bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figure 4 from Loss of a Negative Feedback Loop Involving Pea3 and Cyclin D2 Is Required for Pea3-Induced Migration in Transformed Mammary Epithelial Cells
Authors: Ladam Franck , Damour Isabelle , Dumont Patrick , Kherrouche Zoulika , de Launoit Yvan , Tulasne David , Chotteau-Lelievre Anne
Published: April 2023

PDF file - 71K, Western blot analysis of Pea3 protein expression in the MMT and TAC cells. Effect of Pea3 and TGF-β1 on the expression of cell cycle related genes.
Supplementary Figure Legend from Dysregulating IRES-Dependent Translation Contributes to Overexpression of Oncogenic Aurora A Kinase
Authors: Dobson Tara , Chen Juan , Krushel Les A.
Published: April 2023

PDF file - 55K
Supplementary Figure 2 from Dysregulating IRES-Dependent Translation Contributes to Overexpression of Oncogenic Aurora A Kinase
Authors: Dobson Tara , Chen Juan , Krushel Les A.
Published: April 2023

PDF file - 36K, Cell cycle analysis of normal and immortalized cell lines.
Supplementary Figure 3 from RETRACTED: Minocycline Targets the NF-κB Nexus through Suppression of TGF-β1-TAK1-IκB Signaling in Ovarian Cancer
Authors: Ataie-Kachoie Parvin , Badar Samina , Morris David L. , Pourgholami Mohammad H.
Published: April 2023

PDF file - 1507K, Effect of minocycline on constitutive and TNF-α-induce NF-кB activation in HUVEC and HOSE cells.
Supplementary Figure Legend from NEDD9 Depletion Leads to MMP14 Inactivation by TIMP2 and Prevents Invasion and Metastasis
Authors: McLaughlin Sarah L. , Ice Ryan J. , Rajulapati Anuradha , Kozyulina Polina Y. , Livengood Ryan H. , Kozyreva Varvara K. , Loskutov Yuriy V. , Culp Mark V. , Weed Scott A. , Ivanov Alexey V. , Pugacheva Elena N.
Published: April 2023

PDF file - 73K
Supplementary Figure 1 from PPP2R2C Loss Promotes Castration-Resistance and Is Associated with Increased Prostate Cancer-Specific Mortality
Authors: Bluemn Eric G. , Spencer Elysia Sophie , Mecham Brigham , Gordon Ryan R. , Coleman Ilsa , Lewinshtein Daniel , Mostaghel Elahe , Zhang Xiaotun , Annis James , Grandori Carla , Porter Christopher , Nelson Peter S.
Published: April 2023

PDF, 133K, PPP2R2C knockdown does not significantly increase proliferation of prostate cancer cell lines grown in androgen-replete conditions.
Supplementary Figure Legends from Transcriptional Regulation of CXCR4 in Prostate Cancer: Significance of TMPRSS2-ERG Fusions
Authors: Singareddy Rajareddy , Semaan Louie , Conley-LaComb M. Katie , St. John Jason , Powell Katelyn , Iyer Matthew , Smith Daryn , Heilbrun Lance K. , Shi Dongping , Sakr Wael , Cher Michael L. , Chinni Sreenivasa R.
Published: April 2023

Supplementary Figure Legends - PDF file 86K, Description of supplementary figures
Supplementary Figure Legend from PHD4 Stimulates Tumor Angiogenesis in Osteosarcoma Cells via TGF-α
Authors: Klotzsche-von Ameln Anne , Prade Ina , Grosser Marianne , Kettelhake Antje , Rezaei Maryam , Chavakis Triantafyllos , Flamme Ingo , Wielockx Ben , Breier Georg
Published: April 2023

PDF file - 82K
Supplementary Figure 1 from PHD4 Stimulates Tumor Angiogenesis in Osteosarcoma Cells via TGF-α
Authors: Klotzsche-von Ameln Anne , Prade Ina , Grosser Marianne , Kettelhake Antje , Rezaei Maryam , Chavakis Triantafyllos , Flamme Ingo , Wielockx Ben , Breier Georg
Published: April 2023

PDF file - 72K, S1. PHD4 overexpression in eEPCs reduces HIF-2alpha levels under hypoxia.
Supplementary Figure 3 from Tumor-Secreted LOXL2 Activates Fibroblasts through FAK Signaling
Authors: Barker Holly E. , Bird Demelza , Lang Georgina , Erler Janine T.
Published: April 2023

PDF file - 205K, S3: Integrin Beta3 mediates LOXL2 driven fibroblast activation
Supplementary Figure 2 from Tumor-Secreted LOXL2 Activates Fibroblasts through FAK Signaling
Authors: Barker Holly E. , Bird Demelza , Lang Georgina , Erler Janine T.
Published: April 2023

PDF file - 911K, S2: Inhibition of LOXL2 in 4T1 CM reduces fibroblast branching on collagen and collagen contraction
Supplementary Figure 1 from Tumor-Secreted LOXL2 Activates Fibroblasts through FAK Signaling
Authors: Barker Holly E. , Bird Demelza , Lang Georgina , Erler Janine T.
Published: April 2023

PDF file - 82K, S1: 4T1 shLOXL2 CM has lower levels of LOXL2 protein and activity
Supplementary Figures 1 - 11 from The Twist Box Domain Is Required for Twist1-induced Prostate Cancer Metastasis
Authors: Gajula Rajendra P. , Chettiar Sivarajan T. , Williams Russell D. , Thiyagarajan Saravanan , Kato Yoshinori , Aziz Khaled , Wang Ruoqi , Gandhi Nishant , Wild Aaron T. , Vesuna Farhad , Ma Jinfang , Salih Tarek , Cades Jessica , Fertig Elana , Biswal Shyam , Burns Timothy F. , Chung Christine H. , Rudin Charles M. , Herman Joseph M. , Hales Russell K. , Raman Venu , An Steven S. , Tran Phuoc T.
Published: April 2023

PDF file - 1004K, S1. The Twist box domain is required for full Twist1 transcriptional activity. S2. Quantification of immunofluorescence from isogenic prostate cancer cell lines stably expressing Twist1 and Twist1-F191G. S3. The Twist box domain is required for full Twist1-induced EMT marker phenotypes of prostate cancer cells. S4. Twist1 overexpression induces temporal changes in the material properties of prostate cancer cells during their migration in a wound healing assay. S5. The overexpression of Twist1 or Twist1-F191G does not increase cellular proliferation of prostate cancer cells in vitro. S6. The Twist box domain is required for full Twist1-induced cellular migration in PC3 cells. S7. Twist1 overexpression increases cell traction forces of individual androgenindependent PC3 prostate cancer cells. S8. Twist1 overexpression confers radioresistance to prostate cancer cells which is attenuated by mutation of the Twist box domain. S9. The Twist box domain is required for Twist1-induced soft agar anchorageindependent growth of 22Rv1 prostate cancer cells. S10. Twist1 overexpression does not confer prostate cancer cells increased primary tumorigenicity and slows primary tumor cell growth in vivo. S11. The Twist box domain is required for full Twist1-induced expression of Hoxa9/HOXA9.
Supplementary Table 2 from The Impact of miRNA-Based Molecular Diagnostics and Treatment of NRF2-Stabilized Tumors
Authors: Yamamoto Shinsuke , Inoue Jun , Kawano Tatsuyuki , Kozaki Ken-ichi , Omura Ken , Inazawa Johji
Published: April 2023

