bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Methods and Figure Legend from MyoD Is a Tumor Suppressor Gene in Medulloblastoma
Authors: Dey Joyoti , Dubuc Adrian M. , Pedro Kyle D. , Thirstrup Derek , Mecham Brig , Northcott Paul A. , Wu Xiaochong , Shih David , Tapscott Stephen J. , LeBlanc Michael , Taylor Michael D. , Olson James M.
Published: April 2023

PDF file - 112K, Supplementary Figure legends, primer sequences and Western blot antibody details.
Supplementary Movie 1 from Targeting uPAR with Antagonistic Recombinant Human Antibodies in Aggressive Breast Cancer
Authors: LeBeau Aaron M. , Duriseti Sai , Murphy Stephanie T. , Pepin Francois , Hann Byron , Gray Joe W. , VanBrocklin Henry F. , Craik Charles S.
Published: April 2023

MPG file - 8884K
Supplementary Figure 5 from Targeting uPAR with Antagonistic Recombinant Human Antibodies in Aggressive Breast Cancer
Authors: LeBeau Aaron M. , Duriseti Sai , Murphy Stephanie T. , Pepin Francois , Hann Byron , Gray Joe W. , VanBrocklin Henry F. , Craik Charles S.
Published: April 2023

PDF file - 165K, Additional SPECT/CT images of the uPAR probes imaging the MDA-MB-231 CDM
Supplemental figure 2 from MET and AXL Inhibitor NPS-1034 Exerts Efficacy against Lung Cancer Cells Resistant to EGFR Kinase Inhibitors Because of MET or AXL Activation
Authors: Rho Jin Kyung , Choi Yun Jung , Kim Seon Ye , Kim Tae Won , Choi Eun Kyung , Yoon Seon-Joo , Park Bu Man , Park Eunhye , Bae Jong Hwan , Choi Chang-Min , Lee Jae Cheol
Published: April 2023

Figure - Fig S2. Combined treatment with NPS-1034 and erlotinib
Supplementary Figure 2 from Doxorubicin Eliminates Myeloid-Derived Suppressor Cells and Enhances the Efficacy of Adoptive T-Cell Transfer in Breast Cancer
Authors: Alizadeh Darya , Trad Malika , Hanke Neale T. , Larmonier Claire B. , Janikashvili Nona , Bonnotte Bernard , Katsanis Emmanuel , Larmonier Nicolas
Published: April 2023

PDF file - 423K, Doxorubicin increases the frequency, proliferation and cytotoxic activity of effector T lymphocytes and NK.
Supplementary Figure 1 from Doxorubicin Eliminates Myeloid-Derived Suppressor Cells and Enhances the Efficacy of Adoptive T-Cell Transfer in Breast Cancer
Authors: Alizadeh Darya , Trad Malika , Hanke Neale T. , Larmonier Claire B. , Janikashvili Nona , Bonnotte Bernard , Katsanis Emmanuel , Larmonier Nicolas
Published: April 2023

PDF file - 206K, Doxorubicin eliminates tumor-induced MDSC.
Supplementary Figures 1 - 11 from Prodigiosin Rescues Deficient p53 Signaling and Antitumor Effects via Upregulating p73 and Disrupting Its Interaction with Mutant p53
Authors: Hong Bo , Prabhu Varun V. , Zhang Shengliang , van den Heuvel A. Pieter J. , Dicker David T. , Kopelovich Levy , El-Deiry Wafik S.
Published: April 2023

PDF file - 703K, The induction of p21 by prodigiosin at earlier time point (4 hr) in HOP92 cells (S1); Prodigiosin and compound R induce cell cycle arrest at early time point (S2); Prodigiosin does not induce γH2AX foci formation (S3); The higher concentration (1 μM) of prodigiosin or compound R induces cellular apoptosis at 72 hr treatment in HFF normal cells (S4); Dose-responsive curve of prodigiosin in HFF normal cells and SW480 cancer (S5); The effect of prodigiosin on the p53 pathway in normal cells (S6); The effect of prodigiosin on mutant p53 in SW480 cells, and the effect of prodigiosin on wild type p53, p73 and their target proteins in HCT116 cells (S7); The effect of prodigiosin on p63 in SW480 and HCT116 p53-/- cells (S8); High concentration (100 nM) of rapamycin does not disrupt the interaction of mutant p53 and p73 (S9); The bar graph indicates the quantitative data for Ki67 and TUNEL staining (S10); Body weight of nude mice following 5 mg/kg prodigiosin or DMSO treatment in HT29 xenografts and SW480 xenografts (S11).
Supplementary Figure Legend from Prodigiosin Rescues Deficient p53 Signaling and Antitumor Effects via Upregulating p73 and Disrupting Its Interaction with Mutant p53
Authors: Hong Bo , Prabhu Varun V. , Zhang Shengliang , van den Heuvel A. Pieter J. , Dicker David T. , Kopelovich Levy , El-Deiry Wafik S.
Published: April 2023

PDF file - 96K
Supplementary Methods from HAVCR/KIM-1 Activates the IL-6/STAT-3 Pathway in Clear Cell Renal Cell Carcinoma and Determines Tumor Progression and Patient Outcome
Authors: Cuadros Thaïs , Trilla Enric , Sarró Eduard , Vilà Maya R. , Vilardell Jordi , de Torres Inés , Salcedo Mayte , López-Hellin Joan , Sánchez Alex , Ramón y Cajal Santiago , Itarte Emilio , Morote Juan , Meseguer Anna
Published: April 2023

PDF file - 116K
Supplementary Methods and Figure Legends from Compensatory Functions and Interdependency of the DNA-Binding Domain of BRCA2 with the BRCA1–PALB2–BRCA2 Complex
Authors: Al Abo Muthana , Dejsuphong Donniphat , Hirota Kouji , Yonetani Yasukazu , Yamazoe Mitsuyoshi , Kurumizaka Hitoshi , Takeda Shunichi
Published: April 2023

PDF file - 152K
Supplementary Figure 7 from Compensatory Functions and Interdependency of the DNA-Binding Domain of BRCA2 with the BRCA1–PALB2–BRCA2 Complex
Authors: Al Abo Muthana , Dejsuphong Donniphat , Hirota Kouji , Yonetani Yasukazu , Yamazoe Mitsuyoshi , Kurumizaka Hitoshi , Takeda Shunichi
Published: April 2023

PDF file - 30K, A diagram summarizes all the mutation examined.
Supplementary Figure 3 from Compensatory Functions and Interdependency of the DNA-Binding Domain of BRCA2 with the BRCA1–PALB2–BRCA2 Complex
Authors: Al Abo Muthana , Dejsuphong Donniphat , Hirota Kouji , Yonetani Yasukazu , Yamazoe Mitsuyoshi , Kurumizaka Hitoshi , Takeda Shunichi
Published: April 2023

PDF file - 22K, Relative proliferation kinetics for cells carrying the indicated genotypes.
Supplementary Figure 2 from Cancer Cells Exploit eIF4E2-Directed Synthesis of Hypoxia Response Proteins to Drive Tumor Progression
Authors: Uniacke James , Kishan Perera J. , Lachance Gabriel , Francisco Camille B. , Lee Stephen
Published: April 2023

PDF file - 1255K, Cancer cells require eIF4E2-directed protein synthesis to survive and proliferate under hypoxia.
Supplementary Materials and Methods, Figure Legends, Table Legend from Mechanisms of Resistance to Intermittent Androgen Deprivation in Patients with Prostate Cancer Identified by a Novel Computational Method
Authors: Morken Jason D. , Packer Aaron , Everett Rebecca A. , Nagy John D. , Kuang Yang
Published: April 2023

