bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figure 2 from A Novel 19q13 Nucleolar Zinc Finger Protein Suppresses Tumor Cell Growth through Inhibiting Ribosome Biogenesis and Inducing Apoptosis but Is Frequently Silenced in Multiple Carcinomas
Authors: Cheng Yingduan , Liang Pei , Geng Hua , Wang Zhaohui , Li Lili , Cheng Suk Hang , Ying Jianming , Su Xianwei , Ng Ka Man , Ng Margaret H.L. , Mok Tony S.K. , Chan Anthony T.C. , Tao Qian
Published: April 2023

PDF file - 114K, ZNF545 suppressed the colony formation of HEK293 cells
Supplementary Figure 4 from Src Family Kinases Are Regulated in Multiple Myeloma Cells by Phosphatase of Regenerating Liver-3
Authors: Abdollahi Pegah , Vandsemb Esten N. , Hjort Magnus A. , Misund Kristine , Holien Toril , Sponaas Anne-Marit , Rø Torstein B. , Slørdahl Tobias S. , Børset Magne
Published: April 2023

Densitometric quantification of Western blot bands. Each graph shows the ratio between expression of protein of interest and its GAPDH loading control for Figures 6B, 6C and 6D. The image scanner Image J was used to compare the density of bands in each blot.
Supplementary Table 2 from Identification of Genomic Targets of Transcription Factor Aebp1 and its role in Survival of Glioma Cells
Authors: Ladha Jayashree , Sinha Swati , Bhat Vasudeva , Donakonda Sainitin , Rao Satyanarayana M.R.
Published: April 2023

XLS file - 117K, List of Deferentially regulated genes upon AEBP1 down regulation
Figure S7 from Drug Targeting the Actin Cytoskeleton Potentiates the Cytotoxicity of Low Dose Vincristine by Abrogating Actin-Mediated Repair of Spindle Defects
Authors: Wang Yao , Stear Jeffrey H. , Swain Ashleigh , Xu Xing , Bryce Nicole S. , Carnell Michael , Alieva Irina B. , Dugina Vera B. , Cripe Timothy P. , Stehn Justine , Hardeman Edna C. , Gunning Peter W.
Published: April 2023

Representative images of spindle phenotypes.
Figure S1 from Drug Targeting the Actin Cytoskeleton Potentiates the Cytotoxicity of Low Dose Vincristine by Abrogating Actin-Mediated Repair of Spindle Defects
Authors: Wang Yao , Stear Jeffrey H. , Swain Ashleigh , Xu Xing , Bryce Nicole S. , Carnell Michael , Alieva Irina B. , Dugina Vera B. , Cripe Timothy P. , Stehn Justine , Hardeman Edna C. , Gunning Peter W.
Published: April 2023

The impact of single drugs and the synergy of their combinations on the viability of HeLa cells.
Supplementary Data from The a3 Isoform Vacuolar Type H+-ATPase Promotes Distant Metastasis in the Mouse B16 Melanoma Cells
Authors: Nishisho Toshihiko , Hata Kenji , Nakanishi Masako , Morita Yoshihiro , Sun-Wada Ge-Hong , Wada Yoh , Yasui Natsuo , Yoneda Toshiyuki
Published: April 2023

Supplementary Figures S1-S7; Supplementary Table S1.
Supplementary Data from COMP-Ang1 Potentiates the Antitumor Activity of 5-Fluorouracil by Improving Tissue Perfusion in Murine Lewis Lung Carcinoma
Authors: Hwang Jeong-Ah , Lee Eun Hui , Kim Hyun-Woo , Park Jin Bong , Jeon Byeong Hwa , Cho Chung-Hyun
Published: April 2023

Supplementary Data from COMP-Ang1 Potentiates the Antitumor Activity of 5-Fluorouracil by Improving Tissue Perfusion in Murine Lewis Lung Carcinoma
Figure S1 from Whole-Genome Sequencing of Salivary Gland Adenoid Cystic Carcinoma
Authors: Rettig Eleni M. , Talbot C. Conover , Sausen Mark , Jones Sian , Bishop Justin A. , Wood Laura D. , Tokheim Collin , Niknafs Noushin , Karchin Rachel , Fertig Elana J. , Wheelan Sarah J. , Marchionni Luigi , Considine Michael , Ling Shizhang , Fakhry Carole , Papadopoulos Nickolas , Kinzler Kenneth W. , Vogelstein Bert , Ha Patrick K. , Agrawal Nishant
Published: April 2023

Circos plots for chromosomal rearrangements in adenoid cystic carcinoma.
Supplemental table 2 from Cervical Microbiota Associated with Higher Grade Cervical Intraepithelial Neoplasia in Women Infected with High-Risk Human Papillomaviruses
Authors: Piyathilake Chandrika J. , Ollberding Nicholas J. , Kumar Ranjit , Macaluso Maurizio , Alvarez Ronald D. , Morrow Casey D.
Published: April 2023

Supplemental Table 2. Log2-fold difference in sequence reads for OTUs according to CIN status.
Supplemental Figure 4 from Benefits of Multifaceted Chemopreventives in the Suppression of the Oral Squamous Cell Carcinoma (OSCC) Tumorigenic Phenotype
Authors: Mallery Susan R. , Wang Daren , Santiago Brian , Pei Ping , Schwendeman Steven P. , Nieto Kari , Spinney Richard , Tong Meng , Koutras George , Han Brian , Holpuch Andrew , Lang James
Published: April 2023

NF-kappaB p50 and p65 DNA binding for individual cell lines.
Supplementary Data from Targeting the Cholecystokinin Receptor: A Novel Approach for Treatment and Prevention of Hepatocellular Cancer
Authors: Gay Martha D. , Safronenka Anita , Cao Hong , Liu Felice H. , Malchiodi Zoe X. , Tucker Robin D. , Kroemer Alexander , Shivapurkar Narayan , Smith Jill P.
Published: April 2023

Supplemental Table S1 and Supplemental Figures S1-S3
Figure S2 from Genetic Variants in Metabolic Signaling Pathways and Their Interaction with Lifestyle Factors on Breast Cancer Risk: A Random Survival Forest Analysis
Authors: Jung Su Yon , Papp Jeanette C. , Sobel Eric M. , Zhang Zuo-Feng
Published: April 2023

Comparing minimal depth and VIMP rankings
Supplementary Figure Legends from Effect of Antibiotics on Gut and Vaginal Microbiomes Associated with Cervical Cancer Development in Mice
Authors: Karpinets Tatiana V. , Solley Travis N. , Mikkelson Megan D. , Dorta-Estremera Stephanie , Nookala Sita S. , Medrano Andrea Y. Delgado , Petrosino Joseph F. , Mezzari Melissa P. , Zhang Jinghua , Futreal P. Andrew , Sastry K. Jagannadha , Colbert Lauren E. , Klopp Ann
Published: April 2023

Legends of Supplementary Figures
Supplementary Figure 1-2; Supplementary Table 1-4 from Dietary Pterostilbene for MTA1-Targeted Interception in High-Risk Premalignant Prostate Cancer
Authors: Hemani Rutu , Patel Ishani , Inamdar Ninad , Campanelli Gisella , Donovan Virginia , Kumar Avinash , Levenson Anait S.
Published: April 2023