XLSX file - 34K, Primers for qRT-PCR and mutation analysis.
Supplementary Figure 6 from The Impact of miRNA-Based Molecular Diagnostics and Treatment of NRF2-Stabilized Tumors
Authors: Yamamoto Shinsuke , Inoue Jun , Kawano Tatsuyuki , Kozaki Ken-ichi , Omura Ken , Inazawa Johji
Published: April 2023

PDF file - 115K, Identification of transcriptional target genes of NRF2 as the target of miR-507.
Supplementary Figure 5 from The Impact of miRNA-Based Molecular Diagnostics and Treatment of NRF2-Stabilized Tumors
Authors: Yamamoto Shinsuke , Inoue Jun , Kawano Tatsuyuki , Kozaki Ken-ichi , Omura Ken , Inazawa Johji
Published: April 2023

PDF file - 107K, Mutation analysis of NRF2 and KEAP1 genes in ESCC samples.
Supplementary Figure 2 from The Impact of miRNA-Based Molecular Diagnostics and Treatment of NRF2-Stabilized Tumors
Authors: Yamamoto Shinsuke , Inoue Jun , Kawano Tatsuyuki , Kozaki Ken-ichi , Omura Ken , Inazawa Johji
Published: April 2023

PDF file - 113K, Expression analysis of NRF2 target genes.
Supplementary Figure 2 from Molecular Dissection of AKT Activation in Lung Cancer Cell Lines
Authors: Guo Yanan , Du Jinyan , Kwiatkowski David J.
Published: April 2023

PDF file - 1756K, SRC and ERK1/2 activation in lung cancer cell lines, and response to dasatinib.
Supplementary Figure 2 from CYP1A1 Regulates Breast Cancer Proliferation and Survival
Authors: Rodriguez Mariangellys , Potter David A.
Published: April 2023

Supplementary Figure 2 - PDF file 64K, Effect of modulation of CYP1A1 activity on the growth of breast. cancer cells
Supplementary Table 1 from MET and ERBB2 Are Coexpressed in ERBB2+ Breast Cancer and Contribute to Innate Resistance
Authors: Paulson Amanda K. , Linklater Erik S. , Berghuis Bree D. , App Colleen A. , Oostendorp Leon D. , Paulson Jayne E. , Pettinga Jane E. , Melnik Marianne K. , Vande Woude George F. , Graveel Carrie R.
Published: April 2023

PDF - 39K, The ER, PR, and HER2 (ERBB2) status was determined by standardized immunohistochemical staining and pathological analysis at Spectrum Health. ER, PR, and HER2 scores are based on IHC guidelines recommended by the ASCO/CAP.
Supplementary Figures 1 - 6 from Interaction of Delta-like 1 Homolog (Drosophila) with Prohibitins and Its Impact on Tumor Cell Clonogenicity
Authors: Begum Asma , Lin Qun , Yu Chenye , Kim Yuri , Yun Zhong
Published: April 2023

PDF file - 144K, S1. Co-immunoprecipitation of DLK1 and PHB2 in human tumor cells. S2. Differential formation of J-aggregates in BE(2)C and SK-N-ER cells. S3. Knockdown of PHB reduces self-renewal of HepG2 hepatocelluar carcinoma cells. S4. Knockdown of PHB reduces clonogenicity of MCF7 human breast cancer cells. S5. Sphere forming potential (A) and clonogenic potential (B) of BE(2)C cells treated with indicated siRNA oligos. S6. DLK1 cytoplasmic domain does not affect protein levels of PHB1 and PHB2.
Supplementary Figure 2 from CDCP1 Regulates the Function of MT1-MMP and Invadopodia-Mediated Invasion of Cancer Cells
Authors: Miyazawa Yuri , Uekita Takamasa , Ito Yuumi , Seiki Motoharu , Yamaguchi Hideki , Sakai Ryuichi
Published: April 2023

PDF File-215K, CDCP1 is required for invadopodia-mediated ECM degradation by RPMI7951 human melanoma cells.
Supplementary Figure Legend from HER-2/neu Mediates Oncogenic Transformation via Altered CREB Expression and Function
Authors: Steven André , Leisz Sandra , Massa Chiara , Iezzi Manuela , Lattanzio Rossano , Lamolinara Alessia , Bukur Jürgen , Müller Anja , Hiebl Bernhard , Holzhausen Hans-Jürgen , Seliger Barbara
Published: April 2023

PDF file - 88K
Supplementary Figures 1 - 2 from Unraveling the Role of FOXQ1 in Colorectal Cancer Metastasis
Authors: Abba Mohammed , Patil Nitin , Rasheed Kabeer , Nelson Laura D. , Mudduluru Giridhar , Leupold Jörg Hendrik , Allgayer Heike
Published: April 2023

PDF file - 1023K, Supplementary Figure 1: Wound healing assay in a) SW40 and b) Colo206f cell lines. Supplementary Figure 2: Evaluation of Twist 1 knockdown on migration and invasion in stable FOXQ1 over-expressing Colo206f cell lines.
Supplementary Figure 1 from HER-2/neu Mediates Oncogenic Transformation via Altered CREB Expression and Function
Authors: Steven André , Leisz Sandra , Massa Chiara , Iezzi Manuela , Lattanzio Rossano , Lamolinara Alessia , Bukur Jürgen , Müller Anja , Hiebl Bernhard , Holzhausen Hans-Jürgen , Seliger Barbara
Published: April 2023

PDF file - 6761K, Correlation of HER-2/neu with pCREB expression. (A) shHER-2 transfection strongly down-regulates HER-2/neu expression in MCF-7 cells. (B) shHER-2/neu-mediated down-regulation of HER-2/neu in HER-2/neu+ MCF-7 cells results in a reduced in CREB phophorylation. (C) Representative immunohistochemical staining and grading from breast cancer tumor lesions are shown.
Supplementary Figure from Inhibition of Cell Adhesion by a Cadherin-11 Antibody Thwarts Bone Metastasis
Authors: Lee Yu-Chen , Bilen Mehmet Asim , Yu Guoyu , Lin Song-Chang , Huang Chih-Fen , Ortiz Angelica , Cho Hyojin , Song Jian H. , Satcher Robert L. , Kuang Jian , Gallick Gary E. , Yu-Lee Li-Yuan , Huang Wilber , Lin Sue-Hwa
Published: April 2023

PDF file, 556K, S1. (A) Expression of Cad11 in C42B4 cells increased the cell migration. However, Cad11-mediated migratory activity of C42B4/Cad11 cells was not Inhibited by mAb 2C7 or 1A5. Another antibody, mAb 1B9, showed inhibition of migration and was used as a positive control. (B) Cad11-mediated invasion was not inhibited by mAb 2C7 or 1A5, but was inhibited by mAb 1B9.
Supplementary Table 1 from Downregulation of HOPX Controls Metastatic Behavior in Sarcoma Cells and Identifies Genes Associated with Metastasis
Authors: Kovářová Denisa , Plachý Jiří , Kosla Jan , Trejbalová Kateřina , Čermák Vladimír , Hejnar Jiří
Published: April 2023