PDF file - 41KB
Supplementary Figure 6 from Metastasis Suppressor KISS1 Seems to Reverse the Warburg Effect by Enhancing Mitochondrial Biogenesis
Authors: Liu Wen , Beck Benjamin H. , Vaidya Kedar S. , Nash Kevin T. , Feeley Kyle P. , Ballinger Scott W. , Pounds Keke M. , Denning Warren L. , Diers Anne R. , Landar Aimee , Dhar Animesh , Iwakuma Tomoo , Welch Danny R.
Published: April 2023

PDF file - 6436K, Supplemental Figure 6. PGC1alpha is essential for KISS1 suppression of invasion and migration. MelJuSoKFM cells were transfected with a control shRNA or an shRNA targeting PGC1α followed by evaluation of transwell invasion (left panel) and migration using a scratch assay (right panel). Representative images for migrating and invading cells are shown. Values are mean plus-minus SD of triplicate samples. P-values are based upon a two-sided Student's T-test; ***, p<0.001.
Supplementary Table 4 from Genome-wide Profiling of Genetic Synthetic Lethality Identifies CDK12 as a Novel Determinant of PARP1/2 Inhibitor Sensitivity
Authors: Bajrami Ilirjana , Frankum Jessica R. , Konde Asha , Miller Rowan E. , Rehman Farah L. , Brough Rachel , Campbell James , Sims David , Rafiq Rumana , Hooper Sean , Chen Lina , Kozarewa Iwanka , Assiotis Ioannis , Fenwick Kerry , Natrajan Rachael , Lord Christopher J. , Ashworth Alan
Published: April 2023

PDF file 58K, Supplementary Table S4. DNA repair involvement of PARP inhibitor sensitisation genes found in the screen. PMID numbers refer to pubmed entries
Supplementary Table 3 from Genome-wide Profiling of Genetic Synthetic Lethality Identifies CDK12 as a Novel Determinant of PARP1/2 Inhibitor Sensitivity
Authors: Bajrami Ilirjana , Frankum Jessica R. , Konde Asha , Miller Rowan E. , Rehman Farah L. , Brough Rachel , Campbell James , Sims David , Rafiq Rumana , Hooper Sean , Chen Lina , Kozarewa Iwanka , Assiotis Ioannis , Fenwick Kerry , Natrajan Rachael , Lord Christopher J. , Ashworth Alan
Published: April 2023

PDF file 470K, Supplementary Table S3 shRNA constructs with Olaparib Drug Effect Z scores >1.96
Supplementary Figure 5 from Inhibitor-Sensitive FGFR2 and FGFR3 Mutations in Lung Squamous Cell Carcinoma
Authors: Liao Rachel G. , Jung Joonil , Tchaicha Jeremy , Wilkerson Matthew D. , Sivachenko Andrey , Beauchamp Ellen M. , Liu Qingsong , Pugh Trevor J. , Pedamallu Chandra Sekhar , Hayes D. Neil , Gray Nathanael S. , Getz Gad , Wong Kwok-Kin , Haddad Robert I. , Meyerson Matthew , Hammerman Peter S.
Published: April 2023

PDF file - 159K, Ba/F3 data with six additional inhibitors.
Supplementary Materials and Methods, Figure Legends from PP2A-B55β Antagonizes Cyclin E1 Proteolysis and Promotes Its Dysregulation in Cancer
Authors: Tan YingMeei , Sun Dahui , Jiang Weijian , Klotz-Noack Kathleen , Vashisht Ajay A. , Wohlschlegel James , Widschwendter Martin , Spruck Charles
Published: April 2023

PDF file - 71KB
Supplementary Table S1 from Adiponectin Receptor Signaling on Dendritic Cells Blunts Antitumor Immunity
Authors: Tan Peng H. , Tyrrell Helen E.J. , Gao Liquan , Xu Danmei , Quan Jianchao , Gill Dipender , Rai Lena , Ding Yunchuan , Plant Gareth , Chen Yuan , Xue John Z. , Handa Ashok I. , Greenall Michael J. , Walsh Kenneth , Xue Shao-An
Published: April 2023

Primers used in the molecular cloning.
Supplementary Table 2 from Dendritic Cells in Tumor-Associated Tertiary Lymphoid Structures Signal a Th1 Cytotoxic Immune Contexture and License the Positive Prognostic Value of Infiltrating CD8+ T Cells
Authors: Goc Jérémy , Germain Claire , Vo-Bourgais Thi Kim Duy , Lupo Audrey , Klein Christophe , Knockaert Samantha , de Chaisemartin Luc , Ouakrim Hanane , Becht Etienne , Alifano Marco , Validire Pierre , Remark Romain , Hammond Scott A. , Cremer Isabelle , Damotte Diane , Fridman Wolf-Herman , Sautès-Fridman Catherine , Dieu-Nosjean Marie-Caroline
Published: April 2023

PDF file - 98K, Baseline characteristics of the NSCLC frozen tumors enrolled in the prospective study.
Supplementary Figure S7 from Adiponectin Receptor Signaling on Dendritic Cells Blunts Antitumor Immunity
Authors: Tan Peng H. , Tyrrell Helen E.J. , Gao Liquan , Xu Danmei , Quan Jianchao , Gill Dipender , Rai Lena , Ding Yunchuan , Plant Gareth , Chen Yuan , Xue John Z. , Handa Ashok I. , Greenall Michael J. , Walsh Kenneth , Xue Shao-An
Published: April 2023

Over-expression of AdipoR1/R2 promotes T cell anergy at physiological level of APN.
Supplementary Figure S6 from Adiponectin Receptor Signaling on Dendritic Cells Blunts Antitumor Immunity
Authors: Tan Peng H. , Tyrrell Helen E.J. , Gao Liquan , Xu Danmei , Quan Jianchao , Gill Dipender , Rai Lena , Ding Yunchuan , Plant Gareth , Chen Yuan , Xue John Z. , Handa Ashok I. , Greenall Michael J. , Walsh Kenneth , Xue Shao-An
Published: April 2023

Knockdown of PPARgamma expression can replace AdipoR2-depletion to rescue APN induced T cell anergy.
Supplementary Figure 5 from Dendritic Cells in Tumor-Associated Tertiary Lymphoid Structures Signal a Th1 Cytotoxic Immune Contexture and License the Positive Prognostic Value of Infiltrating CD8+ T Cells
Authors: Goc Jérémy , Germain Claire , Vo-Bourgais Thi Kim Duy , Lupo Audrey , Klein Christophe , Knockaert Samantha , de Chaisemartin Luc , Ouakrim Hanane , Becht Etienne , Alifano Marco , Validire Pierre , Remark Romain , Hammond Scott A. , Cremer Isabelle , Damotte Diane , Fridman Wolf-Herman , Sautès-Fridman Catherine , Dieu-Nosjean Marie-Caroline
Published: April 2023