Supplementary Figure 1: A, transgene integration and genotyping scheme of MTA1 transgenic animals. B, genotyping of MTA1 founder 870#2. Supplementary Figure 2: A, average body weight of mice fed different diets during 22 weeks (monitored weekly). B, effect of PTER-Diet on food intake (g). Supplementary Table 1: Nutritional composition of diets. Supplementary Table 2: Primers for genotyping used in this study. Supplementary Table 3: Antibodies for immunoblots and IHC used in this study. Supplementary Table 4: Primers for qRT-PCR used in this study.
Supplementary Figure from Association Between Baseline C-Reactive Protein and the Risk of Lung Cancer: A Prospective Population-Based Cohort Study
Authors: Yin Jian , Wang Gang , Wu Zheng , Lyu Zhangyan , Su Kai , Li Fang , Feng Xiaoshuang , Guo Lan-Wei , Chen Yuheng , Xie Shuanghua , Cui Hong , Li Jiang , Ren Jiansong , Shi Ju-Fang , Chen Shuohua , Wu Shouling , Dai Min , Li Ni , He Jie
Published: April 2023

Supplementary Figure from Association Between Baseline C-Reactive Protein and the Risk of Lung Cancer: A Prospective Population-Based Cohort Study
Supplementary Data from Combined Performance of Fecal Immunochemical Tests and a Genetic Risk Score for Advanced Neoplasia Detection
Authors: Niedermaier Tobias , Guo Feng , Weigl Korbinian , Hoffmeister Michael , Brenner Hermann
Published: April 2023

Supplementary Data from Combined Performance of Fecal Immunochemical Tests and a Genetic Risk Score for Advanced Neoplasia Detection
Supplementary Material from Hyperglycemia, Classified with Multiple Biomarkers Simultaneously in Men without Diabetes, and Risk of Fatal Prostate Cancer
Authors: Marrone Michael T. , Selvin Elizabeth , Barber John R. , Platz Elizabeth A. , Joshu Corinne E.
Published: April 2023

Supplemental methods, results from sensitivity analyses, and restricted cubic splines.
Figure S2 from IKZF1 Gene in Childhood B-cell Precursor Acute Lymphoblastic Leukemia: Interplay between Genetic Susceptibility and Somatic Abnormalities
Authors: Lopes Bruno A. , Barbosa Thayana C. , Souza Bruna K.S. , Poubel Caroline P. , Pombo-de-Oliveira Maria S. , Emerenciano Mariana
Published: April 2023

S2. The role of IKZF1 acquired alterations and genetic susceptibility in leukemia development.
Supplemental Data from Caloric Restriction Prevents Carcinogen-Initiated Liver Tumorigenesis in Mice
Authors: Ploeger Jonathan M. , Manivel Juan C. , Boatner Lauren N. , Mashek Douglas G.
Published: April 2023

Fig. S1. Phenotypic and metabolic parameters are influenced by Ex and CR. Fig. S2. CR modulates additional markers of hepatic inflammation and immune cell infiltration. Fig. S3. CR causes divergence of genes in comparison to CTL mice. Fig. S4. CR affects gene signature pathways and networks associated with hepatic inflammation and metabolism. Table S1. Description of components (g/Kg) and macronutrient content (% kcal) of diets.
Table S2 from A Systematic Review on Cost-effectiveness Studies Evaluating Ovarian Cancer Early Detection and Prevention Strategies
Authors: Sroczynski Gaby , Gogollari Artemisa , Kuehne Felicitas , Hallsson Lára R. , Widschwendter Martin , Pashayan Nora , Siebert Uwe
Published: April 2023

Summary on quality of reporting of the included studies (based on CHEERS checklist)
Table S1 from A Systematic Review on Cost-effectiveness Studies Evaluating Ovarian Cancer Early Detection and Prevention Strategies
Authors: Sroczynski Gaby , Gogollari Artemisa , Kuehne Felicitas , Hallsson Lára R. , Widschwendter Martin , Pashayan Nora , Siebert Uwe
Published: April 2023

Literature search: Literature databases, search codes, and number of hits.
Supplementary Figure 3 from Chimeric Transcript Generated by cis-Splicing of Adjacent Genes Regulates Prostate Cancer Cell Proliferation
Authors: Zhang Yanmei , Gong Mei , Yuan Huiling , Park Hong G. , Frierson Henry F. , Li Hui
Published: April 2023

PDF file - 120K, CTCF binding to the insulators by ChIP
Supplementary Figure S9 from Bone Marrow–Derived Gr1+ Cells Can Generate a Metastasis-Resistant Microenvironment Via Induced Secretion of Thrombospondin-1
Authors: Catena Raúl , Bhattacharya Nandita , El Rayes Tina , Wang Suming , Choi Hyejin , Gao Dingcheng , Ryu Seongho , Joshi Natasha , Bielenberg Diane , Lee Sharrell B. , Haukaas Svein A. , Gravdal Karsten , Halvorsen Ole J. , Akslen Lars A. , Watnick Randolph S. , Mittal Vivek
Published: April 2023

Supplementary Figure S9 - PDF file 221K, Metastatic lesions in WT BMT mice exhibit reduced proliferation
Supplementary Figure S8 from Bone Marrow–Derived Gr1+ Cells Can Generate a Metastasis-Resistant Microenvironment Via Induced Secretion of Thrombospondin-1
Authors: Catena Raúl , Bhattacharya Nandita , El Rayes Tina , Wang Suming , Choi Hyejin , Gao Dingcheng , Ryu Seongho , Joshi Natasha , Bielenberg Diane , Lee Sharrell B. , Haukaas Svein A. , Gravdal Karsten , Halvorsen Ole J. , Akslen Lars A. , Watnick Randolph S. , Mittal Vivek
Published: April 2023

Supplementary Figure S8 - PDF file 525K, Gr1+ cells in the lungs of Tsp-1-/- mice transplanted with WT BM express Tsp-1
Supplementary Figure S5 from Bone Marrow–Derived Gr1+ Cells Can Generate a Metastasis-Resistant Microenvironment Via Induced Secretion of Thrombospondin-1
Authors: Catena Raúl , Bhattacharya Nandita , El Rayes Tina , Wang Suming , Choi Hyejin , Gao Dingcheng , Ryu Seongho , Joshi Natasha , Bielenberg Diane , Lee Sharrell B. , Haukaas Svein A. , Gravdal Karsten , Halvorsen Ole J. , Akslen Lars A. , Watnick Randolph S. , Mittal Vivek
Published: April 2023

Supplementary Figure S5 - PDF file 91K, Characterization of Tsp-1-/- bone marrow after transplantation
Supplementary Methods from SF3B1 Mutations Are Associated with Alternative Splicing in Uveal Melanoma
Authors: Furney Simon J. , Pedersen Malin , Gentien David , Dumont Amaury G. , Rapinat Audrey , Desjardins Laurence , Turajlic Samra , Piperno-Neumann Sophie , de la Grange Pierre , Roman-Roman Sergio , Stern Marc-Henri , Marais Richard
Published: April 2023