XLS file, 29K, List of oligonucleotides.
Supplementary Table 4 from Systematic Screen Identifies miRNAs That Target RAD51 and RAD51D to Enhance Chemosensitivity
Authors: Huang Jen-Wei , Wang Yemin , Dhillon Kiranjit K. , Calses Philamer , Villegas Emily , Mitchell Patrick S. , Tewari Muneesh , Kemp Christopher J. , Taniguchi Toshiyasu
Published: April 2023

XLSX file - 86K, Summary of TCGA sample patient information used in correlation analyses.
Supplementary Methods, Figures 1 - 10, Tables 1 - 3 from Systematic Screen Identifies miRNAs That Target RAD51 and RAD51D to Enhance Chemosensitivity
Authors: Huang Jen-Wei , Wang Yemin , Dhillon Kiranjit K. , Calses Philamer , Villegas Emily , Mitchell Patrick S. , Tewari Muneesh , Kemp Christopher J. , Taniguchi Toshiyasu
Published: April 2023

PDF file - 2066K, S1. MiR-103 and miR-107 inhibit DNA damage-induced RAD51 foci formation in cancer cells. S2. MiR-103 and miR-107 promote chemosensitivity in U2OS cells. S3. MiR-103 and miR-107 promote chemosensitivity to cisplatin and a PARP inhibitor in HeLa and PEO1 C4-2 cells. S4. MiR-107 promotes chemosensitivity in H1299, HeLa and PEO1 C4-2 cells. S5. MiR-103 and miR-107 regulate RAD51 and RAD51D. S6. RAD51 is critical for cellular resistance to cisplatin and a PARP inhibitor. S7. RAD51 downregulation is critical for miR-103/107-mediated regulation of HR. S8. RAD51D downregulation is relevant to miR-103/107-mediated chemosensitivity. S9. Inhibition of miR-103 and miR-107 mildly de-represses RAD51D expression. S10. MiR-103 and miR-107 are inversely correlated with RAD51D mRNA expression in several tumor subtypes. Table S1. Summary of library screening to identify microRNAs that regulate IR-induced RAD51 foci formation. Table S2. Correlation between miR-103 or miR-107 and target gene expression in the NCI-60 panel of cancer cell lines. Table S3. Correlation between miR-103 or miR-107 and target gene expression in several tumor subtypes from TCGA.
Supplementary Table 2 from miRNA-145 Targets v-ets Erythroblastosis Virus E26 Oncogene Homolog 1 to Suppress the Invasion, Metastasis, and Angiogenesis of Gastric Cancer Cells
Authors: Zheng Liduan , Pu Jiarui , Qi Teng , Qi Meng , Li Dan , Xiang Xuan , Huang Kai , Tong Qiangsong
Published: April 2023

PDF file - 20K, Primer sets used for RT-PCR and qPCR
Supplementary Table 1 from miRNA-145 Targets v-ets Erythroblastosis Virus E26 Oncogene Homolog 1 to Suppress the Invasion, Metastasis, and Angiogenesis of Gastric Cancer Cells
Authors: Zheng Liduan , Pu Jiarui , Qi Teng , Qi Meng , Li Dan , Xiang Xuan , Huang Kai , Tong Qiangsong
Published: April 2023

PDF file - 22K, Ets1 expression in human gastric cancer tissues
Supplementary Figure 3 from miRNA-145 Targets v-ets Erythroblastosis Virus E26 Oncogene Homolog 1 to Suppress the Invasion, Metastasis, and Angiogenesis of Gastric Cancer Cells
Authors: Zheng Liduan , Pu Jiarui , Qi Teng , Qi Meng , Li Dan , Xiang Xuan , Huang Kai , Tong Qiangsong
Published: April 2023

PDF file - 166K, Scratch migration assay of gastric cancer cells
Supplementary Figure 1 from miRNA-145 Targets v-ets Erythroblastosis Virus E26 Oncogene Homolog 1 to Suppress the Invasion, Metastasis, and Angiogenesis of Gastric Cancer Cells
Authors: Zheng Liduan , Pu Jiarui , Qi Teng , Qi Meng , Li Dan , Xiang Xuan , Huang Kai , Tong Qiangsong
Published: April 2023

PDF file - 17K, Effects of miR-145 on the proliferation of gastric cancer cells
Supplementary Tables 1 through 3 from A Novel Regulatory Mechanism of Pim-3 Kinase Stability and Its Involvement in Pancreatic Cancer Progression
Authors: Zhang Fei , Liu Bin , Wang Zhen , Yu Xian-Jun , Ni Quan-Xing , Yang Wen-Tao , Mukaida Naofumi , Li Ying-Yi
Published: April 2023

PDF - 28KB, Supplemental Table 1. Primer sequences for PCR to generate the coding region of the gene below. Supplemental Table 2. Primer sequences for quantitative RT-PCR. Supplemental Table 3. The proteins interact with TCTP and interaction region.
Supplementary Figure 4 from PKCι Maintains a Tumor-initiating Cell Phenotype That Is Required for Ovarian Tumorigenesis
Authors: Wang Yin , Hill Kristen S. , Fields Alan P.
Published: April 2023

PDF file - 70K, S4. Expression of a PKCiota C69I mutant abolishes ANFmediated inhibition of MMP10 expression.
Supplementary Figure 3 from PKCι Maintains a Tumor-initiating Cell Phenotype That Is Required for Ovarian Tumorigenesis
Authors: Wang Yin , Hill Kristen S. , Fields Alan P.
Published: April 2023

PDF file - 86K, S3. PKCzeta does not play a significant role in the PKCι-MMP10 signaling axis or TIC behavior.
Supplementary File 1 from FoxM1 is Overexpressed in Helicobacter pylori–Induced Gastric Carcinogenesis and Is Negatively Regulated by miR-370
Authors: Feng Yimin , Wang Lixiang , Zeng Jiping , Shen Li , Liang Xiuming , Yu Han , Liu Shili , Liu Zhifang , Sun Yundong , Li Wenjuan , Chen Chunyan , Jia Jihui
Published: April 2023

Supplementary File 1 - PDF file 149K, The representation of the pathway invovled in this manuscript
Supplementary Figure 5 from Inhibition of Hedgehog and Androgen Receptor Signaling Pathways Produced Synergistic Suppression of Castration-Resistant Prostate Cancer Progression
Authors: Gowda Pramod S. , Deng Jianhong D. , Mishra Sweta , Bandyopadhyay Abhik , Liang Sitai , Lin Shu , Mahalingam Devalingam , Sun Lu-Zhe
Published: April 2023

PDF file - 1192K, 50nM PP inhibits AR activity effectively.
Supplementary Figure 3 from Inhibition of Hedgehog and Androgen Receptor Signaling Pathways Produced Synergistic Suppression of Castration-Resistant Prostate Cancer Progression
Authors: Gowda Pramod S. , Deng Jianhong D. , Mishra Sweta , Bandyopadhyay Abhik , Liang Sitai , Lin Shu , Mahalingam Devalingam , Sun Lu-Zhe
Published: April 2023

PDF file - 995K, LDE225 inhibits Hh signaling activity in AI cells in a dose dependent manner.
Supplementary Figure 2 from Inhibition of Hedgehog and Androgen Receptor Signaling Pathways Produced Synergistic Suppression of Castration-Resistant Prostate Cancer Progression
Authors: Gowda Pramod S. , Deng Jianhong D. , Mishra Sweta , Bandyopadhyay Abhik , Liang Sitai , Lin Shu , Mahalingam Devalingam , Sun Lu-Zhe
Published: April 2023

