wenzel Eva M. , Schultz Sebastian W. , Brech Andreas , Liestøl Knut , Waaler Jo , Krauss Stefan , Stenmark Harald
Published: April 2023

G007-LK-treatment in different CRC cell lines.
Supplementary Figure legends from Activation of AXL as a Preclinical Acquired Resistance Mechanism Against Osimertinib Treatment in EGFR-Mutant Non–Small Cell Lung Cancer Cells
Authors: Namba Kei , Shien Kazuhiko , Takahashi Yuta , Torigoe Hidejiro , Sato Hiroki , Yoshioka Takahiro , Takeda Tatsuaki , Kurihara Eisuke , Ogoshi Yusuke , Yamamoto Hiromasa , Soh Junichi , Tomida Shuta , Toyooka Shinichi
Published: April 2023

Supplementary Figure Legends
Supplementary figure 5 from High-Fat Diet-Induced Complement Activation Mediates Intestinal Inflammation and Neoplasia, Independent of Obesity
Authors: Doerner Stephanie K. , Reis Edimara S. , Leung Elaine S. , Ko Justine S. , Heaney Jason D. , Berger Nathan A. , Lambris John D. , Nadeau Joseph H.
Published: April 2023

S5. Deficiency in complement component C3 reduces polyp number and mass in a dose-dependent manner.
Supplementary figure 2 from High-Fat Diet-Induced Complement Activation Mediates Intestinal Inflammation and Neoplasia, Independent of Obesity
Authors: Doerner Stephanie K. , Reis Edimara S. , Leung Elaine S. , Ko Justine S. , Heaney Jason D. , Berger Nathan A. , Lambris John D. , Nadeau Joseph H.
Published: April 2023

S2. Type of dietary fat, not obesity status modulates polyp numbers - the 30 day study.
Supplementary Table S2 from Identification of Endogenous Adenomatous Polyposis Coli Interaction Partners and β-Catenin–Independent Targets by Proteomics
Authors: Popow Olesja , Paulo João A. , Tatham Michael H. , Volk Melanie S. , Rojas-Fernandez Alejandro , Loyer Nicolas , Newton Ian P. , Januschke Jens , Haigis Kevin M. , Näthke Inke
Published: April 2023

Beta-catenin-independent and -dependent APC targets identified by TMT label and label-free mass spectrometry
Supplementary Table S1 from Identification of Endogenous Adenomatous Polyposis Coli Interaction Partners and β-Catenin–Independent Targets by Proteomics
Authors: Popow Olesja , Paulo João A. , Tatham Michael H. , Volk Melanie S. , Rojas-Fernandez Alejandro , Loyer Nicolas , Newton Ian P. , Januschke Jens , Haigis Kevin M. , Näthke Inke
Published: April 2023

Proteins measured by APC affinity enrichment-mass spectrometry and enrichment analysis of APC interactors
Figure S6 from Identification of Endogenous Adenomatous Polyposis Coli Interaction Partners and β-Catenin–Independent Targets by Proteomics
Authors: Popow Olesja , Paulo João A. , Tatham Michael H. , Volk Melanie S. , Rojas-Fernandez Alejandro , Loyer Nicolas , Newton Ian P. , Januschke Jens , Haigis Kevin M. , Näthke Inke
Published: April 2023

MINK1 regulation by beta-catenin and cullin-RING ubiquitin ligases. MINK1 localization and functional consequences of MINK1 overexpression
Supplementary Figure from Treatment Efficacy and Resistance Mechanisms Using the Second-Generation ALK Inhibitor AP26113 in Human NPM-ALK–Positive Anaplastic Large Cell Lymphoma
Authors: Ceccon M. , Mologni L. , Giudici G. , Piazza R. , Pirola A. , Fontana D. , Gambacorti-Passerini C.
Published: April 2023

Supplementary Figure 2. NPM-ALK is overexpressed in AP26113 resistant KARPAS-derived cell lines. (A) A representative western blot showing NPM-ALK expression in corresponding cell lines compared to the loading control β-actin is shown. Densitometry values were normalized on the corresponding loading control on triplicates. (B) Histograms related to densitometric analysis are shown.
Supplementary Figure from Treatment Efficacy and Resistance Mechanisms Using the Second-Generation ALK Inhibitor AP26113 in Human NPM-ALK–Positive Anaplastic Large Cell Lymphoma
Authors: Ceccon M. , Mologni L. , Giudici G. , Piazza R. , Pirola A. , Fontana D. , Gambacorti-Passerini C.
Published: April 2023