Supplementary Methods - PDF file 148K, Contains supplementary methods used in data analysis
Supplementary Methods, Figure Legends 1-8 from Identification of Luminal Breast Cancers That Establish a Tumor-Supportive Macroenvironment Defined by Proangiogenic Platelets and Bone Marrow–Derived Cells
Authors: Kuznetsov Hanna S. , Marsh Timothy , Markens Beth A. , Castaño Zafira , Greene-Colozzi April , Hay Samantha A. , Brown Victoria E. , Richardson Andrea L. , Signoretti Sabina , Battinelli Elisabeth M. , McAllister Sandra S.
Published: April 2023

PDF file - 90K
Supplementary Figure 4 from Identification of Luminal Breast Cancers That Establish a Tumor-Supportive Macroenvironment Defined by Proangiogenic Platelets and Bone Marrow–Derived Cells
Authors: Kuznetsov Hanna S. , Marsh Timothy , Markens Beth A. , Castaño Zafira , Greene-Colozzi April , Hay Samantha A. , Brown Victoria E. , Richardson Andrea L. , Signoretti Sabina , Battinelli Elisabeth M. , McAllister Sandra S.
Published: April 2023

PDF file - 214K, The LBC environment promotes pro-angiogenic cytokine enrichment in circulating platelets but does not significantly affect phospho-STAT3 levels in BMCs
Supplementary Figure 2 from Identification of Luminal Breast Cancers That Establish a Tumor-Supportive Macroenvironment Defined by Proangiogenic Platelets and Bone Marrow–Derived Cells
Authors: Kuznetsov Hanna S. , Marsh Timothy , Markens Beth A. , Castaño Zafira , Greene-Colozzi April , Hay Samantha A. , Brown Victoria E. , Richardson Andrea L. , Signoretti Sabina , Battinelli Elisabeth M. , McAllister Sandra S.
Published: April 2023

PDF file - 264K, Contributions of different vessel cell types to responding tumor vasculature under different instigating systemic environments
Supplementary Figure 9 from Forced Mitotic Entry of S-Phase Cells as a Therapeutic Strategy Induced by Inhibition of WEE1
Authors: Aarts Marieke , Sharpe Rachel , Garcia-Murillas Isaac , Gevensleben Heidrun , Hurd Melissa S. , Shumway Stuart D. , Toniatti Carlo , Ashworth Alan , Turner Nicholas C.
Published: April 2023

PDF file - 112K, Gemcitabine and MK-1775 combination in WiDr cells
Supplementary Figures from Opposing Effects of Androgen Deprivation and Targeted Therapy on Prostate Cancer Prevention
Authors: Jia Shidong , Gao Xueliang , Lee Sang Hyun , Maira Sauveur-Michel , Wu Xiaoqiu , Stack Edward C. , Signoretti Sabina , Loda Massimo , Zhao Jean J. , Roberts Thomas M.
Published: April 2023

Supplementary Figures PDF file - 5047K, supplementary figures for opposing effects of androgen deprivation and targeted therapy on prostate cancer prevention
Supplementary Table 4 from MEK-Dependent Negative Feedback Underlies BCR–ABL-Mediated Oncogene Addiction
Authors: Asmussen Jennifer , Lasater Elisabeth A. , Tajon Cheryl , Oses-Prieto Juan , Jun Young-wook , Taylor Barry S. , Burlingame Alma , Craik Charles S. , Shah Neil P.
Published: April 2023

XLSX file 206K, Statistically significant gene expression changes by Illumina microarray in TKI treated K562 cells
Supplementary Figures from MEK-Dependent Negative Feedback Underlies BCR–ABL-Mediated Oncogene Addiction
Authors: Asmussen Jennifer , Lasater Elisabeth A. , Tajon Cheryl , Oses-Prieto Juan , Jun Young-wook , Taylor Barry S. , Burlingame Alma , Craik Charles S. , Shah Neil P.
Published: April 2023

PDF file 3234K, Supplementary figures
Supplementary Figure 5 from Inflammation-Induced NFATc1–STAT3 Transcription Complex Promotes Pancreatic Cancer Initiation by KrasG12D
Authors: Baumgart Sandra , Chen Nai-Ming , Siveke Jens T. , König Alexander , Zhang Jin-San , Singh Shiv K. , Wolf Elmar , Bartkuhn Marek , Esposito Irene , Heßmann Elisabeth , Reinecke Johanna , Nikorowitsch Julius , Brunner Marius , Singh Garima , Fernandez-Zapico Martin E. , Smyrk Thomas , Bamlet William R. , Eilers Martin , Neesse Albrecht , Gress Thomas M. , Billadeau Daniel D. , Tuveson David , Urrutia Raul , Ellenrieder Volker
Published: April 2023

PDF file 1914K, Supplementary Figure 5 refers to Figure 5 and provides further mechanistical insights into the NFATc1-STAT3-mediated target gene expression
Supplementary Figure 1 from Inflammation-Induced NFATc1–STAT3 Transcription Complex Promotes Pancreatic Cancer Initiation by KrasG12D
Authors: Baumgart Sandra , Chen Nai-Ming , Siveke Jens T. , König Alexander , Zhang Jin-San , Singh Shiv K. , Wolf Elmar , Bartkuhn Marek , Esposito Irene , Heßmann Elisabeth , Reinecke Johanna , Nikorowitsch Julius , Brunner Marius , Singh Garima , Fernandez-Zapico Martin E. , Smyrk Thomas , Bamlet William R. , Eilers Martin , Neesse Albrecht , Gress Thomas M. , Billadeau Daniel D. , Tuveson David , Urrutia Raul , Ellenrieder Volker
Published: April 2023

PDF file 2546K, Supplementary Figure 1 refers to Figure 1 and shows additional morphological and expression changes in KrasG12D mice upon caerulein challenge
Supplementary Tables S1 - S8 from The Genetics of Splicing in Neuroblastoma
Authors: Chen Justin , Hackett Christopher S. , Zhang Shile , Song Young K. , Bell Robert J.A. , Molinaro Annette M. , Quigley David A. , Balmain Allan , Song Jun S. , Costello Joseph F. , Gustafson W. Clay , Van Dyke Terry , Kwok Pui-Yan , Khan Javed , Weiss William A.
Published: April 2023

Supplementary Table 1. CB cis-sQTL. Supplementary Table 2. SCG cis-sQTL. Supplementary Table 3. trans-sQTL. Supplementary Table 4. Genes differentially expressed on Chr10 in 95% CI. Supplementary Table 5. Genes differentially expressed on ChrX in 95% CI. Supplementary Table 6. Cis-sQTL Co-localizing with SCNVs. Supplementary Table 7. Genotyping markers used in this study. Supplementary Table 8. Oligonucleotides used in this study.
Supplementary Figure S4 from Induction of Telomere Dysfunction Mediated by the Telomerase Substrate Precursor 6-Thio-2′-Deoxyguanosine
Authors: Mender Ilgen , Gryaznov Sergei , Dikmen Z. Gunnur , Wright Woodring E. , Shay Jerry W.
Published: April 2023