PDF file - 1213K, AR competitive inhibitor cannot inhibit the growth of androgen independent (AI) cells in combination with Hh inhibitor.
Supplementary Figure 4 from Towards Sustained Silencing of HER2/neu in Cancer By Epigenetic Editing
Authors: Falahi Fahimeh , Huisman Christian , Kazemier Hinke G. , van der Vlies Pieter , Kok Klaas , Hospers Geke A.P. , Rots Marianne G.
Published: April 2023

PDF file - 72K, Sorted cells maintain their profile of Her2/neu and GFP expression.
Supplementary Figure 1 from Inhibition of Hedgehog and Androgen Receptor Signaling Pathways Produced Synergistic Suppression of Castration-Resistant Prostate Cancer Progression
Authors: Gowda Pramod S. , Deng Jianhong D. , Mishra Sweta , Bandyopadhyay Abhik , Liang Sitai , Lin Shu , Mahalingam Devalingam , Sun Lu-Zhe
Published: April 2023

PDF file - 58K, Overexpression of DeltaAR in LNCaP AD cells.
Supplementary Figure Legend from The HER2- and Heregulin β1 (HRG)–Inducible TNFR Superfamily Member Fn14 Promotes HRG-Driven Breast Cancer Cell Migration, Invasion, and MMP9 Expression
Authors: Asrani Kaushal , Keri Ruth A. , Galisteo Rebeca , Brown Sharron A.N. , Morgan Sarah J. , Ghosh Arundhati , Tran Nhan L. , Winkles Jeffrey A.
Published: April 2023

PDF file - 103K
Supplementary Figure 5 from The HER2- and Heregulin β1 (HRG)–Inducible TNFR Superfamily Member Fn14 Promotes HRG-Driven Breast Cancer Cell Migration, Invasion, and MMP9 Expression
Authors: Asrani Kaushal , Keri Ruth A. , Galisteo Rebeca , Brown Sharron A.N. , Morgan Sarah J. , Ghosh Arundhati , Tran Nhan L. , Winkles Jeffrey A.
Published: April 2023

PDF file - 514K, Figure S5. U0126 or Wortmannin treatment of MCF7/HER2 and AU565 cells decreases Fn14 expression.
Supplementary Figure 3 from The HER2- and Heregulin β1 (HRG)–Inducible TNFR Superfamily Member Fn14 Promotes HRG-Driven Breast Cancer Cell Migration, Invasion, and MMP9 Expression
Authors: Asrani Kaushal , Keri Ruth A. , Galisteo Rebeca , Brown Sharron A.N. , Morgan Sarah J. , Ghosh Arundhati , Tran Nhan L. , Winkles Jeffrey A.
Published: April 2023

PDF file - 72K, Figure S3. Fn14 expression is elevated in letrozole-resistant MCF7 cells and NIH3T3 cells stably overexpressing HER2.
Supplementary Figure 2 from The HER2- and Heregulin β1 (HRG)–Inducible TNFR Superfamily Member Fn14 Promotes HRG-Driven Breast Cancer Cell Migration, Invasion, and MMP9 Expression
Authors: Asrani Kaushal , Keri Ruth A. , Galisteo Rebeca , Brown Sharron A.N. , Morgan Sarah J. , Ghosh Arundhati , Tran Nhan L. , Winkles Jeffrey A.
Published: April 2023

PDF file - 26K, Figure S2. HER2 overexpression in MCF7 cells does not increase Fn14 mRNA expression.
Table S2 from Mastermind-Like 3 Controls Proliferation and Differentiation in Neuroblastoma
Authors: Heynen Guus J.J.E. , Nevedomskaya Ekaterina , Palit Sander , Jagalur Basheer Noorjahan , Lieftink Cor , Schlicker Andreas , Zwart Wilbert , Bernards Rene , Bajpe Prashanth Kumar
Published: April 2023

Supplementary Table 2: List of genes defined as RA target genes on basis of RARα binding within 20 kb of the Gene Symbol
Supplemental doc from Mastermind-Like 3 Controls Proliferation and Differentiation in Neuroblastoma
Authors: Heynen Guus J.J.E. , Nevedomskaya Ekaterina , Palit Sander , Jagalur Basheer Noorjahan , Lieftink Cor , Schlicker Andreas , Zwart Wilbert , Bernards Rene , Bajpe Prashanth Kumar
Published: April 2023

Supplementary method, Supplementary figures and supplementary figure legends: Supplementary Figure 1. Viral VBIM integration site in MAML3 gene and equal sensitivity to cisplatin of parental and SD3.23 cells. Supplementary Figure 2. Overexpression of MAML3, but not MAML1 and MAML2, mediates resistance to retinoic acid in multiple neuroblastoma cell lines. Supplementary Figure 3. Induction of neuronal markers upon RA treatment is decreased in MAML3 overexpressing cells. Supplementary Figure 4. MAML3 binds to RXR. Supplementary Figure 5. IGF2 is upregulated in MAML3 overexpressing cells and results in hyperproliferation, but not RA resistance.
Data Supplement from Restoration of Compact Golgi Morphology in Advanced Prostate Cancer Enhances Susceptibility to Galectin-1–Induced Apoptosis by Modifying Mucin O-Glycan Synthesis
Authors: Petrosyan Armen , Holzapfel Melissa S. , Muirhead David E. , Cheng Pi-Wan
Published: April 2023

Figure S1. (A, B) Confocal immunofluorescence microscopic images showing colocalization of C1GalT1, ST3Gal1 and C2GnT-L with ER marker HSP70 in LNCaP, PC-3 and DU145 cells, in normal prostate tissues and different grades of prostatic adenocarcinoma. White boxes in each panel are enlarged and shown at the right side as green, red and merged images. All confocal images were acquired with same imaging parameters; bar, 10 μm. Figure S2. (A, B) Confocal immunofluorescence microscopic images showing colocalization of C1GalT1, ST3Gal1 and C2GnT-L with Golgi matrix protein GM130 and Golgi-specific GTPase Rab6a in PC-3 and DU145 cells. All confocal images were acquired with same imaging parameters; bar, 10 μm. Figure S3. (A, B) Confocal immunofluorescence microscopic images showing colocalization of C1GalT1 with Golgi matrix protein GM130 in PC-3 and DU145 cells treated with scramble, giantin, GM130 and GRASP65 siRNAs. (C, D) Confocal immunofluorescence microscopic images showing colocalization of C1GalT1 with giantin in PC-3 and DU145 cells treated with GM130 and GRASP65 siRNAs. The images inside the white boxes are enlarged and shown as green and red channels at the bottom of each panel. All confocal images were acquired with same imaging parameters; bar, 10 μm. Figure S4. (A) Confocal immunofluorescence microscopy shows colocalization of C2GnT-L and ST3Gal1 with giantin in DU145 cells treated with DMSO, Blebbistatin or NMIIA siRNAs. Images in the white boxes are amplified and placed at the right side of each panel. (B) Confocal immunofluorescence images of giantin in DU145 cells treated with scramble and Plk3 siRNAs followed by treatment with Blebbistatin, or Plk3, NMIIA, or NMIIA plus Plk3 siRNAs. Bar, 10 μm. Figure S5. (A, C) Confocal fluorescence images of immunostained giantin, and MAA lectin stained α2-3Sia or LEA lectin stained polylactosamine in DU145 cells treated with Blebbistatin or NMIIA siRNAs. Control cells were treated with DMSO. (B, D) Quantification of α-2,3-Sia- and polylactosamine-specific average integrated fluorescence (in a.u.) in DU145 cells shown in A and C. (E) The 8% SDS PAGE of DU145 cells plasma membrane fractions pulled-down by MAA and LEA lectins followed by capturing with Streptavidin magnet beads. (F) DAPI staining of DU145 cells treated with DMSO, Blebbistatin, or scramble or NMIIA siRNAs and then with or without treatment with 10 μM galectin-1. (G, H) The percentage apoptotic cells and caspase-3 activity in cells are presented in F. Apoptotic nuclei were counted in 30 fields each of three independent experiments and expressed as percentage apoptotic cells out of total number of cells. Caspase-3 activity is expressed as relative mean fluorescence units (RFU) from three independent experiments. Bar, 10 μm; *, p<0.001.
Supplementary Tables 1 - 2 from CAF-Secreted Annexin A1 Induces Prostate Cancer Cells to Gain Stem Cell–like Features
Authors: Geary Lauren A. , Nash Kevin A. , Adisetiyo Helty , Liang Mengmeng , Liao Chun-Peng , Jeong Joseph H. , Zandi Ebrahim , Roy-Burman Pradip
Published: April 2023