PDF file - 380K, Gene expression levels related to immune populations, TLS, Th-orientation, cytotoxicity, T-cell activation, immuno-suppression, inflammation and angiogenesis according to the high and low density of mature DC.
Supplementary Figure 4 from Dendritic Cells in Tumor-Associated Tertiary Lymphoid Structures Signal a Th1 Cytotoxic Immune Contexture and License the Positive Prognostic Value of Infiltrating CD8+ T Cells
Authors: Goc Jérémy , Germain Claire , Vo-Bourgais Thi Kim Duy , Lupo Audrey , Klein Christophe , Knockaert Samantha , de Chaisemartin Luc , Ouakrim Hanane , Becht Etienne , Alifano Marco , Validire Pierre , Remark Romain , Hammond Scott A. , Cremer Isabelle , Damotte Diane , Fridman Wolf-Herman , Sautès-Fridman Catherine , Dieu-Nosjean Marie-Caroline
Published: April 2023

PDF file - 123K, CD62L- T cells represent the main T cell population in human lung tumors.
Supplementary Figure Legend from ALCAM/CD166 Is a TGF-β–Responsive Marker and Functional Regulator of Prostate Cancer Metastasis to Bone
Authors: Hansen Amanda G. , Arnold Shanna A. , Jiang Ming , Palmer Trenis D. , Ketova Tatiana , Merkel Alyssa , Pickup Michael , Samaras Susan , Shyr Yu , Moses Harold L. , Hayward Simon W. , Sterling Julie A. , Zijlstra Andries
Published: April 2023

PDF - 96K, Legend for Supplemental Figures S1-S9.
Supplementary Table 8 from Fusobacterium in Colonic Flora and Molecular Features of Colorectal Carcinoma
Authors: Tahara Tomomitsu , Yamamoto Eiichiro , Suzuki Hiromu , Maruyama Reo , Chung Woonbok , Garriga Judith , Jelinek Jaroslav , Yamano Hiro-o , Sugai Tamotsu , An Byonggu , Shureiqi Imad , Toyota Minoru , Kondo Yutaka , Estécio Marcos R.H. , Issa Jean-Pierre J.
Published: April 2023

XLSX file - 18K, Association between Fusobacterium status and gender, location and age in cancer free subjects.
Supplementary Table 4 from Fusobacterium in Colonic Flora and Molecular Features of Colorectal Carcinoma
Authors: Tahara Tomomitsu , Yamamoto Eiichiro , Suzuki Hiromu , Maruyama Reo , Chung Woonbok , Garriga Judith , Jelinek Jaroslav , Yamano Hiro-o , Sugai Tamotsu , An Byonggu , Shureiqi Imad , Toyota Minoru , Kondo Yutaka , Estécio Marcos R.H. , Issa Jean-Pierre J.
Published: April 2023

XLSX file - 11K, Association between high amount of Fusobacterium and clinical and molecular subtypes of CRCs in the proximal colon.
Supplementary Figure 1 from Fusobacterium in Colonic Flora and Molecular Features of Colorectal Carcinoma
Authors: Tahara Tomomitsu , Yamamoto Eiichiro , Suzuki Hiromu , Maruyama Reo , Chung Woonbok , Garriga Judith , Jelinek Jaroslav , Yamano Hiro-o , Sugai Tamotsu , An Byonggu , Shureiqi Imad , Toyota Minoru , Kondo Yutaka , Estécio Marcos R.H. , Issa Jean-Pierre J.
Published: April 2023

PDF file - 72K, Venn diagrams showing the proportion of tumor (a) and normal (b) cases where F.nucleatum and Pan-fusobacterium were detected.
Supplementary Tables 1 - 2, Figures 1 - 2 from Differential Regulation of Estrogen Receptor α Expression in Breast Cancer Cells by Metastasis-Associated Protein 1
Authors: Kang Hyun-Jin , Lee Min-Ho , Kang Hae-Lim , Kim Sung-Hye , Ahn Jung-Ranh , Na Hyelin , Na Tae-Young , Kim Yo Na , Seong Je Kyung , Lee Mi-Ock
Published: April 2023

PDF file - 297K, Supplementary Table 1: The sequences of RT-PCR, ChIP, siRNA, and shRNA. Supplementary Table 2: The common target genes of TFAP2C and MTA1. Supplementary Figure 1: Epigenetic control of ERpro315 region by MTA1. Supplementary Figure 2: Class II HDACs interact with p300 in the presence of TFAP2C.
Supplementary Figure 4 from EGF Receptor Activates MET through MAPK to Enhance Non–Small Cell Lung Carcinoma Invasion and Brain Metastasis
Authors: Breindel Jerrica L. , Haskins Jonathan W. , Cowell Elizabeth P. , Zhao Minghui , Nguyen Don X. , Stern David F.
Published: April 2023

PDF file - 502K, EGFR modulates MET phosphorylation, protein, and mRNA levels in PC9 cells.
Supplementary Tables 1 - 3 from Comparative Functional Analysis of DPYD Variants of Potential Clinical Relevance to Dihydropyrimidine Dehydrogenase Activity
Authors: Offer Steven M. , Fossum Croix C. , Wegner Natalie J. , Stuflesser Alexander J. , Butterfield Gabriel L. , Diasio Robert B.
Published: April 2023

PDF file - 138KB, Supplementary Table S1. Primers used for site directed mutagenesis of DPYD expression plasmids. Supplementary Table S2. List of missense DPYD variants identified in dbSNP, ESP, and 1000 Genomes databases. Supplementary Table S3. Comparison of in silico predictions of damaging variants and measured enzyme activity of DPD variants.
Supplementary Figure 4 from HuR Posttranscriptionally Regulates WEE1: Implications for the DNA Damage Response in Pancreatic Cancer Cells
Authors: Lal Shruti , Burkhart Richard A. , Beeharry Neil , Bhattacharjee Vikram , Londin Eric R. , Cozzitorto Joseph A. , Romeo Carmella , Jimbo Masaya , Norris Zoë A. , Yeo Charles J. , Sawicki Janet A. , Winter Jordan M. , Rigoutsos Isidore , Yen Timothy J. , Brody Jonathan R.
Published: April 2023

PDF file - 350KB, WEE1 is a novel HuR target in DDR pathway.
Supplementary Table 4B from shRNA Kinome Screen Identifies TBK1 as a Therapeutic Target for HER2+ Breast Cancer
Authors: Deng Tao , Liu Jeff C. , Chung Philip E.D. , Uehling David , Aman Ahmed , Joseph Babu , Ketela Troy , Jiang Zhe , Schachter Nathan F. , Rottapel Robert , Egan Sean E. , Al-awar Rima , Moffat Jason , Zacksenhaus Eldad
Published: April 2023

PDF file - 60KB, Supplementary Table S4b lists gene sets enriched in untreated HER2+ breast cancer cells.
Supplementary Figure 5 from Increased Dietary Vitamin D Suppresses MAPK Signaling, Colitis, and Colon Cancer
Authors: Meeker Stacey , Seamons Audrey , Paik Jisun , Treuting Piper M. , Brabb Thea , Grady William M. , Maggio-Price Lillian
Published: April 2023

PDF file - 14K, High dietary vitamin D decreases p-P38 and p-P65 expression.
Supplementary Figure 4 from Increased Dietary Vitamin D Suppresses MAPK Signaling, Colitis, and Colon Cancer
Authors: Meeker Stacey , Seamons Audrey , Paik Jisun , Treuting Piper M. , Brabb Thea , Grady William M. , Maggio-Price Lillian
Published: April 2023