Ki67 IHC.
Supplementary Figure Legends from RNA Helicase A Is a Downstream Mediator of KIF1Bβ Tumor-Suppressor Function in Neuroblastoma
Authors: Chen Zhi Xiong , Wallis Karin , Fell Stuart M. , Sobrado Veronica R. , Hemmer Marie C. , Ramsköld Daniel , Hellman Ulf , Sandberg Rickard , Kenchappa Rajappa S. , Martinson Tommy , Johnsen John I. , Kogner Per , Schlisio Susanne
Published: April 2023

PDF file 115K, Figure legends of Supplemental Figures: S1, S2, S3, S4, S5, S6, S7
Supplementary Figure 5 from RNA Helicase A Is a Downstream Mediator of KIF1Bβ Tumor-Suppressor Function in Neuroblastoma
Authors: Chen Zhi Xiong , Wallis Karin , Fell Stuart M. , Sobrado Veronica R. , Hemmer Marie C. , Ramsköld Daniel , Hellman Ulf , Sandberg Rickard , Kenchappa Rajappa S. , Martinson Tommy , Johnsen John I. , Kogner Per , Schlisio Susanne
Published: April 2023

PDF file 1031K, Figure S5, related to Figure 6. Induction of KIF1Bβ during NGF withdrawal increases nuclear DHX9 and XAF1 expression
Supplementary Figure 4 from RNA Helicase A Is a Downstream Mediator of KIF1Bβ Tumor-Suppressor Function in Neuroblastoma
Authors: Chen Zhi Xiong , Wallis Karin , Fell Stuart M. , Sobrado Veronica R. , Hemmer Marie C. , Ramsköld Daniel , Hellman Ulf , Sandberg Rickard , Kenchappa Rajappa S. , Martinson Tommy , Johnsen John I. , Kogner Per , Schlisio Susanne
Published: April 2023

PDF file 408K, Figure S4, related to Figure 4. Quantification of Exportin-2 protein level
Supplementary Table 1 from Defective Stromal Remodeling and Neutrophil Extracellular Traps in Lymphoid Tissues Favor the Transition from Autoimmunity to Lymphoma
Authors: Sangaletti Sabina , Tripodo Claudio , Vitali Caterina , Portararo Paola , Guarnotta Carla , Casalini Patrizia , Cappetti Barbara , Miotti Silvia , Pinciroli Patrizia , Fuligni Fabio , Fais Franco , Piccaluga Pier Paolo , Colombo Mario P.
Published: April 2023

XLS file 1816K, Biological programs over-represented in the SPARC-related signature
Supplementary Figure 3 from Biallelic Deleterious BRCA1 Mutations in a Woman with Early-Onset Ovarian Cancer
Authors: Domchek Susan M. , Tang Jiangbo , Stopfer Jill , Lilli Dana R. , Hamel Nancy , Tischkowitz Marc , Monteiro Alvaro N.A. , Messick Troy E. , Powers Jacquelyn , Yonker Alexandria , Couch Fergus J. , Goldgar David E. , Davidson H. Rosemarie , Nathanson Katherine L. , Foulkes William D. , Greenberg Roger A.
Published: April 2023

Supplementary Figure 3 PDF file 2065K, This figure provides functional data for BRCA1 V1736A and an example of tumor for LOH studies
Supplementary Data from Measuring Residual Estrogen Receptor Availability during Fulvestrant Therapy in Patients with Metastatic Breast Cancer
Authors: van Kruchten Michel , de Vries Elisabeth G. , Glaudemans Andor W. , van Lanschot Meta C. , van Faassen Martijn , Kema Ido P. , Brown Myles , Schröder Carolien P. , de Vries Erik F. , Hospers Geke A.
Published: April 2023

Supplementary data on cross reactivity between fulvestrant and estradiol fluorescent-immuno-assay.
Supplementary Figures from An F876L Mutation in Androgen Receptor Confers Genetic and Phenotypic Resistance to MDV3100 (Enzalutamide)
Authors: Korpal Manav , Korn Joshua M. , Gao Xueliang , Rakiec Daniel P. , Ruddy David A. , Doshi Shivang , Yuan Jing , Kovats Steve G. , Kim Sunkyu , Cooke Vesselina G. , Monahan John E. , Stegmeier Frank , Roberts Thomas M. , Sellers William R. , Zhou Wenlai , Zhu Ping
Published: April 2023

Supplementary Figures - PDF file 1014K, F876L mutation in AR rescues androgen signaling and confers resistance to MDV3100 treatment (Figures S1-S15)
Supplementary Text from Addressing Genetic Tumor Heterogeneity through Computationally Predictive Combination Therapy
Authors: Zhao Boyang , Pritchard Justin R. , Lauffenburger Douglas A. , Hemann Michael T.
Published: April 2023

PDF file 70K,Contains computational data in support of the manuscript
Supplementary Methods, Figure Legends from Metabolic and Functional Genomic Studies Identify Deoxythymidylate Kinase as a Target in LKB1-Mutant Lung Cancer
Authors: Liu Yan , Marks Kevin , Cowley Glenn S. , Carretero Julian , Liu Qingsong , Nieland Thomas J.F. , Xu Chunxiao , Cohoon Travis J. , Gao Peng , Zhang Yong , Chen Zhao , Altabef Abigail B. , Tchaicha Jeremy H. , Wang Xiaoxu , Choe Sung , Driggers Edward M. , Zhang Jianming , Bailey Sean T. , Sharpless Norman E. , Hayes D. Neil , Patel Nirali M. , Janne Pasi A. , Bardeesy Nabeel , Engelman Jeffrey A. , Manning Brendan D. , Shaw Reuben J. , Asara John M. , Scully Ralph , Kimmelman Alec , Byers Lauren A. , Gibbons Don L. , Wistuba Ignacio I. , Heymach John V. , Kwiatkowski David J. , Kim William Y. , Kung Andrew L. , Gray Nathanael S. , Root David E. , Cantley Lewis C. , Wong Kwok-Kin
Published: April 2023

Supplementary Methods, Figure Legends
Figure S2 from A High-Throughput Fluorimetric Assay for 2-Hydroxyglutarate Identifies Zaprinast as a Glutaminase Inhibitor
Authors: Elhammali Adnan , Ippolito Joseph E. , Collins Lynne , Crowley Jan , Marasa Jayne , Piwnica-Worms David
Published: April 2023

PDF file 47K, The coupled fluorimetric assay activity is unaffected by metabolites upstream of 2HG. Physiologic concentrations of metabolites upstream of 2HG and part of the glutamine metabolic pathway were assayed alone or in the presence of 2HG at physiologic concentrations (2HG 1 mM, Glutamine 4 mM, Glutamate 4 mM, Isocitrate 50 microM, and alpha-Ketoglutarate 100 microM)
Supplementary Figure Legends from Mcl-1 and FBW7 Control a Dominant Survival Pathway Underlying HDAC and Bcl-2 Inhibitor Synergy in Squamous Cell Carcinoma
Authors: He Lei , Torres-Lockhart Kristine , Forster Nicole , Ramakrishnan Saranya , Greninger Patricia , Garnett Mathew J. , McDermott Ultan , Rothenberg Stephen M. , Benes Cyril H. , Ellisen Leif W.
Published: April 2023