Supplementary Figure 3. Whole exome sequencing and copy number data on K299AR300D results are shown: (A) Copy number and allelic imbalance/loss of heterozigosity analyses (B) the table shows the missense mutations, corresponding substitutions and the percentage of mutated nucleotides detected in the K299AR300D (MutRatio) and parental cell line (CtrlRatio).
Figure S3 from Identification of Endogenous Adenomatous Polyposis Coli Interaction Partners and β-Catenin–Independent Targets by Proteomics
Authors: Popow Olesja , Paulo João A. , Tatham Michael H. , Volk Melanie S. , Rojas-Fernandez Alejandro , Loyer Nicolas , Newton Ian P. , Januschke Jens , Haigis Kevin M. , Näthke Inke
Published: April 2023

Control APC interactome network
Supplementary Figure 7A from Treatment Efficacy and Resistance Mechanisms Using the Second-Generation ALK Inhibitor AP26113 in Human NPM-ALK–Positive Anaplastic Large Cell Lymphoma
Authors: Ceccon M. , Mologni L. , Giudici G. , Piazza R. , Pirola A. , Fontana D. , Gambacorti-Passerini C.
Published: April 2023

Supplementary Figure 7A. Histograms with error bars summarize the densitometric analysis of western blot panels shown in figure 1
Figure S1 from Identification of Endogenous Adenomatous Polyposis Coli Interaction Partners and β-Catenin–Independent Targets by Proteomics
Authors: Popow Olesja , Paulo João A. , Tatham Michael H. , Volk Melanie S. , Rojas-Fernandez Alejandro , Loyer Nicolas , Newton Ian P. , Januschke Jens , Haigis Kevin M. , Näthke Inke
Published: April 2023

APC Affinity enrichment-mass spectrometry (AE-MS)
Data Supplement from Targeting TBK1 Inhibits Migration and Resistance to MEK Inhibitors in Mutant NRAS Melanoma
Authors: Vu Ha Linh , Aplin Andrew E.
Published: April 2023

Figure S1. IKKepsilon expression in mutant NRAS melanoma cells. Figure S2. TBK1 depletion inhibits migration and invasion of melanoma cells. Figure S3. Selectivity profile of AZ909. Figure S4. Evaluation of apoptotic proteins involved in targeting TBK1 and MEK.
Figure S4 from Estrogen Drives Cellular Transformation and Mutagenesis in Cells Expressing the Breast Cancer–Associated R438W DNA Polymerase Lambda Protein
Authors: Nemec Antonia A. , Bush Korie B. , Towle-Weicksel Jamie B. , Taylor B. Frazier , Schulz Vincent , Weidhaas Joanne B. , Tuck David P. , Sweasy Joann B.
Published: April 2023

Treatment with estrogen does not affect cellular proliferation.
Figure S1 from Estrogen Drives Cellular Transformation and Mutagenesis in Cells Expressing the Breast Cancer–Associated R438W DNA Polymerase Lambda Protein
Authors: Nemec Antonia A. , Bush Korie B. , Towle-Weicksel Jamie B. , Taylor B. Frazier , Schulz Vincent , Weidhaas Joanne B. , Tuck David P. , Sweasy Joann B.
Published: April 2023

Flowchart of the identification of SNPs from breast cancer patients.
Figure S5: Angiogenesis of PTC and ATC orthotopic tumors is not affected by FAK inhibition in vivo. from FAK Expression, Not Kinase Activity, Is a Key Mediator of Thyroid Tumorigenesis and Protumorigenic Processes
Authors: Kessler Brittelle E. , Sharma Vibha , Zhou Qiong , Jing Xia , Pike Laura A. , Kerege Anna A. , Sams Sharon B. , Schweppe Rebecca E.
Published: April 2023

IHC staining on (A) BCPAP and (B) 8505C orthotopic thyroid tumors for CD34, an endothelial cell marker, was performed on sections of each tumor. Sections were examined under low magnification for representative areas of tumor. Three 20x fields were selected with the highest density of vessels. Vessels visualized by CD34 IHC staining were counted and counts averaged to determine the mean vascular density (MVD). Results are MVD {plus minus} SEM.
Supplemental Methods, Figures 1-5 and Table 1 from DAPK3 Suppresses Acini Morphogenesis and Is Required for Mouse Development
Authors: Kocher Brandon A. , White Lynn S. , Piwnica-Worms David
Published: April 2023