PDF file - 107KB, Supplementary Table S1. Antibodies and their dilutions for immunohistochemistry (IHC), immunofluorescence (IF), western blot (WB) and cell culture neutralizing antibody assays are listed. Supplementary Table S2. Real Time Quantitative Reverse Transcription PCR Primer List.
Supplementary Materials and Methods from CAF-Secreted Annexin A1 Induces Prostate Cancer Cells to Gain Stem Cell–like Features
Authors: Geary Lauren A. , Nash Kevin A. , Adisetiyo Helty , Liang Mengmeng , Liao Chun-Peng , Jeong Joseph H. , Zandi Ebrahim , Roy-Burman Pradip
Published: April 2023

PDF file - 131KB
Supplementary Figure S2 from Synergistic Loss of Prostate Cancer Cell Viability by Coinhibition of HDAC and PARP
Authors: Chao Olivia S. , Goodman Oscar B.
Published: April 2023

Scatter dot plot representing the distribution of number of γH2AX foci/cell of DU145 and RWPE-1 cells treated under different treatment conditions. Horizontal bar represent mean γH2AX foci/cell.
Supplementary Figure S1 from Synergistic Loss of Prostate Cancer Cell Viability by Coinhibition of HDAC and PARP
Authors: Chao Olivia S. , Goodman Oscar B.
Published: April 2023

Prostate cancer cell lines, DU145 and PC-3, and a normal prostate epithelial cell line, RWPE-1 were grown in increasing dose of (a) SAHA (0.1μM to 10μM) and (b) Olaparib (0.1μM - 50μM) for 5 days. Cell viability was determined using the standard MTT assay at day 0, 1, 3 and 5. Graph represents mean cell viability (%) {plus minus} SD of three experiments performed in octuplicates.
Supplemental Cloning Methods from STAT1 and NF-κB Inhibitors Diminish Basal Interferon-Stimulated Gene Expression and Improve the Productive Infection of Oncolytic HSV in MPNST Cells
Authors: Jackson Joshua D. , Markert James M. , Li Li , Carroll Steven L. , Cassady Kevin A.
Published: April 2023

Elaboration of cloning methods for construction of lentivectors.
Supplementary Figure Legends from Hypoxia Regulates Alternative Splicing of HIF and non-HIF Target Genes
Authors: Sena Johnny A. , Wang Liyi , Heasley Lynn E. , Hu Cheng-Jun
Published: April 2023

Description for supplemental files and supplemental figures
Supplementary Figure 1 from Delineation of a FOXA1/ERα/AGR2 Regulatory Loop That Is Dysregulated in Endocrine Therapy–Resistant Breast Cancer
Authors: Wright Tricia M. , Wardell Suzanne E. , Jasper Jeff S. , Stice James P. , Safi Rachid , Nelson Erik R. , McDonnell Donald P.
Published: April 2023

Supplementary Figure 1: AGR2 expression in an in vivo model of tamoxifen resistance.
Supplementary Figure 1 from Hypoxia Regulates Alternative Splicing of HIF and non-HIF Target Genes
Authors: Sena Johnny A. , Wang Liyi , Heasley Lynn E. , Hu Cheng-Jun
Published: April 2023

S1. Hypoxia regulates AS of the HIF target gene, ANGPTL4.
Supplemental Figures 1-3 from The CBM Complex Underwrites NF-κB Activation to Promote HER2-Associated Tumor Malignancy
Authors: Pan Deng , Zhu Yifan , Zhou Zhicheng , Wang Tingting , You Harrison , Jiang Changying , Lin Xin
Published: April 2023

Supplementary figure 1. Heregulin specifically activates HER2 receptor. Supplementary figure 2. Knockdown efficiency of CARMA3, BCL10 and MALT1. Supplementary figure 3. MALT1 is required for cell migration.
Supplementary information from Dissecting LncRNA Roles in Renal Cell Carcinoma Metastasis and Characterizing Genomic Heterogeneity by Single-Cell RNA-seq
Authors: Li Xue , Meng Xianwen , Wei Cong , Zhou Yincong , Chen Hongjun , Huang He , Chen Ming
Published: April 2023

Supplementary information
Supplementary Fig. S2 from CITED2 Modulates Breast Cancer Metastatic Ability through Effects on IKKα
Authors: Jayaraman Swaathi , Doucet Michele , Lau Wen Min , Kominsky Scott L.
Published: April 2023

Regulation of OPN, MMP9, uPA, SPARC, IL-11, and IL-1β by NF-κB signaling in MDA-MB-231 cells.
Supplementary Fig. S1 from CITED2 Modulates Breast Cancer Metastatic Ability through Effects on IKKα
Authors: Jayaraman Swaathi , Doucet Michele , Lau Wen Min , Kominsky Scott L.
Published: April 2023

Effect of CITED2 knockdown on metastasis to non-bone sites.
Figure S5 from Dissecting LncRNA Roles in Renal Cell Carcinoma Metastasis and Characterizing Genomic Heterogeneity by Single-Cell RNA-seq
Authors: Li Xue , Meng Xianwen , Wei Cong , Zhou Yincong , Chen Hongjun , Huang He , Chen Ming
Published: April 2023

Figure S5. The proportion of TCGA CMAL-clusters associated with TCGA clinical features and mRNA-, miRNA- clusters.
Supplementary Figures from IGH/MYC Translocation Associates with BRCA2 Deficiency and Synthetic Lethality to PARP1 Inhibitors
Authors: Maifrede Silvia , Martin Kayla , Podszywalow-Bartnicka Paulina , Sullivan-Reed Katherine , Langer Samantha K. , Nejati Reza , Dasgupta Yashodhara , Hulse Michael , Gritsyuk Daniel , Nieborowska-Skorska Margaret , Lupey-Green Lena N. , Zhao Huaqing , Piwocka Katarzyna , Wasik Mariusz A. , Tempera Italo , Skorski Tomasz
Published: April 2023