Supplementary Figure Legends PDF file 97K, Complete legends for all 5 Supplementary Figures
Supplementary Tables from MAX Inactivation in Small Cell Lung Cancer Disrupts MYC–SWI/SNF Programs and Is Synthetic Lethal with BRG1
Authors: Romero Octavio A. , Torres-Diz Manuel , Pros Eva , Savola Suvi , Gomez Antonio , Moran Sebastian , Saez Carmen , Iwakawa Reika , Villanueva Alberto , Montuenga Luis M. , Kohno Takashi , Yokota Jun , Sanchez-Cespedes Montse
Published: April 2023

PDF file 236K, Table S1. List of the 121 lung cancer cell lines screened for MAX alterations. Information about the histopathology of each cell line, and the presence of alterations at MYC and BRG1 is also included. Grey boxes indicate that no information is available. Table S2. List of genes that are up-regulated or down-regulated upon MAX reconstitution. The values represent the n-fold change in the level of gene expression of each of the lung cancer cell lines infected with the wild type MAX relative to the controls (?). Table S3. List of genes that are up-regulated or down-regulated upon depletion of BRG1. The values represent the n-fold change in the level of gene expression of each of the lung cancer cell lines infected with the shBRG1 relative to the controls ?. Table S4. List of the cell lines included in Figure 5. The information about alterations at the indicated genes was obtained from different sources, as indicated. For data extracted from databases we applied the following criteria to define a mutation: i) mutations at tumor suppressor genes (BRG1, SMARCB1, MAX, ARID1A, PRBM1, and MGA) should be homozygous and predictive of truncated proteins, ii) for amplification at the MYC family of oncogenes, only very high levels of gene amplification have been considered to be positive. Other genes, related to MYC/MAX or to the SWI/SNF complex, have also been searched for alterations (i.e., ARID1B, ARID2, MXI, MXDs) but either no alterations were reported in the databases or the changes did not fulfill our selection criteria. CCLE, Cancer Cell Line Encyclopedia (Broad-Novartis Cancer Cell Line Encyclopedia; website, http://www.broadinstitute.org/ccle/). COSMIC, Catalogue of Somatic Mutations in Cancer (Trust Sanger Institute's Cancer Cell Line Project; website, http://cancer.sanger.ac.uk/)
Supplementary Material and Methods from MAX Inactivation in Small Cell Lung Cancer Disrupts MYC–SWI/SNF Programs and Is Synthetic Lethal with BRG1
Authors: Romero Octavio A. , Torres-Diz Manuel , Pros Eva , Savola Suvi , Gomez Antonio , Moran Sebastian , Saez Carmen , Iwakawa Reika , Villanueva Alberto , Montuenga Luis M. , Kohno Takashi , Yokota Jun , Sanchez-Cespedes Montse
Published: April 2023

PDF file 48K, Description of the methodology for: -Lung tumor specimens and cancer cell lines. -Screening for MAX gene alterations: Sanger direct sequencing and Multiplex ligation dependent probe amplification (MLPA). -Expression vectors and lentiviral production. -Chromatin immunoprecipitation (ChIP) assays. -Antibodies and western blots. -Treatments and MTT assays. -Microarray global gene expression analysis. -Statistical and bioinformatic analysis
Supplemental Figure and Table Legends from Development of siRNA Payloads to Target KRAS-Mutant Cancer
Authors: Yuan Tina L. , Fellmann Christof , Lee Chih-Shia , Ritchie Cayde D. , Thapar Vishal , Lee Liam C. , Hsu Dennis J. , Grace Danielle , Carver Joseph O. , Zuber Johannes , Luo Ji , McCormick Frank , Lowe Scott W.
Published: April 2023

Supplemental Figure and Table Legends from Development of siRNA Payloads to Target KRAS-Mutant Cancer
Supplementary Figure S2 from Lysine Demethylase KDM4A Associates with Translation Machinery and Regulates Protein Synthesis
Authors: Van Rechem Capucine , Black Joshua C. , Boukhali Myriam , Aryee Martin J. , Gräslund Susanne , Haas Wilhelm , Benes Cyril H. , Whetstine Johnathan R.
Published: April 2023

Supplementary Figure S2. KDM4A depletion alters protein synthesis and enhances mTOR inhibitor sensitivity.
Supplementary Figure Legends from Pancreatic Cancer Metastases Harbor Evidence of Polyclonality
Authors: Maddipati Ravikanth , Stanger Ben Z.
Published: April 2023

Supplementary Figure Legends
Supplemental Methods from ATM Regulates 3-Methylpurine-DNA Glycosylase and Promotes Therapeutic Resistance to Alkylating Agents
Authors: Agnihotri Sameer , Burrell Kelly , Buczkowicz Pawel , Remke Marc , Golbourn Brian , Chornenkyy Yevgen , Gajadhar Aaron , Fernandez Nestor A. , Clarke Ian D. , Barszczyk Mark S. , Pajovic Sanja , Ternamian Christian , Head Renee , Sabha Nesrin , Sobol Robert W. , Taylor Michael D. , Rutka James T. , Jones Chris , Dirks Peter B. , Zadeh Gelareh , Hawkins Cynthia
Published: April 2023

PDF file - 143KB
Supplmental Figures S1 - S8 from Harnessing Connectivity in a Large-Scale Small-Molecule Sensitivity Dataset
Authors: Seashore-Ludlow Brinton , Rees Matthew G. , Cheah Jaime H. , Cokol Murat , Price Edmund V. , Coletti Matthew E. , Jones Victor , Bodycombe Nicole E. , Soule Christian K. , Gould Joshua , Alexander Benjamin , Li Ava , Montgomery Philip , Wawer Mathias J. , Kuru Nurdan , Kotz Joanne D. , Hon C. Suk-Yee , Munoz Benito , Liefeld Ted , Dančík Vlado , Bittker Joshua A. , Palmer Michelle , Bradner James E. , Shamji Alykhan F. , Clemons Paul A. , Schreiber Stuart L.
Published: April 2023

Supplemental Figure S1. Further characterization of the small-molecule Informer Set and comparisons between CTRP v1 and v2. Supplemental Figure S2. Cellular features of the CCL panel. Supplemental Figure S3. Details on ACME analysis described in this paper. Supplemental Figure S4. ACME identifies clinically relevant associations between small-molecule sensitivity and cancer cell features. Supplemental Figure S5. Using ACME to investigate small-molecule mechanism of action. Supplemental Figure S6. Microtubule regrowth assay in NCIH661 cells. Supplemental Figure S7. Combined IGF1R and ALK inhibition in ALK overexpressed neuroblastoma. Supplemental Figure S8. Using ACME to inform combination screening.
Supplementary Methods, Figure Legends, Tables S8 - S11 from Harnessing Connectivity in a Large-Scale Small-Molecule Sensitivity Dataset
Authors: Seashore-Ludlow Brinton , Rees Matthew G. , Cheah Jaime H. , Cokol Murat , Price Edmund V. , Coletti Matthew E. , Jones Victor , Bodycombe Nicole E. , Soule Christian K. , Gould Joshua , Alexander Benjamin , Li Ava , Montgomery Philip , Wawer Mathias J. , Kuru Nurdan , Kotz Joanne D. , Hon C. Suk-Yee , Munoz Benito , Liefeld Ted , Dančík Vlado , Bittker Joshua A. , Palmer Michelle , Bradner James E. , Shamji Alykhan F. , Clemons Paul A. , Schreiber Stuart L.
Published: April 2023