Supplemental Methods, Figures 1-5 and Table 1. Supplementary Figure 1. Loss of DAPK3 does not transform MCF10A cells. Supplementary Figure 2. DAPK3-depleted acini display increased ethidium bromide (EtBR) positive cells. Supplementary Figure 3. (A) Stable overexpression of a previously confirmed DAPK3 kinase dead K42A point mutant does not alter microscopic colony growth. (B) Overexpression of DAPK3 in 293T cells increases phosphorylation of MLC-2 in a kinase-dependent manner. Supplementary Figure 4. DAPK3-deficient acini do not display increased activation of ERK or AKT. Supplementary Figure 5. ES cell lines relative to wildtype (WT) Supplementary Table I. Wildtype (Dapk3+/+) and heterozygous (Dapk3+/-) genotypes appear in near Mendelian ratios in both fetuses and adult mice with no observed homozygous knockout genotypes (Dapk3-/-).
Figure S1: Sensitivity to FAK inhibition is unaltered in response to fibronectin. from FAK Expression, Not Kinase Activity, Is a Key Mediator of Thyroid Tumorigenesis and Protumorigenic Processes
Authors: Kessler Brittelle E. , Sharma Vibha , Zhou Qiong , Jing Xia , Pike Laura A. , Kerege Anna A. , Sams Sharon B. , Schweppe Rebecca E.
Published: April 2023

BCPAP and 8505C cells were plated in 96-well plates with or without fibronectin and exposed to the indicated concentrations of PF-573,228 for 5 days. Results shown are mean percent growth {plus minus} SD of 2 experiments performed in triplicate.
Figure S6 from G-Protein-Coupled Estrogen Receptor 1 Promotes Gender Disparities in Hepatocellular Carcinoma via Modulation of SIN1 and mTOR Complex 2 Activity
Authors: Feng Guanying , Cai Jingshu , Huang Yunchuanxiang , Zhu Xianjun , Gong Bo , Yang Zhenglin , Yan Chunhong , Hu Zhuowei , Yang Lu , Wang Ziyan
Published: April 2023

Figure S6 shows that inhibition of GPER1 by G-15 reverses Sin1 expression and Sin1-mTORC2-AKT mediated hepatocyte proliferation.
Figure S5 from G-Protein-Coupled Estrogen Receptor 1 Promotes Gender Disparities in Hepatocellular Carcinoma via Modulation of SIN1 and mTOR Complex 2 Activity
Authors: Feng Guanying , Cai Jingshu , Huang Yunchuanxiang , Zhu Xianjun , Gong Bo , Yang Zhenglin , Yan Chunhong , Hu Zhuowei , Yang Lu , Wang Ziyan
Published: April 2023

Figure S5 proves that Sin1 expression is induced in hepatocytes from acute liver injury.
Supplementary Figure 2 from PARP1 Trapping by PARP Inhibitors Drives Cytotoxicity in Both Cancer Cells and Healthy Bone Marrow
Authors: Hopkins Todd A. , Ainsworth William B. , Ellis Paul A. , Donawho Cherrie K. , DiGiammarino Enrico L. , Panchal Sanjay C. , Abraham Vivek C. , Algire Mikkel A. , Shi Yan , Olson Amanda M. , Johnson Eric F. , Wilsbacher Julie L. , Maag David
Published: April 2023

Association of PARP1 and other histone proteins detected by Proximity Ligation Assay (PLA).
Figure S1 from G-Protein-Coupled Estrogen Receptor 1 Promotes Gender Disparities in Hepatocellular Carcinoma via Modulation of SIN1 and mTOR Complex 2 Activity
Authors: Feng Guanying , Cai Jingshu , Huang Yunchuanxiang , Zhu Xianjun , Gong Bo , Yang Zhenglin , Yan Chunhong , Hu Zhuowei , Yang Lu , Wang Ziyan
Published: April 2023

Figure S1 shows that SIN1 is upregulated and co-expressed with GPER1 in HCC.
Supplementary Table 1 from ERG Oncoprotein Inhibits ANXA2 Expression and Function in Prostate Cancer
Authors: Griner Nicholas B. , Young Denise , Chaudhary Pankaj , Mohamed Ahmed A. , Huang Wei , Chen Yongmei , Sreenath Taduru , Dobi Albert , Petrovics Gyorgy , Vishwanatha Jamboor K. , Sesterhenn Isabell A. , Srivastava Shiv , Tan Shyh-Han
Published: April 2023