Supplementary Figure S1. BL #1 cells display low HR activity. Supplementary Figure S2. BL #1 induced BL-like leukemia in NSG mice Supplementary Figure S3. IGH/MYC-positive cells are hypersensitive to RAD52 inhibitor. Supplementary Figure S4. IGH/MYC does not downregulate mRNA encoding BRCA2. Supplementary Figure S5. c-MYC regulates the expression of BRCA2 protein. Supplementary Figure S6. miR-1245 is upregulated in IGH/MYC-positive cells.
Figure S3 from Dissecting LncRNA Roles in Renal Cell Carcinoma Metastasis and Characterizing Genomic Heterogeneity by Single-Cell RNA-seq
Authors: Li Xue , Meng Xianwen , Wei Cong , Zhou Yincong , Chen Hongjun , Huang He , Chen Ming
Published: April 2023

Figure S3. Metastatic tumor specific genes
Supplemental Table 9 from Expression of ANRIL–Polycomb Complexes–CDKN2A/B/ARF Genes in Breast Tumors: Identification of a Two-Gene (EZH2/CBX7) Signature with Independent Prognostic Value
Authors: Meseure Didier , Vacher Sophie , Alsibai Kinan Drak , Nicolas Andre , Chemlali Walid , Caly Martial , Lidereau Rosette , Pasmant Eric , Callens Celine , Bieche Ivan
Published: April 2023

Relationship between BMI1 transcripts levels and classical clinical biological parameters in a series of 456 breast cancers.
S3. Increase in beige/brown adipose tissue independent of the site of implantation of the cancer cells from Increased Expression of Beige/Brown Adipose Markers from Host and Breast Cancer Cells Influence Xenograft Formation in Mice
Authors: Singh Rajan , Parveen Meher , Basgen John M. , Fazel Sayeda , Meshesha Meron F. , Thames Easter C. , Moore Brandis , Martinez Luis , Howard Carolyn B. , Vergnes Laurent , Reue Karen , Pervin Shehla
Published: April 2023

Upregulation of the markers of beige/brown adipocytes were not dependent on site of cancer cell injection.
Supplemental Table 2 from Expression of ANRIL–Polycomb Complexes–CDKN2A/B/ARF Genes in Breast Tumors: Identification of a Two-Gene (EZH2/CBX7) Signature with Independent Prognostic Value
Authors: Meseure Didier , Vacher Sophie , Alsibai Kinan Drak , Nicolas Andre , Chemlali Walid , Caly Martial , Lidereau Rosette , Pasmant Eric , Callens Celine , Bieche Ivan
Published: April 2023

Pathological and clinical characteristics of the 80 patients tested using immunohistochemistry in relation to metastasis free survival (MFS)
Supplemental Table 16 from Expression of ANRIL–Polycomb Complexes–CDKN2A/B/ARF Genes in Breast Tumors: Identification of a Two-Gene (EZH2/CBX7) Signature with Independent Prognostic Value
Authors: Meseure Didier , Vacher Sophie , Alsibai Kinan Drak , Nicolas Andre , Chemlali Walid , Caly Martial , Lidereau Rosette , Pasmant Eric , Callens Celine , Bieche Ivan
Published: April 2023

Statistical analysis of EMT associated gene expressions relative to ANRIL expression level.
Supplementary Figure 6 from Taxol Induces Brk-dependent Prosurvival Phenotypes in TNBC Cells through an AhR/GR/HIF–driven Signaling Axis
Authors: Regan Anderson Tarah M. , Ma Shihong , Perez Kerkvliet Carlos , Peng Yan , Helle Taylor M. , Krutilina Raisa I. , Raj Ganesh V. , Cidlowski John A. , Ostrander Julie H. , Schwertfeger Kathryn L. , Seagroves Tiffany N. , Lange Carol A.
Published: April 2023

Example of immunohistochemical staining of total GR and phospho-GR.
Supplemental Figure Legends from p53 Deletion or Hotspot Mutations Enhance mTORC1 Activity by Altering Lysosomal Dynamics of TSC2 and Rheb
Authors: Agarwal Stuti , Bell Catherine M. , Taylor Shirley M. , Moran Richard G.
Published: April 2023

Supplemental Figure Legends 1-3
Supplemental Figure Legends from Pancreatic Neuroendocrine Tumors and EMT Behavior Are Driven by the CSC Marker DCLK1
Authors: Ikezono Yu , Koga Hironori , Akiba Jun , Abe Mitsuhiko , Yoshida Takafumi , Wada Fumitaka , Nakamura Toru , Iwamoto Hideki , Masuda Atsutaka , Sakaue Takahiko , Yano Hirohisa , Tsuruta Osamu , Torimura Takuji
Published: April 2023

Supplemental Figure Legends 1-5
Figure S4 from Differential Expression of OATP1B3 Mediates Unconjugated Testosterone Influx
Authors: Sissung Tristan M. , Ley Ariel M. , Strope Jonathan D. , McCrea Edel M. , Beedie Shaunna , Peer Cody J. , Shukla Suneet , van Velkinburgh Jennifer , Reece Kelie , Troutman Sarah , Campbell Tessa , Fernandez Elena , Huang Phoebe , Smith Jordan , Thakkar Nilay , Venzon David J. , Brenner Stefan , Lee Wooin , Merino Maria , Luo Ji , Jager Walter , Price Douglas K. , Chau Cindy H. , Figg William D.
Published: April 2023

S4. Both (A) lt-SLCO1B3 and (B) ct-SLCO1B3 were plotted as a function of t-SLCO1B3 in 384 tissue and tumor samples.
Figure S2 from Differential Expression of OATP1B3 Mediates Unconjugated Testosterone Influx
Authors: Sissung Tristan M. , Ley Ariel M. , Strope Jonathan D. , McCrea Edel M. , Beedie Shaunna , Peer Cody J. , Shukla Suneet , van Velkinburgh Jennifer , Reece Kelie , Troutman Sarah , Campbell Tessa , Fernandez Elena , Huang Phoebe , Smith Jordan , Thakkar Nilay , Venzon David J. , Brenner Stefan , Lee Wooin , Merino Maria , Luo Ji , Jager Walter , Price Douglas K. , Chau Cindy H. , Figg William D.
Published: April 2023

S2. Ten hypoxia response elements were identified by sequence alignment of the RefSeq SLCO1B3 gene (NG_032071.1).
Supplementary Figure Legend from Utilization of Liquid Chromatography Mass Spectrometry Analyses to Identify LKB1–APC Interaction in Modulating Wnt/β-Catenin Pathway of Lung Cancer Cells
Authors: Jian Shu-Fang , Hsiao Chang-Chun , Chen Shin-Yi , Weng Ching-Chieh , Kuo Tzu-Lei , Wu Deng-Chyang , Hung Wen-Chun , Cheng Kuang-Hung
Published: April 2023

PDF file - 34K
Supplementary Figure Legend from Alteration of Cell–Cell and Cell–Matrix Adhesion in Urothelial Cells: An Oncogenic Mechanism for Mutant FGFR3
Authors: di Martino Erica , Kelly Gavin , Roulson Jo-An , Knowles Margaret A.
Published: April 2023