Supplementary figure legends. Supplementary methods, including additional filtering and heuristics for sensitivity data processing and ACME analysis and additional methods for western blotting and immunostaining. Supplementary Table S8. Small molecules used in validation studies. Supplementary Table S9. CCLs used in the validation studies. Supplementary Table S10. Clarification of growth media. Supplementary Table S11. Significant synergistic and antagonistic combinations in LS513 cells.
Supplementary Figure 1 from Autophagy Inhibition Improves Chemosensitivity in BRAFV600E Brain Tumors
Authors: Levy Jean M. Mulcahy , Thompson Joshua C. , Griesinger Andrea M. , Amani Vladimir , Donson Andrew M. , Birks Diane K. , Morgan Michael J. , Mirsky David M. , Handler Michael H. , Foreman Nicholas K. , Thorburn Andrew
Published: April 2023

PDF file 98K, Microscopy data with representative photos and quantification
Supplementary Figure Legends from Discovery of a Novel ERK Inhibitor with Activity in Models of Acquired Resistance to BRAF and MEK Inhibitors
Authors: Morris Erick J. , Jha Sharda , Restaino Clifford R. , Dayananth Priya , Zhu Hugh , Cooper Alan , Carr Donna , Deng Yongi , Jin Weihong , Black Stuart , Long Brian , Liu Jenny , DiNunzio Edward , Windsor William , Zhang Rumin , Zhao Shuxia , Angagaw Minilik H. , Pinheiro Elaine M. , Desai Jagdish , Xiao Li , Shipps Gerald , Hruza Alan , Wang James , Kelly Joe , Paliwal Sunil , Gao Xiaolei , Babu Boga Sobhana , Zhu Liang , Daublain Pierre , Zhang Ling , Lutterbach Bart A. , Pelletier Marc R. , Philippar Ulrike , Siliphaivanh Phieng , Witter David , Kirschmeier Paul , Bishop W. Robert , Hicklin Daniel , Gilliland D. Gary , Jayaraman Lata , Zawel Leigh , Fawell Stephen , Samatar Ahmed A.
Published: April 2023

Supplementary Figure Legends - PDF file 97K, This file contains figure legends for the supplementary figures
Supplementary Table 3 from Rare Mutations in RINT1 Predispose Carriers to Breast and Lynch Syndrome–Spectrum Cancers
Authors: Park Daniel J. , Tao Kayoko , Le Calvez-Kelm Florence , Nguyen-Dumont Tu , Robinot Nivonirina , Hammet Fleur , Odefrey Fabrice , Tsimiklis Helen , Teo Zhi L. , Thingholm Louise B. , Young Erin L. , Voegele Catherine , Lonie Andrew , Pope Bernard J. , Roane Terrell C. , Bell Russell , Hu Hao , Huff Chad D. , Ellis Jonathan , Li Jun , Makunin Igor V. , John Esther M. , Andrulis Irene L. , Terry Mary B. , Daly Mary , Buys Saundra S. , Snyder Carrie , Lynch Henry T. , Devilee Peter , Giles Graham G. , Hopper John L. , Feng Bing-Jian , Lesueur Fabienne , Tavtigian Sean V. , Southey Melissa C. , Goldgar David E.
Published: April 2023

PDF file 65K, Primers used in assessment of RINT1 transcripts
Supplementary Table 1 from Targeting the BRAF V600E Mutation in Multiple Myeloma
Authors: Andrulis Mindaugas , Lehners Nicola , Capper David , Penzel Roland , Heining Christoph , Huellein Jennifer , Zenz Thorsten , von Deimling Andreas , Schirmacher Peter , Ho Anthony D. , Goldschmidt Hartmut , Neben Kai , Raab Marc S.
Published: April 2023

PDF file - 54K, Detailed clinical course of all BRAF-mutated patients.
Table S2 from Mechanism-Based Epigenetic Chemosensitization Therapy of Diffuse Large B-Cell Lymphoma
Authors: Clozel Thomas , Yang ShaoNing , Elstrom Rebecca L. , Tam Wayne , Martin Peter , Kormaksson Matthias , Banerjee Samprit , Vasanthakumar Aparna , Culjkovic Biljana , Scott David W. , Wyman Sarah , Leser Micheal , Shaknovich Rita , Chadburn Amy , Tabbo Fabrizio , Godley Lucy A. , Gascoyne Randy D. , Borden Katherine L. , Inghirami Giorgio , Leonard John P. , Melnick Ari , Cerchietti Leandro
Published: April 2023

Table S2 - PDF file 62K, Genes hypermethylated and repressed in doxorubicin resistant cell lines
Supplementary Methods from IFNγ and CCL2 Cooperate to Redirect Tumor-Infiltrating Monocytes to Degrade Fibrosis and Enhance Chemotherapy Efficacy in Pancreatic Carcinoma
Authors: Long Kristen B. , Gladney Whitney L. , Tooker Graham M. , Graham Kathleen , Fraietta Joseph A. , Beatty Gregory L.
Published: April 2023

Supplementary Methods
Supplementary Figure S1 from Combination Therapy Targeting Ribosome Biogenesis and mRNA Translation Synergistically Extends Survival in MYC-Driven Lymphoma
Authors: Devlin Jennifer R. , Hannan Katherine M. , Hein Nadine , Cullinane Carleen , Kusnadi Eric , Ng Pui Yee , George Amee J. , Shortt Jake , Bywater Megan J. , Poortinga Gretchen , Sanij Elaine , Kang Jian , Drygin Denis , O'Brien Sean , Johnstone Ricky W. , McArthur Grant A. , Hannan Ross D. , Pearson Richard B.
Published: April 2023

This figure shows supplementary data pertinent to Figure 1 including cell death, cell signalling and mRNA transcription analysis data.
Supplementary Table S6 from Epigenetic Reprogramming Sensitizes CML Stem Cells to Combined EZH2 and Tyrosine Kinase Inhibition
Authors: Scott Mary T. , Korfi Koorosh , Saffrey Peter , Hopcroft Lisa E.M. , Kinstrie Ross , Pellicano Francesca , Guenther Carla , Gallipoli Paolo , Cruz Michelle , Dunn Karen , Jorgensen Heather G. , Cassels Jennifer E. , Hamilton Ashley , Crossan Andrew , Sinclair Amy , Holyoake Tessa L. , Vetrie David
Published: April 2023

Supplementary Table S6. ChIP-sequencing datasets used in the present study.
Supplementary Table S5 from Epigenetic Reprogramming Sensitizes CML Stem Cells to Combined EZH2 and Tyrosine Kinase Inhibition
Authors: Scott Mary T. , Korfi Koorosh , Saffrey Peter , Hopcroft Lisa E.M. , Kinstrie Ross , Pellicano Francesca , Guenther Carla , Gallipoli Paolo , Cruz Michelle , Dunn Karen , Jorgensen Heather G. , Cassels Jennifer E. , Hamilton Ashley , Crossan Andrew , Sinclair Amy , Holyoake Tessa L. , Vetrie David
Published: April 2023