Supplementary Table 1. Table of primer sequences and PCR conditions used
Supplemental Table 1 from Targeting RRM2 and Mutant BRAF Is a Novel Combinatorial Strategy for Melanoma
Authors: Fatkhutdinov Nail , Sproesser Katrin , Krepler Clemens , Liu Qin , Brafford Patricia A. , Herlyn Meenhard , Aird Katherine M. , Zhang Rugang
Published: April 2023

Supplemental Table 1
Supplemental Figure S9 from Disruption of Proline Synthesis in Melanoma Inhibits Protein Production Mediated by the GCN2 Pathway
Authors: Kardos Gregory R. , Wastyk Hannah C. , Robertson Gavin P.
Published: April 2023

Supplemental Figure S9. P5CS protein knockdown did not inactivate the mTOR pathway.
Supplemental Figure S5 from Disruption of Proline Synthesis in Melanoma Inhibits Protein Production Mediated by the GCN2 Pathway
Authors: Kardos Gregory R. , Wastyk Hannah C. , Robertson Gavin P.
Published: April 2023

Supplemental Figure S5. P5CS protein knockdown did not alter AKT or MAPK pathways or cause changes in apoptosis or autophagy.
Supplemental Figure S4 from Disruption of Proline Synthesis in Melanoma Inhibits Protein Production Mediated by the GCN2 Pathway
Authors: Kardos Gregory R. , Wastyk Hannah C. , Robertson Gavin P.
Published: April 2023

Supplemental Figure S4. P5CS protein levels decreased in xenografted tumor lysates.
Supplementary Table S2 from The ERG-Regulated LINC00920 Promotes Prostate Cancer Cell Survival via the 14-3-3ϵ–FOXO Pathway
Authors: Angeles Arlou Kristina , Heckmann Doreen , Flosdorf Niclas , Duensing Stefan , Sültmann Holger
Published: April 2023

Degenerate and gene-specific primer (GSP) oligos used for 5'- and 3'- rapid amplification of cDNA ends (RACE).
Supplementary Table S1 from The ERG-Regulated LINC00920 Promotes Prostate Cancer Cell Survival via the 14-3-3ϵ–FOXO Pathway
Authors: Angeles Arlou Kristina , Heckmann Doreen , Flosdorf Niclas , Duensing Stefan , Sültmann Holger
Published: April 2023

Quantitative PCR primer oligos used in this study.
Supplemental Figure Legends from Disruption of Proline Synthesis in Melanoma Inhibits Protein Production Mediated by the GCN2 Pathway
Authors: Kardos Gregory R. , Wastyk Hannah C. , Robertson Gavin P.
Published: April 2023

Supplemental figure legends for supplemental figures.
Supplementary Figures 1-5 from The ERG-Regulated LINC00920 Promotes Prostate Cancer Cell Survival via the 14-3-3ϵ–FOXO Pathway
Authors: Angeles Arlou Kristina , Heckmann Doreen , Flosdorf Niclas , Duensing Stefan , Sültmann Holger
Published: April 2023

Supplementary Figure S1. Detailed view of LINC00920 exon 2 based on the GENCODE annotation. Supplementary Figure S2. LINC00920 knockdown increases the doubling time of VCaP cells. Supplementary Figure S3. LINC00920 does not affect ERG expression in VCaP cells. Supplementary Figure S4. Perturbation of LINC00920 levels in VCaP cells also influences expression of FOXO targets. Supplementary Figure S5. FOXO protein levels were not influenced by LINC00920 knockdown.
Supplementary Data from R-spondin2 Suppresses the Progression of Hepatocellular Carcinoma via MAPK Signaling Pathway
Authors: Zheng Chang , Zhou Fan , Shi Liang Liang , Xu Gui Fang , Zhang Bin , Wang Lei , Zhuge Yuzheng , Zou Xiao Ping , Wang Yi
Published: April 2023

Supplemental Figures 1 and 2, Methods
Supplemental Table 1 from Prostate Epithelial RON Signaling Promotes M2 Macrophage Activation to Drive Prostate Tumor Growth and Progression
Authors: Sullivan Camille , Brown Nicholas E. , Vasiliauskas Juozas , Pathrose Peterson , Starnes Sandra L. , Waltz Susan E.
Published: April 2023