PDF file - 103K, High dietary vitamin D decreases expression of proinflammatory and chemotactic cytokines in proximal colon tissue and feces 1 week post H. bilis-infection.
Data Supplement from BMP4 Inhibits Breast Cancer Metastasis by Blocking Myeloid-Derived Suppressor Cell Activity
Authors: Cao Yuan , Slaney Clare Y. , Bidwell Bradley N. , Parker Belinda S. , Johnstone Cameron N. , Rautela Jai , Eckhardt Bedrich L. , Anderson Robin L.
Published: April 2023

Supplementary Figure 3. Effect of BMP4 on the phenotype of 4T1.2 cells.
Supplementary Figure 2 from Vaccine-Mediated Immunotherapy Directed against a Transcription Factor Driving the Metastatic Process
Authors: Ardiani Andressa , Gameiro Sofia R. , Palena Claudia , Hamilton Duane H. , Kwilas Anna , King Thomas H. , Schlom Jeffrey , Hodge James W.
Published: April 2023

PDF file - 358KB, Expression of EMT marker expression in primary tumor and lung metastases.
Supplementary Figure 3 from Apoptosis Imaging for Monitoring DR5 Antibody Accumulation and Pharmacodynamics in Brain Tumors Noninvasively
Authors: Weber Thomas G. , Osl Franz , Renner Anja , Pöschinger Thomas , Galbán Stefanie , Rehemtulla Alnawaz , Scheuer Werner
Published: April 2023

PDF file - 936KB, Supplementary Figure 3 - Apoptosis and fluorescence imaging reveal that 3.9-7.0% of anti-DR5-Cy5 given i.v. reaches subcutaneous D54-Caspase-3/7 GloSensor tumors.
Supplementary Figure 1 from Loss of Androgen Receptor Expression Promotes a Stem-like Cell Phenotype in Prostate Cancer through STAT3 Signaling
Authors: Schroeder Anne , Herrmann Andreas , Cherryholmes Gregory , Kowolik Claudia , Buettner Ralf , Pal Sumanta , Yu Hua , Müller-Newen Gerhard , Jove Richard
Published: April 2023

PDF file - 1025K, Supplementary Fig. 1: Elevated STAT3 activity results in enhanced tumor growth.
Supplementary Table 1 from MYCN-Dependent Expression of Sulfatase-2 Regulates Neuroblastoma Cell Survival
Authors: Solari Valeria , Borriello Lucia , Turcatel Gianluca , Shimada Hiroyuki , Sposto Richard , Fernandez G. Esteban , Asgharzadeh Shahab , Yates Edwin A. , Turnbull Jeremy E. , DeClerck Yves A.
Published: April 2023

Sequences of primers used for RT-PCR.
Supplementary Figure 2 from Novel Mechanism of MDA-7/IL-24 Cancer-Specific Apoptosis through SARI Induction
Authors: Dash Rupesh , Bhoopathi Praveen , Das Swadesh K. , Sarkar Siddik , Emdad Luni , Dasgupta Santanu , Sarkar Devanand , Fisher Paul B.
Published: April 2023

PDF file - 255K, S2. siRNA-mediated silencing of IL-20R2 or IL-22R receptor pairs in DU-145 and HO-1 cells.
Supplementary Figure 1, Tables 1 - 3 from A Common Cancer-Associated DNA Polymerase ϵ Mutation Causes an Exceptionally Strong Mutator Phenotype, Indicating Fidelity Defects Distinct from Loss of Proofreading
Authors: Kane Daniel P. , Shcherbakova Polina V.
Published: April 2023

PDF file - 63KB, Supplementary Figure S1. Strategy for PCR amplification of the exonuclease domain region of POLE. Supplementary Table S1. Primers and reaction conditions used to amplify the entire coding sequence of POLE from tumor sample T-04-364 by nested PCR. Supplementary Table S2. Yeast strains used in the study. Supplementary Table S3. Properties of previously characterized yeast pol2 mutators.
Supplementary Figure 4 from Extracellular Vesicles Modulate the Glioblastoma Microenvironment via a Tumor Suppression Signaling Network Directed by miR-1
Authors: Bronisz Agnieszka , Wang Yan , Nowicki Michal O. , Peruzzi Pierpaolo , Ansari Khairul I. , Ogawa Daisuke , Balaj Leonora , De Rienzo Gianluca , Mineo Marco , Nakano Ichiro , Ostrowski Michael C. , Hochberg Fred , Weissleder Ralph , Lawler Sean E. , Chiocca E. Antonio , Godlewski Jakub
Published: April 2023

PDF file - 98K, FIGURE S4 related to FIGURE 5. Visualization of GBM-derived EVs uptake.
Supplementary Figure 1 from Extracellular Vesicles Modulate the Glioblastoma Microenvironment via a Tumor Suppression Signaling Network Directed by miR-1
Authors: Bronisz Agnieszka , Wang Yan , Nowicki Michal O. , Peruzzi Pierpaolo , Ansari Khairul I. , Ogawa Daisuke , Balaj Leonora , De Rienzo Gianluca , Mineo Marco , Nakano Ichiro , Ostrowski Michael C. , Hochberg Fred , Weissleder Ralph , Lawler Sean E. , Chiocca E. Antonio , Godlewski Jakub
Published: April 2023

PDF file - 154K, FIGURE S1 related to FIGURE2. Effect of miR-1 overexpression on GBM cells in vivo.
Data Supplement from AR-Regulated TWEAK-FN14 Pathway Promotes Prostate Cancer Bone Metastasis
Authors: Yin JuanJuan , Liu Yen-Nien , Tillman Heather , Barrett Ben , Hewitt Stephen , Ylaya Kris , Fang Lei , Lake Ross , Corey Eva , Morrissey Colm , Vessella Robert , Kelly Kathleen
Published: April 2023

Supplemental Figure 3. (A) Western blot analysis of the DU145/RasB1IÎºBÎ±SR cell line, with or without prior doxycycline induction for 2 days, harvested at various time points (min) after TWEAK treatment (50ng/ml) and assayed for the proteins indicated. (B) In vitro growth of the DU145/RasB1IÎºBÎ±SR cell line with and without prior doxycycline induction. *p<0.05. (C) Average body weight of mice bearing DU145/RasB1IÎºBÎ±SR tumors in mice fed with doxycycline on day 0 (n=9) or day 14(n=9). **p<0.01 vs control (n=8). (D) Western blot analysis of Fn14, IKKB and NIK levels in DU145/RasB1Fn14KD cell lines rescued by re-expression of Fn14, IKKBS177E S188E , and NIKâˆ†T3.
Supplementary Tables 1 - 3 from Phosphorylation at Ser-181 of Oncogenic KRAS Is Required for Tumor Growth
Authors: Barceló Carles , Paco Noelia , Morell Mireia , Alvarez-Moya Blanca , Bota-Rabassedas Neus , Jaumot Montserrat , Vilardell Felip , Capella Gabriel , Agell Neus
Published: April 2023

PDF file - 20K, Table S1. Statistics for the values of volumes (mm3) represented in Fig1 pannel B. Table S2. Statistics for the values of weights (g) represented in Fig1 panel C. Table S3. KRAS mutations I tumor cell lines used to determine PKC inhibition sensitivity and KRAS phosphorylation.
Supplementary Figure 5 from Phosphorylation at Ser-181 of Oncogenic KRAS Is Required for Tumor Growth
Authors: Barceló Carles , Paco Noelia , Morell Mireia , Alvarez-Moya Blanca , Bota-Rabassedas Neus , Jaumot Montserrat , Vilardell Felip , Capella Gabriel , Agell Neus
Published: April 2023