Supplementary Table S5. Primary CML and normal samples that were used in this study.
Supplementary Table S5 from Targeting YAP-Dependent MDSC Infiltration Impairs Tumor Progression
Authors: Wang Guocan , Lu Xin , Dey Prasenjit , Deng Pingna , Wu Chia Chin , Jiang Shan , Fang Zhuangna , Zhao Kun , Konaparthi Ramakrishna , Hua Sujun , Zhang Jianhua , Li-Ning-Tapia Elsa M. , Kapoor Avnish , Wu Chang-Jiun , Patel Neelay Bhaskar , Guo Zhenglin , Ramamoorthy Vandhana , Tieu Trang N. , Heffernan Tim , Zhao Di , Shang Xiaoying , Khadka Sunada , Hou Pingping , Hu Baoli , Jin Eun-Jung , Yao Wantong , Pan Xiaolu , Ding Zhihu , Shi Yanxia , Li Liren , Chang Qing , Troncoso Patricia , Logothetis Christopher J. , McArthur Mark J. , Chin Lynda , Wang Y. Alan , DePinho Ronald A.
Published: April 2023

Overlapped genes between Genes upregulated in Ptenpc-/-Smad4pc-/- tumors as compared to Ptenpc-/- tumors ({greater than or equal to}2 fold) and genes upregulated in GFP+ tumors cells from Ptenpc-/-Smad4pc-/- mice as compared to Tomato+ cells ({greater than or equal to}4 fold).
Supplementary Table S3 from Targeting YAP-Dependent MDSC Infiltration Impairs Tumor Progression
Authors: Wang Guocan , Lu Xin , Dey Prasenjit , Deng Pingna , Wu Chia Chin , Jiang Shan , Fang Zhuangna , Zhao Kun , Konaparthi Ramakrishna , Hua Sujun , Zhang Jianhua , Li-Ning-Tapia Elsa M. , Kapoor Avnish , Wu Chang-Jiun , Patel Neelay Bhaskar , Guo Zhenglin , Ramamoorthy Vandhana , Tieu Trang N. , Heffernan Tim , Zhao Di , Shang Xiaoying , Khadka Sunada , Hou Pingping , Hu Baoli , Jin Eun-Jung , Yao Wantong , Pan Xiaolu , Ding Zhihu , Shi Yanxia , Li Liren , Chang Qing , Troncoso Patricia , Logothetis Christopher J. , McArthur Mark J. , Chin Lynda , Wang Y. Alan , DePinho Ronald A.
Published: April 2023

Genes upregulated in Ptenpc-/-Smad4pc-/- tumors as compared to Ptenpc-/- tumors ({greater than or equal to}2 fold).
Supplementary Table S1 from Targeting YAP-Dependent MDSC Infiltration Impairs Tumor Progression
Authors: Wang Guocan , Lu Xin , Dey Prasenjit , Deng Pingna , Wu Chia Chin , Jiang Shan , Fang Zhuangna , Zhao Kun , Konaparthi Ramakrishna , Hua Sujun , Zhang Jianhua , Li-Ning-Tapia Elsa M. , Kapoor Avnish , Wu Chang-Jiun , Patel Neelay Bhaskar , Guo Zhenglin , Ramamoorthy Vandhana , Tieu Trang N. , Heffernan Tim , Zhao Di , Shang Xiaoying , Khadka Sunada , Hou Pingping , Hu Baoli , Jin Eun-Jung , Yao Wantong , Pan Xiaolu , Ding Zhihu , Shi Yanxia , Li Liren , Chang Qing , Troncoso Patricia , Logothetis Christopher J. , McArthur Mark J. , Chin Lynda , Wang Y. Alan , DePinho Ronald A.
Published: April 2023

Markers used in CyTOF analysis.
Supplementary Methods, Figure Legends, Figures S1 - S7 from Targeting YAP-Dependent MDSC Infiltration Impairs Tumor Progression
Authors: Wang Guocan , Lu Xin , Dey Prasenjit , Deng Pingna , Wu Chia Chin , Jiang Shan , Fang Zhuangna , Zhao Kun , Konaparthi Ramakrishna , Hua Sujun , Zhang Jianhua , Li-Ning-Tapia Elsa M. , Kapoor Avnish , Wu Chang-Jiun , Patel Neelay Bhaskar , Guo Zhenglin , Ramamoorthy Vandhana , Tieu Trang N. , Heffernan Tim , Zhao Di , Shang Xiaoying , Khadka Sunada , Hou Pingping , Hu Baoli , Jin Eun-Jung , Yao Wantong , Pan Xiaolu , Ding Zhihu , Shi Yanxia , Li Liren , Chang Qing , Troncoso Patricia , Logothetis Christopher J. , McArthur Mark J. , Chin Lynda , Wang Y. Alan , DePinho Ronald A.
Published: April 2023

Supplementary Figure S1. CyTOF analysis of biological samples from Ptenpc-/-Smad4pc-/- mice (Related to Figure 2). Supplementary Figure S2. Strategy used for MDSCs Isolation (Related to Figure 3). Supplementary Figure S3. Treatment scheme for Gr-1 antibody, peptibody, and Cxcr2 inhibitor SB225002. Supplementary Figure S4. IHC staining of Ki67, CD45, Vimentin, Smooth muscle actin (SMA) and Trichrome staining of mouse prostate tissues treated with IgG control or Gr1 antibody. Supplementary Figure S5. The top 10 differentially expressed genes in Ptenpc-/-Smad4pc-/- tumors as compared to Ptenpc-/- tumors, identified by microarray analysis (n=5). Figure S6. Top 10 activated oncogenic signatures identified by GSEA analysis in Ptenpc-/- Smad4pc-/- tumors as compared to Ptenpc-/- tumors (n=5). Figure S7. Clustering of primary prostate tumors from Wallace et al into MDSC-high and MDSC-low subtypes.
Supplementary Figure S4 from Suppression of Metastases Using a New Lymphocyte Checkpoint Target for Cancer Immunotherapy
Authors: Blake Stephen J. , Stannard Kimberley , Liu Jing , Allen Stacey , Yong Michelle C.R. , Mittal Deepak , Aguilera Amelia Roman , Miles John J. , Lutzky Viviana P. , de Andrade Lucas Ferrari , Martinet Ludovic , Colonna Marco , Takeda Kazuyoshi , Kühnel Florian , Gurlevik Engin , Bernhardt Günter , Teng Michele W.L. , Smyth Mark J.
Published: April 2023

Supplementary Figure S4. The effect of anti-CD96 combined with anti-PD1 or anti-CTLA4 in reducing experimental lung metastases is additive.
Supplementary Figures 1 - 5 from ASH1L Links Histone H3 Lysine 36 Dimethylation to MLL Leukemia
Authors: Zhu Li , Li Qin , Wong Stephen H.K. , Huang Min , Klein Brianna J. , Shen Jinfeng , Ikenouye Larissa , Onishi Masayuki , Schneidawind Dominik , Buechele Corina , Hansen Loren , Duque-Afonso Jesús , Zhu Fangfang , Martin Gloria Mas , Gozani Or , Majeti Ravindra , Kutateladze Tatiana G. , Cleary Michael L.
Published: April 2023