Supplemental Table 1. Primers for Genotyping and qRT-PCR
Supplemental Figure 3 from Prostate Epithelial RON Signaling Promotes M2 Macrophage Activation to Drive Prostate Tumor Growth and Progression
Authors: Sullivan Camille , Brown Nicholas E. , Vasiliauskas Juozas , Pathrose Peterson , Starnes Sandra L. , Waltz Susan E.
Published: April 2023

Supplemental Figure 3. Prostate epithelial RON promotes phosphorylated and total STAT3 protein expression in TAMs.
Supplemental Figure 1 from Prostate Epithelial RON Signaling Promotes M2 Macrophage Activation to Drive Prostate Tumor Growth and Progression
Authors: Sullivan Camille , Brown Nicholas E. , Vasiliauskas Juozas , Pathrose Peterson , Starnes Sandra L. , Waltz Susan E.
Published: April 2023

Supplemental Figure 1. Loss of RON in the prostate epithelium does not affect prostate development.
Supplemental Table 4 from Genomic Integration of High-Risk HPV Alters Gene Expression in Oropharyngeal Squamous Cell Carcinoma
Authors: Walline Heather M. , Komarck Christine M. , McHugh Jonathan B. , Bellile Emily L. , Brenner J. Chad , Prince Mark E. , McKean Erin L. , Chepeha Douglas B. , Wolf Gregory T. , Worden Francis P. , Bradford Carol R. , Carey Thomas E.
Published: April 2023

Number of viral-cellular amplicons generated and sequenced from responsive and recurrent tumors.
Supplemental Table 3 from Genomic Integration of High-Risk HPV Alters Gene Expression in Oropharyngeal Squamous Cell Carcinoma
Authors: Walline Heather M. , Komarck Christine M. , McHugh Jonathan B. , Bellile Emily L. , Brenner J. Chad , Prince Mark E. , McKean Erin L. , Chepeha Douglas B. , Wolf Gregory T. , Worden Francis P. , Bradford Carol R. , Carey Thomas E.
Published: April 2023

DIPS primer sequences and predicted episome-only amplicon sizes.
Supplemental Table 1 from Genomic Integration of High-Risk HPV Alters Gene Expression in Oropharyngeal Squamous Cell Carcinoma
Authors: Walline Heather M. , Komarck Christine M. , McHugh Jonathan B. , Bellile Emily L. , Brenner J. Chad , Prince Mark E. , McKean Erin L. , Chepeha Douglas B. , Wolf Gregory T. , Worden Francis P. , Bradford Carol R. , Carey Thomas E.
Published: April 2023

RT-PCR assay primer sequences and corresponding amplicon sizes.
Suppl. Fig. 1-6 from Adapting a Drug Screening Platform to Discover Associations of Molecular Targeted Radiosensitizers with Genomic Biomarkers
Authors: Liu Qi , Wang Meng , Kern Ashley M. , Khaled Saman , Han Jing , Yeap Beow Y. , Hong Theodore S. , Settleman Jeff , Benes Cyril H. , Held Kathryn D. , Efstathiou Jason A. , Willers Henning
Published: April 2023

Suppl. Fig. 1-6. Fig. S1. Testing and optimization of short-term cell survival assays. S2. SRF2Gy measurements and correlations. S3. Analysis of apoptosis after drug/IR treatments. S4. Analysis of senescence after drug/IR treatments. S5. Radiosensitizing effects of everolimus. S6. Radiosensitzing effects of midostaurin.
Supplementary Figure 1 from MNK Inhibition Disrupts Mesenchymal Glioma Stem Cells and Prolongs Survival in a Mouse Model of Glioblastoma
Authors: Bell Jonathan B. , Eckerdt Frank D. , Alley Kristen , Magnusson Lisa P. , Hussain Hridi , Bi Yingtao , Arslan Ahmet Dirim , Clymer Jessica , Alvarez Angel A. , Goldman Stewart , Cheng Shi-Yuan , Nakano Ichiro , Horbinski Craig , Davuluri Ramana V. , James C. David , Platanias Leonidas C.
Published: April 2023