PDF file - 25K, Fig. S5. GTP loading of endogenous Ras isoforms in the DLD1 KRAS wt/- cells expressing oncogenic KRAS phosphomutants.
Supplementary Figures 1 - 7 from Tumor-Derived GM-CSF Promotes Inflammatory Colon Carcinogenesis via Stimulating Epithelial Release of VEGF
Authors: Wang Yi , Han Gencheng , Wang Ke , Liu Guijun , Wang Renxi , Xiao He , Li Xinying , Hou Chunmei , Shen Beifen , Guo Renfeng , Li Yan , Chen Guojiang
Published: April 2023

PDF file - 429K, Fig. S1: GMCSFR expression in primary and transformed CEC. Fig S2: Receptors for IL-1, IL-6 and VEGF in CT26 cells. Fig. S3: GMCSF elicits IL-1β and IL-6. Fig. S4: Blocking GMCSF or VEGF decreases the number of proliferative epithelial cells. Fig. S5: Blocking GMCSF or VEGF regulates cell cycle gene expression in CEC. Fig. S6: GMCSF elicits VEGF expression in HCT116 cells. Fig. S7: TLR4 expression in primary and transformed CEC.
Supplementary Methods from Bcl2 Induces DNA Replication Stress by Inhibiting Ribonucleotide Reductase
Authors: Xie Maohua , Yen Yun , Owonikoko Taofeek K. , Ramalingam Suresh S. , Khuri Fadlo R. , Curran Walter J. , Doetsch Paul W. , Deng Xingming
Published: April 2023

PDF file - 37K
Data Supplement from Kinase Domain Activation of FGFR2 Yields High-Grade Lung Adenocarcinoma Sensitive to a Pan-FGFR Inhibitor in a Mouse Model of NSCLC
Authors: Tchaicha Jeremy H. , Akbay Esra A. , Altabef Abigail , Mikse Oliver R. , Kikuchi Eiki , Rhee Kevin , Liao Rachel G. , Bronson Roderick T. , Sholl Lynette M. , Meyerson Matthew , Hammerman Peter S. , Wong Kwok-Kin
Published: April 2023

Supplemental Figure 3. Extracellular Domain FGFR2 mutant mouse IHC.
Data Supplement from Kinase Domain Activation of FGFR2 Yields High-Grade Lung Adenocarcinoma Sensitive to a Pan-FGFR Inhibitor in a Mouse Model of NSCLC
Authors: Tchaicha Jeremy H. , Akbay Esra A. , Altabef Abigail , Mikse Oliver R. , Kikuchi Eiki , Rhee Kevin , Liao Rachel G. , Bronson Roderick T. , Sholl Lynette M. , Meyerson Matthew , Hammerman Peter S. , Wong Kwok-Kin
Published: April 2023

Descriptions of each of the Supplemental Figures/Tables
Supplementary Figure S2 from Endothelin A Receptor/β-Arrestin Signaling to the Wnt Pathway Renders Ovarian Cancer Cells Resistant to Chemotherapy
Authors: Rosanò Laura , Cianfrocca Roberta , Tocci Piera , Spinella Francesca , Di Castro Valeriana , Caprara Valentina , Semprucci Elisa , Ferrandina Gabriella , Natali Pier Giorgio , Bagnato Anna
Published: April 2023

Supplementary Figure S2. Analysis of ÃŽÂ²-arr1 or ÃŽÂ²-catenin knockdown and effects of ETAR-driven ÃŽÂ²-arr1/ÃŽÂ²-catenin nuclear complexes on ET-1 expression.
Supplementary Figure 2 from Identification of a Cyclin D1 Network in Prostate Cancer That Antagonizes Epithelial–Mesenchymal Restraint
Authors: Ju Xiaoming , Casimiro Mathew C. , Gormley Michael , Meng Hui , Jiao Xuanmao , Katiyar Sanjay , Crosariol Marco , Chen Ke , Wang Min , Quong Andrew A. , Lisanti Michael P. , Ertel Adam , Pestell Richard G.
Published: April 2023

PDF file - 111K, Cyclin D1 dependent DHT regulated gene expression.
Supplementary Figure 4 from Germline Mutations in BAP1 Impair Its Function in DNA Double-Strand Break Repair
Authors: Ismail Ismail Hassan , Davidson Riley , Gagné Jean-Philippe , Xu Zhi Zhong , Poirier Guy G. , Hendzel Michael J.
Published: April 2023

PDF file - 35KB, Figure S4. Immunoblot analysis of PARP1/2 expression. (A) U2OS cells were transfected with control (Ctr) or PARP1 siRNA for 48 hr. Nuclear extracts were prepared and immunoblotting was performed using the indicated antibodies. (B) Knockdown of PARP2 in U2OS cells. U2OS cells were transfected with control or PARP2 siRNA for 48 h. Nuclear extracts were prepared and immunoblotted using PARP2 antibody. Actin was used as a loading control. (C) PR-DUB complex does not bind PAR in vitro. SDS-PAGE of 100 ng purified GST-BAP1, GST-ASXL1 or BAP1/ASXL1 blotted onto a nitrocellulose membrane and incubated in 250 nM 32P-labeled PAR in TBS-T. As a control, histones and BSA were included as a positive and a negative control respectively.
Supplementary Table 1 from Invasive Lobular Carcinoma Cell Lines Are Characterized by Unique Estrogen-Mediated Gene Expression Patterns and Altered Tamoxifen Response
Authors: Sikora Matthew J. , Cooper Kristine L. , Bahreini Amir , Luthra Soumya , Wang Guoying , Chandran Uma R. , Davidson Nancy E. , Dabbs David J. , Welm Alana L. , Oesterreich Steffi
Published: April 2023

XLSX file - 2042K, Lists for genes regulated by E2 in MM134 and SUM44 cells, and for categories of genes based on cell type specificity.
Supplementary Figure 4 from Invasive Lobular Carcinoma Cell Lines Are Characterized by Unique Estrogen-Mediated Gene Expression Patterns and Altered Tamoxifen Response
Authors: Sikora Matthew J. , Cooper Kristine L. , Bahreini Amir , Luthra Soumya , Wang Guoying , Chandran Uma R. , Davidson Nancy E. , Dabbs David J. , Welm Alana L. , Oesterreich Steffi
Published: April 2023

PDF file - 165K, Cell viability assays following kinase inhibition.
Supplementary Figure 3 from Invasive Lobular Carcinoma Cell Lines Are Characterized by Unique Estrogen-Mediated Gene Expression Patterns and Altered Tamoxifen Response
Authors: Sikora Matthew J. , Cooper Kristine L. , Bahreini Amir , Luthra Soumya , Wang Guoying , Chandran Uma R. , Davidson Nancy E. , Dabbs David J. , Welm Alana L. , Oesterreich Steffi
Published: April 2023

PDF file - 89K, Expression of genes in the ILC E2 geneset in MCF-7 and MM134 cells following treatment with anti-estrogens.
Supplementary Figure 2 from Invasive Lobular Carcinoma Cell Lines Are Characterized by Unique Estrogen-Mediated Gene Expression Patterns and Altered Tamoxifen Response
Authors: Sikora Matthew J. , Cooper Kristine L. , Bahreini Amir , Luthra Soumya , Wang Guoying , Chandran Uma R. , Davidson Nancy E. , Dabbs David J. , Welm Alana L. , Oesterreich Steffi
Published: April 2023