Supplementary Figure Legend
Table S2 from p53 Activity Dominates That of p73 upon Mdm4 Loss in Development and Tumorigenesis
Authors: Tashakori Mehrnoosh , Zhang Yun , Xiong Shunbin , You M. James , Lozano Guillermina
Published: April 2023

p73 loss does not rescue the Mdm4-deficiency brain phenotype.
Supplementary Methods and Figure Legends from Spontaneous Reversion of the Angiogenic Phenotype to a Nonangiogenic and Dormant State in Human Tumors
Authors: Rogers Michael S. , Novak Katherine , Zurakowski David , Cryan Lorna M. , Blois Anna , Lifshits Eugene , Bø Trond H. , Oyan Anne M. , Bender Elise R. , Lampa Michael , Kang Soo-Young , Naxerova Kamila , Kalland Karl-Henning , Straume Oddbjorn , Akslen Lars A. , Watnick Randolph S. , Folkman Judah , Naumov George N.
Published: April 2023

PDF - 120K, Supplementary Methods and legends for Supplementary Figures 1 through 3.
Supplementary Figure 1 from Asparagine Depletion Potentiates the Cytotoxic Effect of Chemotherapy against Brain Tumors
Authors: Panosyan Eduard H. , Wang Yuntao , Xia Peng , Lee Wai-Nang Paul , Pak Youngju , Laks Dan R. , Lin Henry J. , Moore Theodore B. , Cloughesy Timothy F. , Kornblum Harley I. , Lasky Joseph L.
Published: April 2023

PDF file - 59K, Amino acid and ammonia changes with ASNase treatment in media and cell supernatants.
Figure S6 from Hypoxia Selectively Enhances Integrin α5β1 Receptor Expression in Breast Cancer to Promote Metastasis
Authors: Ju Julia A. , Godet Inês , Ye I Chae , Byun Jungmin , Jayatilaka Hasini , Lee Sun Joo , Xiang Lisha , Samanta Debangshu , Lee Meng Horng , Wu Pei-Hsun , Wirtz Denis , Semenza Gregg L. , Gilkes Daniele M.
Published: April 2023

Survival analysis based on ITGB1 expression.
Figure S5 from Hypoxia Selectively Enhances Integrin α5β1 Receptor Expression in Breast Cancer to Promote Metastasis
Authors: Ju Julia A. , Godet Inês , Ye I Chae , Byun Jungmin , Jayatilaka Hasini , Lee Sun Joo , Xiang Lisha , Samanta Debangshu , Lee Meng Horng , Wu Pei-Hsun , Wirtz Denis , Semenza Gregg L. , Gilkes Daniele M.
Published: April 2023

Growth and metastasis characteristics of MDA-MB-231 subclones.
Supplementary Table 5 from Differential Expression of Stress and Immune Response Pathway Transcripts and miRNAs in Normal Human Endothelial Cells Subjected to Fractionated or Single-Dose Radiation
Authors: Palayoor Sanjeewani T. , John-Aryankalayil Molykutty , Makinde Adeola Y. , Falduto Michael T. , Magnuson Scott R. , Coleman C. Norman
Published: April 2023

PDF - 42K, miRNAs implicated in several cardiovascular events were also differentially expressed following fractionated irradiation in HCAEC.
Figure S3 from Hypoxia Selectively Enhances Integrin α5β1 Receptor Expression in Breast Cancer to Promote Metastasis
Authors: Ju Julia A. , Godet Inês , Ye I Chae , Byun Jungmin , Jayatilaka Hasini , Lee Sun Joo , Xiang Lisha , Samanta Debangshu , Lee Meng Horng , Wu Pei-Hsun , Wirtz Denis , Semenza Gregg L. , Gilkes Daniele M.
Published: April 2023

Characterization of ITGA5 expression in MDA-MB-231 subclones.
Figure S1 from Hypoxia Selectively Enhances Integrin α5β1 Receptor Expression in Breast Cancer to Promote Metastasis
Authors: Ju Julia A. , Godet Inês , Ye I Chae , Byun Jungmin , Jayatilaka Hasini , Lee Sun Joo , Xiang Lisha , Samanta Debangshu , Lee Meng Horng , Wu Pei-Hsun , Wirtz Denis , Semenza Gregg L. , Gilkes Daniele M.
Published: April 2023

Integrin expression in breast tumors and breast cancer cell lines.
Supplementary Materials and Methods from Differential Expression of Stress and Immune Response Pathway Transcripts and miRNAs in Normal Human Endothelial Cells Subjected to Fractionated or Single-Dose Radiation
Authors: Palayoor Sanjeewani T. , John-Aryankalayil Molykutty , Makinde Adeola Y. , Falduto Michael T. , Magnuson Scott R. , Coleman C. Norman
Published: April 2023

PDF - 64K, Supplementary Materials and Methods
Supplemental Figure 2: from β-Arrestin-2 Counters CXCR7-Mediated EGFR Transactivation and Proliferation
Authors: Kallifatidis Georgios , Munoz Daniel , Singh Rajendra Kumar , Salazar Nicole , Hoy James J. , Lokeshwar Bal L.
Published: April 2023

A: Prostate cancer cells were seeded in 6 well plates. Twenty-four hours later, cells were treated with Geldanamycin (3 Î¼M) for 1-24 hr, or were left untreated (NT). Protein extracts were subjected to western blotting. Actin served as a loading control. B: PC-3 cells were seeded in 6 well plates. Twenty-four hours later, cells were treated with 17-AAG (2 Î¼M, 2 hr), proteasome inhibitor MG132 (10 ÂµM, 2 hr) or were left untreated (NT). Protein extracts were collected and subjected to western blotting. Actin served as a loading control. C, D: PC-3 or LNCaP cells were treated with Geldanamycin as described above and nuclear or total protein extracts we collected and subjected to western blot analysis for detection of Î²-AR2 (C) and EGFR (D). AU: Arbitrary Units
Supplementary Figure Legends from PI3K and Bcl-2 Inhibition Primes Glioblastoma Cells to Apoptosis through Downregulation of Mcl-1 and Phospho-BAD
Authors: Pareja Fresia , Macleod David , Shu Chang , Crary John F. , Canoll Peter D. , Ross Alonzo H. , Siegelin Markus D.
Published: April 2023

PDF file - 54K
Supplementary Figure 1 from Nuclear Envelope Rupture Is Enhanced by Loss of p53 or Rb
Authors: Yang Zhe , Maciejowski John , de Lange Titia
Published: April 2023

Supplementary Figure 1. FACS analysis of cells with Rb or p53 depletion.
Figure S1 from MEK and TAK1 Regulate Apoptosis in Colon Cancer Cells with KRAS-Dependent Activation of Proinflammatory Signaling
Authors: McNew Kelsey L. , Whipple William J. , Mehta Anita K. , Grant Trevor J. , Ray Leah , Kenny Connor , Singh Anurag
Published: April 2023

KRAS and TAK1 dependency in human and mouse colon cancer.
Supplemental Figure 3 from Tumor Suppressor Activity of Selenbp1, a Direct Nkx2-1 Target, in Lung Adenocarcinoma
Authors: Caswell Deborah R. , Chuang Chen-Hua , Ma Rosanna K. , Winters Ian P. , Snyder Eric L. , Winslow Monte M.
Published: April 2023