Supplementary materials and methods for ALDEFLUOR assay and CD44 staining and data showing that patient-derived GSCs are enriched for ALDH+ cells and express CD44.
Supplemental Table S6 from Inhibition of S-Adenosylmethionine-Dependent Methyltransferase Attenuates TGFβ1-Induced EMT and Metastasis in Pancreatic Cancer: Putative Roles of miR-663a and miR-4787-5p
Authors: Mody Hardik R. , Hung Sau Wai , AlSaggar Mohammad , Griffin Jazmine , Govindarajan Rajgopal
Published: April 2023

Table S6. DZNep partially reversed the downregulation of miRNAs seen in PDAC.
Supplemental Table 2 from Calcipotriol Targets LRP6 to Inhibit Wnt Signaling in Pancreatic Cancer
Authors: Arensman Michael D. , Nguyen Phillip , Kershaw Kathleen M. , Lay Anna R. , Ostertag-Hill Claire A. , Sherman Mara H. , Downes Michael , Liddle Christopher , Evans Ronald M. , Dawson David W.
Published: April 2023

Supplemental Table 2. RNA-Seq analysis showing significant gene expression changes following 6 hour calcipotriol treatment of AsPC-1 cell line
Figure S1 from NF-κB–Activated miR-574 Promotes Multiple Malignant and Metastatic Phenotypes by Targeting BNIP3 in Thyroid Carcinoma
Authors: Zhang Zhe-Jia , Xiao Qian , Li Xin-Ying
Published: April 2023

Figure S1. The NF-κB/miR-574 axis in TC cells regulated cell apoptosis and tube formation of HUVECs.
Figure S7 from AKT1E17K Activates Focal Adhesion Kinase and Promotes Melanoma Brain Metastasis
Authors: Kircher David A. , Trombetti Kirby A. , Silvis Mark R. , Parkman Gennie L. , Fischer Grant M. , Angel Stephanie N. , Stehn Christopher M. , Strain Sean C. , Grossmann Allie H. , Duffy Keith L. , Boucher Kenneth M. , McMahon Martin , Davies Michael A. , Mendoza Michelle C. , VanBrocklin Matthew W. , Holmen Sheri L.
Published: April 2023

Supplementary Figure 7. AKT1E17K does not promote cell proliferation compared with controls.
Supplementary Table S1 from Integration of Downstream Signals of Insulin-like Growth Factor-1 Receptor by Endoplasmic Reticulum Stress for Estrogen-Induced Growth or Apoptosis in Breast Cancer Cells
Authors: Fan Ping , Cunliffe Heather E. , Maximov Philipp Y. , Agboke Fadeke A. , McDaniel Russell E. , Zou Xiaojun , Ramos Pilar , Russell Megan L. , Jordan V. Craig
Published: April 2023

Basal expression levels of stress-related genes in MCF-7:5C and MCF-7:2A cells.
Supplementary Figure S6 from Integration of Downstream Signals of Insulin-like Growth Factor-1 Receptor by Endoplasmic Reticulum Stress for Estrogen-Induced Growth or Apoptosis in Breast Cancer Cells
Authors: Fan Ping , Cunliffe Heather E. , Maximov Philipp Y. , Agboke Fadeke A. , McDaniel Russell E. , Zou Xiaojun , Ramos Pilar , Russell Megan L. , Jordan V. Craig
Published: April 2023

MCF-7:5C cells were transfected with scrambled, PERK (A), IRE1Î± (B), and ATF6 (C) siRNAs for 72 hours. Then, cells were treated with vehicle (0.1% EtOH; con) or E2 (10-9 mol/L) for 72 hours. Annexin V binding assay was used to detect apoptosis. (D). Cell lysates were harvested after transfected with scrambled, PERK, IRE1Î±, and ATF6 siRNAs for 72 hours. IGF-1R levels were detected through Western blot. Î²-actin was measured as loading control.
Supplementary Figure S5 from Integration of Downstream Signals of Insulin-like Growth Factor-1 Receptor by Endoplasmic Reticulum Stress for Estrogen-Induced Growth or Apoptosis in Breast Cancer Cells
Authors: Fan Ping , Cunliffe Heather E. , Maximov Philipp Y. , Agboke Fadeke A. , McDaniel Russell E. , Zou Xiaojun , Ramos Pilar , Russell Megan L. , Jordan V. Craig
Published: April 2023