PDF file - 52K, Motif analysis of ER binding sites identified in MM134 by ChIP-seq.
Supplementary Figure 8 from HO-3867, a Safe STAT3 Inhibitor, Is Selectively Cytotoxic to Ovarian Cancer
Authors: Rath Kellie S. , Naidu Shan K. , Lata Pushpa , Bid Hemant K. , Rivera Brian K. , McCann Georgia A. , Tierney Brent J. , ElNaggar Adam C. , Bravo Veronica , Leone Gustavo , Houghton Peter , Hideg Kálmán , Kuppusamy Periannan , Cohn David E. , Selvendiran Karuppaiyah
Published: April 2023

PDF file - 77K, Immunoblot analysis for pSTAT3, and Bcl-2 using 2 different mice tissue.
Supplementary Figure 5 from HO-3867, a Safe STAT3 Inhibitor, Is Selectively Cytotoxic to Ovarian Cancer
Authors: Rath Kellie S. , Naidu Shan K. , Lata Pushpa , Bid Hemant K. , Rivera Brian K. , McCann Georgia A. , Tierney Brent J. , ElNaggar Adam C. , Bravo Veronica , Leone Gustavo , Houghton Peter , Hideg Kálmán , Kuppusamy Periannan , Cohn David E. , Selvendiran Karuppaiyah
Published: April 2023

PDF file - 116K, Viability of SKOV3, hOSE, and H9c2 cells treated with H-4073 or HO-3867.
Supplementary Figure 12 from HO-3867, a Safe STAT3 Inhibitor, Is Selectively Cytotoxic to Ovarian Cancer
Authors: Rath Kellie S. , Naidu Shan K. , Lata Pushpa , Bid Hemant K. , Rivera Brian K. , McCann Georgia A. , Tierney Brent J. , ElNaggar Adam C. , Bravo Veronica , Leone Gustavo , Houghton Peter , Hideg Kálmán , Kuppusamy Periannan , Cohn David E. , Selvendiran Karuppaiyah
Published: April 2023

PDF file - 94K, Western blots showing inhibition of pSTAT3 Y705 by HO-3867 treatment in primary cancer cell lines.
Supplementary Figure 10 from HO-3867, a Safe STAT3 Inhibitor, Is Selectively Cytotoxic to Ovarian Cancer
Authors: Rath Kellie S. , Naidu Shan K. , Lata Pushpa , Bid Hemant K. , Rivera Brian K. , McCann Georgia A. , Tierney Brent J. , ElNaggar Adam C. , Bravo Veronica , Leone Gustavo , Houghton Peter , Hideg Kálmán , Kuppusamy Periannan , Cohn David E. , Selvendiran Karuppaiyah
Published: April 2023

PDF file - 282K, H&E-stained organ tissue samples and TUNEL Stain.
Supplementary Materials, Tables, and Figures from Metabolic Characterization of Hepatocellular Carcinoma Using Nontargeted Tissue Metabolomics
Authors: Huang Qiang , Tan Yexiong , Yin Peiyuan , Ye Guozhu , Gao Peng , Lu Xin , Wang Hongyang , Xu Guowang
Published: April 2023

PDF file, 321K, Serum pretreatment for CE-MS analysis Detailed conditions of capillary electrophoresis and mass spectrometry for betaine and propionylcarnitine analysis Tables S1-S5 Figure S1. Metabolic profiling of liver tissues. Figure S2. Study of the metabolic profiles of liver tissues. Figure S3. External validation of betaine and propionylcarnitine in cirrhosis and HCC patients. Figure S4. Significant differences of citramalic acid in tumor tissue in HBsAg-positive patients from HBsAg-negative ones.
Supplementary Table 3 from Expression of Variant Isoforms of the Tyrosine Kinase SYK Determines the Prognosis of Hepatocellular Carcinoma
Authors: Hong Jian , Yuan Yunfei , Wang Jianping , Liao Yadi , Zou Ruhai , Zhu Chuanlong , Li Binkui , Liang Yi , Huang Pinzhu , Wang Zongwei , Lin Wenyu , Zeng Yixin , Le Dai Jia , Chung Raymond T.
Published: April 2023

PDF file - 127KB, Supplementary Table 3. Cox multivariate analysis of contributory factors to TTR and OS among 152 HCC patients after hepatectomy.
Supplementary Figure 9 from Mechanistic Elucidation of the Antitumor Properties of Withaferin A in Breast Cancer
Authors: Nagalingam Arumugam , Kuppusamy Panjamurthy , Singh Shivendra V. , Sharma Dipali , Saxena Neeraj K.
Published: April 2023

PDF file - 156KB, Supplementary Figure 9 WFA increases DR5 expression in multiple breast cancer cell lines and CHOP and Elk1 contribute to WFA-induced upregulation of Death receptor 5 in breast cancer cells.
Supplementary Materials and Methods and Figure Legends from Expression of Variant Isoforms of the Tyrosine Kinase SYK Determines the Prognosis of Hepatocellular Carcinoma
Authors: Hong Jian , Yuan Yunfei , Wang Jianping , Liao Yadi , Zou Ruhai , Zhu Chuanlong , Li Binkui , Liang Yi , Huang Pinzhu , Wang Zongwei , Lin Wenyu , Zeng Yixin , Le Dai Jia , Chung Raymond T.
Published: April 2023

PDF file - 192KB
Supplementary Figure 8 from Mechanistic Elucidation of the Antitumor Properties of Withaferin A in Breast Cancer
Authors: Nagalingam Arumugam , Kuppusamy Panjamurthy , Singh Shivendra V. , Sharma Dipali , Saxena Neeraj K.
Published: April 2023

PDF file - 99KB, Supplementary Figure 8 CHOP is important for Withaferin A mediated inhibition of breast cancer cell growth.
Supplementary Figure 4 from Expression of Variant Isoforms of the Tyrosine Kinase SYK Determines the Prognosis of Hepatocellular Carcinoma
Authors: Hong Jian , Yuan Yunfei , Wang Jianping , Liao Yadi , Zou Ruhai , Zhu Chuanlong , Li Binkui , Liang Yi , Huang Pinzhu , Wang Zongwei , Lin Wenyu , Zeng Yixin , Le Dai Jia , Chung Raymond T.
Published: April 2023

PDF file - 114KB, Supplementary Figure 4. Suppression of MAPK/ERK signaling by SYK(L), but not SYK(S), in HCC cell lines and xenografts.
Supplementary Materials and Methods from Role of Chitinase 3–like-1 and Semaphorin 7a in Pulmonary Melanoma Metastasis
Authors: Ma Bing , Herzog Erica L. , Lee Chun Geun , Peng Xueyan , Lee Chang-Min , Chen Xiaosong , Rockwell Sara , Koo Ja Seok , Kluger Harriet , Herbst Roy S. , Sznol Mario , Elias Jack A.
Published: April 2023

Supplementary Materials and Methods
Figure S6. Proposed pathway of H1.3 inhibiting H19 and ovarian cancer cell growth. from Histone H1.3 Suppresses H19 Noncoding RNA Expression and Cell Growth of Ovarian Cancer Cells
Authors: Medrzycki Magdalena , Zhang Yunzhe , Zhang Weijia , Cao Kaixiang , Pan Chenyi , Lailler Nathalie , McDonald John F. , Bouhassira Eric E. , Fan Yuhong
Published: April 2023