Integration of Nkx2-1 ChIP-seq and gene expression profiling identifies Selenbp1 as a potential direct Nkx2-1 target.
Supplementary Figure 1 from Promoter Methylation Analysis Reveals That KCNA5 Ion Channel Silencing Supports Ewing Sarcoma Cell Proliferation
Authors: Ryland Katherine E. , Hawkins Allegra G. , Weisenberger Daniel J. , Punj Vasu , Borinstein Scott C. , Laird Peter W. , Martens Jeffrey R. , Lawlor Elizabeth R.
Published: April 2023

KCNA5 promoter methylation in diverse cancer types
Supplementary Information from GR and ER Coactivation Alters the Expression of Differentiation Genes and Associates with Improved ER+ Breast Cancer Outcome
Authors: West Diana C. , Pan Deng , Tonsing-Carter Eva Y. , Hernandez Kyle M. , Pierce Charles F. , Styke Sarah C. , Bowie Kathleen R. , Garcia Tzintzuni I. , Kocherginsky Masha , Conzen Suzanne D.
Published: April 2023

Supplementary Information: Supplementary Materials and Methods, Supplementary Methods, Supplementary Figure Legends, and Description of Supplementary Data Files
Supplemental Figure 1 from Tumor Suppressor Activity of Selenbp1, a Direct Nkx2-1 Target, in Lung Adenocarcinoma
Authors: Caswell Deborah R. , Chuang Chen-Hua , Ma Rosanna K. , Winters Ian P. , Snyder Eric L. , Winslow Monte M.
Published: April 2023

Of the top-three candidate Nkx2-1 targets, Selenbp1 knock-down elicits the most dramatic increase in clonal growth ability in cell culture.
Supplementary Figures 1-5 from GR and ER Coactivation Alters the Expression of Differentiation Genes and Associates with Improved ER+ Breast Cancer Outcome
Authors: West Diana C. , Pan Deng , Tonsing-Carter Eva Y. , Hernandez Kyle M. , Pierce Charles F. , Styke Sarah C. , Bowie Kathleen R. , Garcia Tzintzuni I. , Kocherginsky Masha , Conzen Suzanne D.
Published: April 2023

Supplementary Figure 1. ChIP-seq for GR and ER peaks and associated genes and motifs. Supplementary Figure 2. GR immunoprecipitation demonstrates ER interaction. Supplementary Figure 3. Most represented transcription factor response element motifs in Dex/E2-treated EBR and GBR peaks in regulatory regions of KDM4B, IGFBP4, and VDR. Supplementary Figure 4. Knockdown efficiency at 24h and 48h as measured by Q-RT-PCR, normalized to control siRNA pool. Supplementary Figure 5. Flow chart of GR ChIP-seq data analysis and integration of genome-wide gene expression (microarray) data.
Supplementary Data File 1 from GR and ER Coactivation Alters the Expression of Differentiation Genes and Associates with Improved ER+ Breast Cancer Outcome
Authors: West Diana C. , Pan Deng , Tonsing-Carter Eva Y. , Hernandez Kyle M. , Pierce Charles F. , Styke Sarah C. , Bowie Kathleen R. , Garcia Tzintzuni I. , Kocherginsky Masha , Conzen Suzanne D.
Published: April 2023

Analyzed gene expression data for GR-bound genes
SF Legends from EGFR Mutations Compromise Hypoxia-Associated Radiation Resistance through Impaired Replication Fork–Associated DNA Damage Repair
Authors: Saki Mohammad , Makino Haruhiko , Javvadi Prashanthi , Tomimatsu Nozomi , Ding Liang-Hao , Clark Jennifer E. , Gavin Elaine , Takeda Kenichi , Andrews Joel , Saha Debabrata , Story Michael D. , Burma Sandeep , Nirodi Chaitanya S.
Published: April 2023

Supplementary Figure Legends.
Figure S5 from EGFR Mutations Compromise Hypoxia-Associated Radiation Resistance through Impaired Replication Fork–Associated DNA Damage Repair
Authors: Saki Mohammad , Makino Haruhiko , Javvadi Prashanthi , Tomimatsu Nozomi , Ding Liang-Hao , Clark Jennifer E. , Gavin Elaine , Takeda Kenichi , Andrews Joel , Saha Debabrata , Story Michael D. , Burma Sandeep , Nirodi Chaitanya S.
Published: April 2023

Ectopic MT-EGFR expression significantly reduces hypoxia-associated radiation resistance in A549 NSCLC cells.
Supplemental Figure 1 from SPINK1 Status in Colorectal Cancer, Impact on Proliferation, and Role in Colitis-Associated Cancer
Authors: Ida Satoshi , Ozaki Nobuyuki , Araki Kimi , Hirashima Kotaro , Zaitsu Yoko , Taki Katsunobu , Sakamoto Yasuo , Miyamoto Yuji , Oki Eiji , Morita Masaru , Watanabe Masayuki , Maehara Yoshihiko , Yamamura Ken-ichi , Baba Hideo , Ohmuraya Masaki
Published: April 2023

Supplemental Figure 1. Survival curves of SPINK1 expression in colorectal cancer patients. Black bar indicates high SPINK1 expression and gray bar indicates low SPINK1 expression.
Supplemental Table 1 from TNF Signaling through RIP1 Kinase Enhances SN38-Induced Death in Colon Adenocarcinoma
Authors: Cabal-Hierro Lucia , O'Dwyer Peter J.
Published: April 2023

IC50 ratios comparing changes in sensitivity to different drugs by themselves or in combination with TNF (30 ng/ml). Values calculated by comparing IC50 Drug/ IC50 Drug + TNF both in normoxia and hypoxia conditions.
Data Supplement from Discovery-Based Protein Expression Profiling Identifies Distinct Subgroups and Pathways in Leiomyosarcomas
Authors: Kirik Ufuk , Hansson Karin , Krogh Morten , Jönsson Mats , Nilbert Mef , James Peter , Carneiro Ana
Published: April 2023

Supplementary Figure 1. Hierachical clustering of the 2D gel images of the 101 soft tissue sarcomas. 1065 proteins were matched over 101 tumors run in duplicate with a constant pool reference. 981 spots were found to be statistically valid with the following criteria: Anova p=01, fold change >1.5, FDR 1% and were used for the clustering. Supplementary Figure 2. Apoptosis and survival: Granzyme A signalling pathway (from MetaCore) with expression changes as thermometers. Supplementary Figure 3. Cytoskeleton remodelling pathway (from MetaCore) with expression changes as thermometers. Supplementary Figure 4. Telomere regulation and cellular immortalization (from MetaCore) with expression changes as thermometers. Supplementary Figure 5. Experimental design. The scheme shows the experimental flow used in the experiments described in the manuscript.
Supplementary Table 1 from Constitutive Phosphorylation of STAT3 by the CK2–BLNK–CD5 Complex
Authors: Rozovski Uri , Harris David M. , Li Ping , Liu Zhiming , Jain Preetesh , Veletic Ivo , Ferrajoli Alessandra , Burger Jan , O'Brien Susan , Bose Prithviraj , Thompson Philip , Jain Nitin , Wierda William , Keating Michael J. , Estrov Zeev
Published: April 2023

Patient and disease characteristics