(A) The phosphorylation of Akt was blocked by the inhibitors of IGF-1R and PI3K. MCF-7:5C cells were treated with vehicle (0.1% DMSO; con), E2 (10-9 mol/L), AG1024 (5Ã—10-6 mol/L), E2 (10-9 mol/L) plus AG1024 (5Ã—10-6 mol/L), LY294002 (10-6 mol/L), and E2 (10-9 mol/L) plus LY294002 (10-6 mol/L) for 48 hours. p-Akt was examined by Western blot. Total Akt was measured as loading control. (B) Effects of the c-Src inhibitor on the expression of Akt. MCF-7:5C cells were treated with vehicle (0.1% DMSO; con), E2 (10-9 mol/L), PP2 (5Ã—10-6 mol/L), and E2 (10-9 mol/L) plus PP2 (5Ã—10-6 mol/L) for different time points indicated. p-Akt and total-Akt were examined by Western blot. Î²-actin was measured as loading control.
Figure S2 from AKT1E17K Activates Focal Adhesion Kinase and Promotes Melanoma Brain Metastasis
Authors: Kircher David A. , Trombetti Kirby A. , Silvis Mark R. , Parkman Gennie L. , Fischer Grant M. , Angel Stephanie N. , Stehn Christopher M. , Strain Sean C. , Grossmann Allie H. , Duffy Keith L. , Boucher Kenneth M. , McMahon Martin , Davies Michael A. , Mendoza Michelle C. , VanBrocklin Matthew W. , Holmen Sheri L.
Published: April 2023

Supplementary Figure 2. Kinase-dead AKT1E17K (AKT1E17K, K179M) and wild type AKT1 expressing melanomas do not impact survival compared with Cre-only controls (BRAFV600E;Cdkn2a-/-;Pten-/-).
Supplementary Figure S1 from PTK6 Potentiates Gemcitabine-Induced Apoptosis by Prolonging S-phase and Enhancing DNA Damage in Pancreatic Cancer
Authors: Ono Hiroaki , Basson Marc D. , Ito Hiromichi
Published: April 2023

Supplementary Figure S1. (A) The PTK6 gene silencing by alternative siRNA targeting different sequences of PTK6. (B) Effect of PTK6 gene-silencing on cytotoxity of gemcitabine. Cancer cells were transfected either with siRNA targeting to PTK6 or non-specific control siRNA for 48 hours prior to treatment with gemcitabine. Then cells were treated with gemcitabine at 25nM for MIAPaCa2 and 1 μM for Panc1 for 96 hrs.
Supplementary Figure S3 from A PSCA/PGRN–NF-κB–Integrin–α4 Axis Promotes Prostate Cancer Cell Adhesion to Bone Marrow Endothelium and Enhances Metastatic Potential
Authors: Zhao Zhigang , Li Ermao , Luo Lianmin , Zhao Shankun , Liu Luhao , Wang Jiamin , Kang Ran , Luo Jintai
Published: April 2023

The effects of blocking antibodies to integrins on PCa cell adherence and migration. A. Adhesion assays showed that the GFP-labeled cancer cells (Green) adhesion to BMECs could be significantly blocked by the antibodies to ITGA4, but not to integrins alpha v, β1, and β3. B. The TEM assay showed the similar results with A. Error bars represent the mean {plus minus} S.D. of three independent experiments. *P < 0.05, **P < 0.01 and ***P < 0.001.
Supplementary Figure Legends from miR-155 Overexpression Promotes Genomic Instability by Reducing High-fidelity Polymerase Delta Expression and Activating Error-Prone DSB Repair
Authors: Czochor Jennifer R. , Sulkowski Parker , Glazer Peter M.
Published: April 2023

Legends for all 4 supplemental figures
Supplementary Figure 2 from miR-155 Overexpression Promotes Genomic Instability by Reducing High-fidelity Polymerase Delta Expression and Activating Error-Prone DSB Repair
Authors: Czochor Jennifer R. , Sulkowski Parker , Glazer Peter M.
Published: April 2023

Validation of DSB repair assays.
Supplementary Figure 1 from Targeting Nodal in Conjunction with Dacarbazine Induces Synergistic Anticancer Effects in Metastatic Melanoma
Authors: Hardy Katharine M. , Strizzi Luigi , Margaryan Naira V. , Gupta Kanika , Murphy George F. , Scolyer Richard A. , Hendrix Mary J.C.
Published: April 2023