Figure S6. Proposed pathway of H1.3 inhibiting H19 and ovarian cancer cell growth. Proposed pathway of H1.3 inhibiting H19 and ovarian cancer cell growth.
Supplementary Movie 2 from VEGF-Mediated Angiogenesis Links EMT-Induced Cancer Stemness to Tumor Initiation
Authors: Fantozzi Anna , Gruber Dorothea C. , Pisarsky Laura , Heck Chantal , Kunita Akiko , Yilmaz Mahmut , Meyer-Schaller Nathalie , Cornille Karen , Hopfer Ulrike , Bentires-Alj Mohamed , Christofori Gerhard
Published: April 2023

MPG file - 3174K, Three-dimensional confocal reconstitution.
Supplementary Figures 1 - 9 from Metastatic Growth Progression Caused by PSGL-1–Mediated Recruitment of Monocytes to Metastatic Sites
Authors: Hoos Alexandra , Protsyuk Darya , Borsig Lubor
Published: April 2023

PDF file - 482K, Endogenous selectin ligands attenuate metastasis of B16-BL6 and 3LL cells (S1); Reconstitution of chimeric mice (S2); Leukocyte quantification in the lungs (S3); Detection of P-selectin ligands on monocytes and granulocytes (S4); Selectin ligand-expressing monocytes rescue metastasis of 3LL cells in Fuc-TVII -/- mice (S5); The absence of endogenous selectin ligands has no effect on expression levels of inflammatory cytokines (S6); Analysis of lung vascular permeability (S7); Fuc-TVII-/- mice accelerate primary tumor growth (S8); Transient depletion of neutrophils rescued metastasis in Fuc-TVII-/-mice (S9).
Supplementary Figures S1-S9 from VEGF-Targeted Therapy Stably Modulates the Glycolytic Phenotype of Tumor Cells
Authors: Curtarello Matteo , Zulato Elisabetta , Nardo Giorgia , Valtorta Silvia , Guzzo Giulia , Rossi Elisabetta , Esposito Giovanni , Msaki Aichi , Pastò Anna , Rasola Andrea , Persano Luca , Ciccarese Francesco , Bertorelle Roberta , Todde Sergio , Plebani Mario , Schroer Henrike , Walenta Stefan , Mueller-Klieser Wolfgang , Amadori Alberto , Moresco Rosa Maria , Indraccolo Stefano
Published: April 2023

Supplementary Figures S1-S9. Characterization of cancer cell lines with different metabolic features (S1); Anti-VEGF therapy reduces vascularization and increases necrosis in tumor xenografts (S2); AMPKα1/α2 silencing up-regulates glycolysis and renders tumors less responsive to anti-VEGF therapy (S3); Effects of anti-VEGF therapy on tumor cell proliferation (S4); Expression MCT4 protein in ex vivo cultures of IGROV-1 tumors (S5); Analysis of HIF-1α activity and expression levels of pAKT, c-MYC and pAMPK in ex vivo cultures of IGROV-1 tumors (S6); Bio-energetic analysis of ex vivo cultures of OC316 tumors resistant to anti-VEGF therapy (S7); Selection of highly glycolytic cells in BALB-neuT transgenic mouse model following anti-VEGF therapy (S8); Working hypothesis: Evolutionary dynamics of tumor metabolism (S9).
Supplementary Figure 1 from VEGF Regulates Region-Specific Localization of Perivascular Bone Marrow–Derived Cells in Glioblastoma
Authors: Burrell Kelly , Singh Sanjay , Jalali Shahrzad , Hill Richard P. , Zadeh Gelareh
Published: April 2023

PDF file - 143KB, IHC Ki67 staining, as demonstrated by thumbnails demonstrates the number of actively proliferating nuclei in the field. Once quantified as a percentage of total nuclei it is visible that there is no significant difference between early and late tumor indices. Additionally there is no significant change upon the administration of RTx at a clinically relevant dose. There is a significant reduction in proliferation at late stages of tumor growth when higher doses of radiation are applied.
Supplementary Figure 5 from TGF-β Modulates Ovarian Cancer Invasion by Upregulating CAF-Derived Versican in the Tumor Microenvironment
Authors: Yeung Tsz-Lun , Leung Cecilia S. , Wong Kwong-Kwok , Samimi Goli , Thompson Melissa S. , Liu Jinsong , Zaid Tarrik M. , Ghosh Sue , Birrer Michael J. , Mok Samuel C.
Published: April 2023

PDF file, 4737K, Expression of EMT markers in ovarian cancer cells co-cultured with fibroblasts.
Supplementary Figure 3 from TGF-β Modulates Ovarian Cancer Invasion by Upregulating CAF-Derived Versican in the Tumor Microenvironment
Authors: Yeung Tsz-Lun , Leung Cecilia S. , Wong Kwong-Kwok , Samimi Goli , Thompson Melissa S. , Liu Jinsong , Zaid Tarrik M. , Ghosh Sue , Birrer Michael J. , Mok Samuel C.
Published: April 2023

PDF file, 1213K, A primary CAF line treated with TGF-B in the presence or absence of TGF-B pathway inhibitor.
Supplementary Figure 1 from TGF-β Modulates Ovarian Cancer Invasion by Upregulating CAF-Derived Versican in the Tumor Microenvironment
Authors: Yeung Tsz-Lun , Leung Cecilia S. , Wong Kwong-Kwok , Samimi Goli , Thompson Melissa S. , Liu Jinsong , Zaid Tarrik M. , Ghosh Sue , Birrer Michael J. , Mok Samuel C.
Published: April 2023

PDF file, 282K, Microdissection of normal ovarian tissue and high-grade serous ovarian tumor samples.
Figures and Tables Legends from TGF-β Modulates Ovarian Cancer Invasion by Upregulating CAF-Derived Versican in the Tumor Microenvironment
Authors: Yeung Tsz-Lun , Leung Cecilia S. , Wong Kwong-Kwok , Samimi Goli , Thompson Melissa S. , Liu Jinsong , Zaid Tarrik M. , Ghosh Sue , Birrer Michael J. , Mok Samuel C.
Published: April 2023

PDF file, 82K.
Supplementary Figure 3 from Cancer-Derived Mutations in KEAP1 Impair NRF2 Degradation but not Ubiquitination
Authors: Hast Bridgid E. , Cloer Erica W. , Goldfarb Dennis , Li Heng , Siesser Priscila F. , Yan Feng , Walter Vonn , Zheng Ning , Hayes D. Neil , Major Michael B.
Published: April 2023

PDF file - 198K, KEAP1 superbinder mutants enhance ectopic NRF2 nuclear localization.
Supplementary Figure 2 from Cancer-Derived Mutations in KEAP1 Impair NRF2 Degradation but not Ubiquitination
Authors: Hast Bridgid E. , Cloer Erica W. , Goldfarb Dennis , Li Heng , Siesser Priscila F. , Yan Feng , Walter Vonn , Zheng Ning , Hayes D. Neil , Major Michael B.
Published: April 2023

PDF file - 587K, KEAP1 mutants differentially bind to protein interactors.
Data Supplement from USP9X Downregulation Renders Breast Cancer Cells Resistant to Tamoxifen
Authors: Oosterkamp Hendrika M. , Hijmans E. Marielle , Brummelkamp Thijn R. , Canisius Sander , Wessels Lodewyk F.A. , Zwart Wilbert , Bernards René
Published: April 2023