Supplementary Figure 1 shows NMR and biochemical data in support of LEDGF nucleosome binding specificity. Supplementary Figure 2 shows chromatin IP data indicating requirement for LEDGF in MLL target gene localization. Supplementary Figure 3 shows global and gene-specific chromatin localization of ASH1L. Supplementary Figure 4 shows quantitation of differentiation and apoptosis following ASH1L knockdown. Supplementary Figure 5 shows that over-expression of KDM2A interferes with MLL-mediated leukemic transformation phenotypes.
Supplementary Figure 1 from Targeting Translation Initiation Bypasses Signaling Crosstalk Mechanisms That Maintain High MYC Levels in Colorectal Cancer
Authors: Wiegering Armin , Uthe Friedrich W. , Jamieson Thomas , Ruoss Yvonne , Hüttenrauch Melanie , Küspert Maritta , Pfann Christina , Nixon Colin , Herold Steffi , Walz Susanne , Taranets Lyudmyla , Germer Christoph-Thomas , Rosenwald Andreas , Sansom Owen J. , Eilers Martin
Published: April 2023

Supplementary Figure 1. Characterization of BEZ235 effects on MYC protein stability and cell proliferation.
Supplementary Table S2 from Systematic Functional Interrogation of Rare Cancer Variants Identifies Oncogenic Alleles
Authors: Kim Eejung , Ilic Nina , Shrestha Yashaswi , Zou Lihua , Kamburov Atanas , Zhu Cong , Yang Xiaoping , Lubonja Rakela , Tran Nancy , Nguyen Cindy , Lawrence Michael S. , Piccioni Federica , Bagul Mukta , Doench John G. , Chouinard Candace R. , Wu Xiaoyun , Hogstrom Larson , Natoli Ted , Tamayo Pablo , Horn Heiko , Corsello Steven M. , Lage Kasper , Root David E. , Subramanian Aravind , Golub Todd R. , Getz Gad , Boehm Jesse S. , Hahn William C.
Published: April 2023

Annotation of 1163 ORFs.
Supplementary Methods, Tables 1 - 9, Figures 1 - 8 from Systematic Functional Characterization of Resistance to PI3K Inhibition in Breast Cancer
Authors: Le Xiuning , Antony Rajee , Razavi Pedram , Treacy Daniel J. , Luo Flora , Ghandi Mahmoud , Castel Pau , Scaltriti Maurizio , Baselga José , Garraway Levi A.
Published: April 2023

Supplementary Methods, Tables 1 - 9, Figures 1 - 8. Supplementary Table 1. Functional classification for validated genes. Supplementary Table 2. Validated 43 candidate genes' genetic alteration status in the invasive breast cancer (TCGA) database. Supplementary Table 3. Receptor status, mutational status and intrinsic subtypes of breast cancer cell lines used in this study. Supplementary Table 4. GI50 of BYL719 in different breast cancer cell lines with overexpression of PIM isoforms. Supplementary Table 5. PIM1 and AKT phosphorylation sites in PRAS40, BAD, p21 and p27. Supplementary Table 6. PIM gene expression levels in PIK3CA-mutant breast cancer cell lines. Supplementary Table 7. GI50 of BYL719 in the presence of LGH447 (1Î¼M) or DMSO in PIK3CA-mutant breast cancer cell lines. Supplementary Table 8. Signature genes that changed concordantly in patient sample pairs and PIM signature. Supplementary Table 9. Hormonal receptor status by immunohistochemistry (IHC), HER2 status by FISH and IHC of PIM1 amplified or overexpressed breast cancer tumor samples from the invasive breast cancer (TCGA) database. Supplementary Figure 1. Lentiviral infection efficacy quality in the large-scale ORF screen. Supplementary Figure 2. PIM1 confers resistance to breast cancer cell lines with different PIK3CA mutations and various intrinsic subtypes. Supplementary Figure 3. PIM1 confers resistance to inhibitors targeting key components of PI3K pathway. Supplementary Figure 4. PIM1 inhibitors alone have minimal inhibitory effects on T47D cells with or without PIM1 overexpression. Supplementary Figure 5. PIM1 expression abrogates cell-cycle arrest in cells treated with BYL719. Supplementary Figure 6. BYL719 and AZD1208 or LGH447 demonstrated synergy in PIM1 expressing T47D cells. Supplementary Figure 7. PIM activation signature. Supplementary Figure 8. PIM and PI3K pathway genetic mutations showed mutual exclusivity in treatment-naive breast cancers.
Supplementary Figures S1- S6 from INPP4B Is a PtdIns(3,4,5)P3 Phosphatase That Can Act as a Tumor Suppressor
Authors: Kofuji Satoshi , Kimura Hirotaka , Nakanishi Hiroki , Nanjo Hiroshi , Takasuga Shunsuke , Liu Hui , Eguchi Satoshi , Nakamura Ryotaro , Itoh Reietsu , Ueno Noriko , Asanuma Ken , Huang Mingguo , Koizumi Atsushi , Habuchi Tomonori , Yamazaki Masakazu , Suzuki Akira , Sasaki Junko , Sasaki Takehiko
Published: April 2023

Supplementary Figure S1. In vitro PtdIns(3,4,5)P3-phosphatase assay. Supplementary Figure S2. H&E staining of thyroid and lung from a 40-week-old. Supplementary Figure S3. More frequent INPP4B protein reduction in FV-PTCs comparing to non FV-PTCs. Supplementary Figure S4. Representative fluorescent immunohistochemical analyses of sections of human follicular thyroid carcinomas classified in the Low, Medium and High groups of INPP4B and PTEN protein expression. Supplementary Figure S5. Coincident mutations in PTEN and INPP4B genes in thyroid carcinomas and endometrial carcinomas. Supplementary Figure S6. Quantitation of HPLC analyses of phosphoinositides prepared from Pten+/- and Inpp4Bdelta/delta;Pten+/- thyroid glands from mice that were metabolically labeled in vivo with [32H]-phosphorus.
Supplementary Table S3 from DNMT3A Haploinsufficiency Transforms FLT3ITD Myeloproliferative Disease into a Rapid, Spontaneous, and Fully Penetrant Acute Myeloid Leukemia
Authors: Meyer Sara E. , Qin Tingting , Muench David E. , Masuda Kohei , Venkatasubramanian Meenakshi , Orr Emily , Suarez Lauren , Gore Steven D. , Delwel Ruud , Paietta Elisabeth , Tallman Martin S. , Fernandez Hugo , Melnick Ari , Le Beau Michelle M. , Kogan Scott , Salomonis Nathan , Figueroa Maria E. , Grimes H. Leighton
Published: April 2023

Differentially methylated regions (DMR) in human FLT3-ITD/DNMT3A-mut versus FLT3-ITD/DNMT3A-wt AML and in murine Flt3ITD/ITD;Dnmt3afl/fl MxCre AML versus Flt3ITD/ITD;Dnmt3afl/fl MPN control mice. Lists of AML-unique and HSPC-like DMR associated genes in human and mouse based on DMRs found only in the Dnmt3a mutant AML groups or DMRs in Dnmt3a mutant AML with similar methylation patterns to normal HSC.