Effects on DTIC-treated melanoma cell lines.
Supplemental Figure 1 from miR-155 Overexpression Promotes Genomic Instability by Reducing High-fidelity Polymerase Delta Expression and Activating Error-Prone DSB Repair
Authors: Czochor Jennifer R. , Sulkowski Parker , Glazer Peter M.
Published: April 2023

Mutation pattern remains unchanged upon miR-155 over-expression in vivo.
Table S2 from Dynamic Epigenetic Regulation by Menin During Pancreatic Islet Tumor Formation
Authors: Lin Wenchu , Watanabe Hideo , Peng Shouyong , Francis Joshua M. , Kaplan Nathan , Pedamallu Chandra Sekhar , Ramachandran Aruna , Agoston Agoston , Bass Adam J. , Meyerson Matthew
Published: April 2023

Table S2. H3K4me3 Peaks in Men1 KO islets
Supplementary Fig. S5 from Dynamic Epigenetic Regulation by Menin During Pancreatic Islet Tumor Formation
Authors: Lin Wenchu , Watanabe Hideo , Peng Shouyong , Francis Joshua M. , Kaplan Nathan , Pedamallu Chandra Sekhar , Ramachandran Aruna , Agoston Agoston , Bass Adam J. , Meyerson Matthew
Published: April 2023

Supplementary Fig. S5. Time-dependent epigenetic changes at the promoters of Men1-dependent targets
Supplementary Figure 6 from A p53/ARF-Dependent Anticancer Barrier Activates Senescence and Blocks Tumorigenesis without Impacting Apoptosis
Authors: Sinha Vidya C. , Qin Lan , Li Yi
Published: April 2023

In contrast to premalignant lesions, ErbB2-initiated tumors in wildtype and ARF-null mammary glands exhibit comparable senescence and DDR.
Supplementary Figure 4 from A p53/ARF-Dependent Anticancer Barrier Activates Senescence and Blocks Tumorigenesis without Impacting Apoptosis
Authors: Sinha Vidya C. , Qin Lan , Li Yi
Published: April 2023

Loss of ARF does not impact proliferation, autophagy, or DNA damage complex formation.
Supplementary Figure 3 from A p53/ARF-Dependent Anticancer Barrier Activates Senescence and Blocks Tumorigenesis without Impacting Apoptosis
Authors: Sinha Vidya C. , Qin Lan , Li Yi
Published: April 2023

ARF-loss does not affect mammary gland development or rate of infection.
Supplementary Figure 2 from A p53/ARF-Dependent Anticancer Barrier Activates Senescence and Blocks Tumorigenesis without Impacting Apoptosis
Authors: Sinha Vidya C. , Qin Lan , Li Yi
Published: April 2023

p16 plays a minor role in mediating senescence in the mammary gland.
Supplementary Figure 1 from A p53/ARF-Dependent Anticancer Barrier Activates Senescence and Blocks Tumorigenesis without Impacting Apoptosis
Authors: Sinha Vidya C. , Qin Lan , Li Yi
Published: April 2023

Loss of ARF results in diminished p53-function and impaired senescence, but does not impact apoptosis.
Supplementary Figure Legends from Autocrine VEGF/VEGFR1 Signaling in a Subpopulation of Cells Associates with Aggressive Osteosarcoma
Authors: Ohba Tetsuro , Cates Justin M.M. , Cole Heather A. , Slosky David A. , Haro Hirotaka , Ando Takashi , Schwartz Herbert S. , Schoenecker Jonathan G.
Published: April 2023

PDF - 80K, Supplementary Figure Legends
Supplementary Figures and Methods from Cells Comprising the Prostate Cancer Microenvironment Lack Recurrent Clonal Somatic Genomic Aberrations
Authors: Bianchi-Frias Daniella , Basom Ryan , Delrow Jeffrey J. , Coleman Ilsa M. , Dakhova Olga , Qu Xiaoyu , Fang Min , Franco Omar E. , Ericson Nolan G. , Bielas Jason H. , Hayward Simon W. , True Lawrence , Morrissey Colm , Brown Lisha , Bhowmick Neil A. , Rowley David , Ittmann Michael , Nelson Peter S.
Published: April 2023

Figure S1. Copy number changes in PTEN region. Figure S2. Analysis of TP53 Aberrations. Figure S3. Allelic imbalance analysis. Figure S4. Example of HOXA9 immunohistochemistry and digital analysis output images. Figure S5. Gene expression analysis of genes within the 3 regions of copy number loss in CAS.