Data Supplement from USP9X Downregulation Renders Breast Cancer Cells Resistant to Tamoxifen
Supplementary Tables 1 - 3 from HDAC2 Provides a Critical Support to Malignant Progression of Hepatocellular Carcinoma through Feedback Control of mTORC1 and AKT
Authors: Noh Ji Heon , Bae Hyun Jin , Eun Jung Woo , Shen Qingyu , Park Se Jin , Kim Hyung Seok , Nam Boas , Shin Woo Chan , Lee Eun Kyung , Lee Kyungbun , Jang Ja-Jun , Park Won Sang , Lee Jung Young , Nam Suk Woo
Published: April 2023

PDF file - 220KB, Supplementary Table S1. A List of 3,039 Genes Correlated with HDAC2 Gene Expression from a HCC Large Cohort Study. Supplementary Table S2. Overlap of the HDAC2-Correlated Gene Set with Other Existing Gene Sets. Supplementary Table S3. Molecular Concept Map Analysis of HDAC2-Specific Genes in Liver Cancer Cells.
Data Supplement from Src Kinase Is a Novel Therapeutic Target in Lymphangioleiomyomatosis
Authors: Tyryshkin Alexey , Bhattacharya Abhisek , Eissa N. Tony
Published: April 2023

Increased phospho-Src in LAM lungs (Figure S1); Enhanced activation of Src, STAT3 and Snail in human LAM cells (Figure S2); mTOR activation in TSC2-deficient cells (Figure S3); Src kinase is activated in TSC2-deficient cells (Figure S4); Knockdown of TSC2 in Hela cells up-regulates mTOR activity (Figure S5); Autophagy inhibition results in Src kinase activation (Figure S6); Effects of Src inhibition on migration activity of EEF cells (Figure S7); Src kinase inhibitors decrease proliferation of TSC2-/- cells (Figure S8); Proposed model of Src role in LAM (Figure S9).
Supplementary Figure 6 from Nutlin-3a Efficacy in Sarcoma Predicted by Transcriptomic and Epigenetic Profiling
Authors: Pishas Kathleen I. , Neuhaus Susan J. , Clayer Mark T. , Schreiber Andreas W. , Lawrence David M. , Perugini Michelle , Whitfield Robert J. , Farshid Gelareh , Manavis Jim , Chryssidis Steve , Mayo Bronwen J. , Haycox Rebecca C. , Ho Kristen , Brown Michael P. , D'Andrea Richard J. , Evdokiou Andreas , Thomas David M. , Desai Jayesh , Callen David F. , Neilsen Paul M.
Published: April 2023

PDF file - 34K, GADD45A is hypermethylated in Ewing sarcoma cell lines.
Supplementary Figure 1 from Nutlin-3a Efficacy in Sarcoma Predicted by Transcriptomic and Epigenetic Profiling
Authors: Pishas Kathleen I. , Neuhaus Susan J. , Clayer Mark T. , Schreiber Andreas W. , Lawrence David M. , Perugini Michelle , Whitfield Robert J. , Farshid Gelareh , Manavis Jim , Chryssidis Steve , Mayo Bronwen J. , Haycox Rebecca C. , Ho Kristen , Brown Michael P. , D'Andrea Richard J. , Evdokiou Andreas , Thomas David M. , Desai Jayesh , Callen David F. , Neilsen Paul M.
Published: April 2023

PDF file - 44K, Comparison of sequencing facilities.
Supplementary Figure 2 from High Numbers of Differentiated Effector CD4 T Cells Are Found in Patients with Cancer and Correlate with Clinical Response after Neoadjuvant Therapy of Breast Cancer
Authors: Péguillet Isabelle , Milder Maud , Louis Delphine , Vincent-Salomon Anne , Dorval Thierry , Piperno-Neumann Sophie , Scholl Suzy M. , Lantz Olivier
Published: April 2023

PDF file - 273KB, Phenotype of chCD4 T cells in healthy individuals.
Supplementary Materials and Methods, Figures 1 -9, Tables 1 - 4 from Novel Methylated Biomarkers and a Robust Assay to Detect Circulating Tumor DNA in Metastatic Breast Cancer
Authors: Fackler Mary Jo , Lopez Bujanda Zoila , Umbricht Christopher , Teo Wei Wen , Cho Soonweng , Zhang Zhe , Visvanathan Kala , Jeter Stacie , Argani Pedram , Wang Chenguang , Lyman Jaclyn P. , de Brot Marina , Ingle James N. , Boughey Judy , McGuire Kandace , King Tari A. , Carey Lisa A. , Cope Leslie , Wolff Antonio C. , Sukumar Saraswati
Published: April 2023

PDF file - 1559KB, This file contains detailed methods, tables of study samples and source, primer and probe sequences,and genes belonging to the panel. Supplementary Table 1. Patient sample sets used in this study. Supplementary Table 2. 10-gene marker panel and its performance. Supplementary Table 3A. cMethDNA and QM-MSP primer and probe sequences. Supplementary Table 3B. cMethDNA and QM-MSP primer and probe sequences. Supplementary Table 3C. cMethDNA and QM-MSP primer and probe sequences. Supplementary Table 4. Comparison and reproducibility of the cMethDFNA assay using three DNA purification methods. Supplementary Figure 1. Infinium Human Methylation27 tissue DNA methylation array profile of the 10-gene marker panel. Supplementary Figure 2. Illumina Infinium Human Methylation27 serum DNA array profile of the 10-gene marker panel. Supplementary Figure 3. cMethDNA assay using a 6-gene marker panel. Supplementary Figure 4. Scatter plot and data analysis of cumulative methylation of the 10-gene panel in normal serum DNA. Supplementary Figure 5. Monitoring of treatment response by the cMethDNA assay. Supplementary Figure 6. Methylation Profiles in serum, primary, and metastatic tumor DNA. Supplementary Figure 7. Methylation profiles of serum, primary tumor and/or metastasis in patients with Stage 4 breast cancer. Supplementary Figure 8A. Performance of the 10-gene panel in arrays of a variety of tumor types. Supplementary Figure 8B. Performance of the 10-gene panel in arrays of a variety of tumor types. Supplementary Figure 8C. Performance of the 10-gene panel in arrays of a variety of tumor types. Supplementary Figure 8D. Performance of the 10-gene panel in arrays of a variety of tumor types. Supplementary Figure 8E. Performance of the 10-gene panel in arrays of a variety of tumor types. Supplementary Figure 8F. Performance of the 10-gene panel in arrays of a variety of tumor types. Supplementary Figure 9. Representative examples of amplification plots of cMethDNA real-time PCR.
Supplementary Table 1 from Universal Marker and Detection Tool for Human Sarcoma Circulating Tumor Cells
Authors: Satelli Arun , Mitra Abhisek , Cutrera Jeffry J. , Devarie Marcos , Xia Xueqing , Ingram Davis R. , Dibra Denada , Somaiah Neeta , Torres Keila E. , Ravi Vinod , Ludwig Joseph A. , Kleinerman Eugenie S. , Li Shulin
Published: April 2023

PDF file - 2927KB, Cell surface vimentin expression in different sarcoma cell lines.
Supplementary Methods from A Systems Biology Approach Identifies Effective Tumor–Stroma Common Targets for Oral Squamous Cell Carcinoma
Authors: Meng Wenxia , Wu Yun , He Xin , Liu Chuanxia , Gao Qinghong , Ge Lin , Wu Lanyan , Liu Ying , Guo Yiqing , Li Xiaoyu , Liu Yurong , Chen Sixiu , Kong Xiangli , Liang Zhi , Zhou Hongmei
Published: April 2023

PDF file - 85K