The SWI/SNF complex member SMARCB1 supports lineage fidelity in kidney cancer

[1]  S. Lowe,et al.  A Targetable Myeloid Inflammatory State Governs Disease Recurrence in Clear Cell Renal Cell Carcinoma. , 2022, Cancer discovery.

[2]  S. Chanock,et al.  The renal lineage factor PAX8 controls oncogenic signalling in kidney cancer , 2022, Nature.

[3]  D. Langley,et al.  PROTAC targeted protein degraders: the past is prologue , 2022, Nature Reviews Drug Discovery.

[4]  T. Muir,et al.  Chromatin landscape signals differentially dictate the activities of mSWI/SNF family complexes , 2021, Science.

[5]  David R. Jones,et al.  Genomic characterization of metastatic patterns from prospective clinical sequencing of 25,000 patients , 2021, Cell.

[6]  E. Jonasch,et al.  Inhibition of hypoxia-inducible factor-2α in renal cell carcinoma with belzutifan: a phase 1 trial and biomarker analysis , 2021, Nature Medicine.

[7]  Steven L. Chang,et al.  Integrative molecular characterization of sarcomatoid and rhabdoid renal cell carcinoma , 2021, Nature Communications.

[8]  A. Jemal,et al.  Global Cancer Statistics 2020: GLOBOCAN Estimates of Incidence and Mortality Worldwide for 36 Cancers in 185 Countries , 2021, CA: a cancer journal for clinicians.

[9]  Joshua M. Dempster,et al.  Integrated cross-study datasets of genetic dependencies in cancer , 2020, Nature Communications.

[10]  C. Mason,et al.  Loss of CHD1 Promotes Heterogeneous Mechanisms of Resistance to AR-Targeted Therapy via Chromatin Dysregulation , 2020, Cancer cell.

[11]  D. Pe’er,et al.  Lineage plasticity in cancer: a shared pathway of therapeutic resistance , 2020, Nature Reviews Clinical Oncology.

[12]  M. Rubin,et al.  Role of specialized composition of SWI/SNF complexes in prostate cancer lineage plasticity , 2020, Nature Communications.

[13]  S. Påhlman,et al.  ARNT-dependent HIF-2 transcriptional activity is not sufficient to regulate downstream target genes in neuroblastoma. , 2020, Experimental cell research.

[14]  C. Leslie,et al.  ARID1A determines luminal identity and therapeutic response in estrogen-receptor-positive breast cancer , 2020, Nature Genetics.

[15]  C. Caldas,et al.  ARID1A influences HDAC1/BRD4 activity, intrinsic proliferative capacity and breast cancer treatment response , 2019, Nature Genetics.

[16]  R. Figlin,et al.  HIF-2 Complex Dissociation, Target Inhibition, and Acquired Resistance with PT2385, a First-in-Class HIF-2 Inhibitor, in Patients with Clear Cell Renal Cell Carcinoma , 2019, Clinical Cancer Research.

[17]  C. Caldas,et al.  ARID1A influences HDAC1/BRD4 activity, intrinsic proliferative capacity and breast cancer treatment response , 2019, Nature Genetics.

[18]  G. G. Galli,et al.  PAX8 activates metabolic genes via enhancer elements in Renal Cell Carcinoma , 2019, Nature Communications.

[19]  R. Månsson,et al.  Bhlhe40 and Bhlhe41 transcription factors regulate alveolar macrophage self‐renewal and identity , 2019, The EMBO journal.

[20]  Aviad Tsherniak,et al.  Extracting Biological Insights from the Project Achilles Genome-Scale CRISPR Screens in Cancer Cell Lines , 2019, bioRxiv.

[21]  T. Graeber,et al.  Pan-cancer Convergence to a Small-Cell Neuroendocrine Phenotype that Shares Susceptibilities with Hematological Malignancies. , 2019, Cancer cell.

[22]  Anshul Kundaje,et al.  The ENCODE Blacklist: Identification of Problematic Regions of the Genome , 2019, Scientific Reports.

[23]  Masato Hoshi,et al.  A single-nucleus RNA-sequencing pipeline to decipher the molecular anatomy and pathophysiology of human kidneys , 2019, Nature Communications.

[24]  P. Schofield,et al.  Hypoxia induces rapid changes to histone methylation and reprograms chromatin , 2019, Science.

[25]  Jesse R. Dixon,et al.  A non-canonical BRD9-containing BAF chromatin remodeling complex regulates naive pluripotency in mouse embryonic stem cells , 2018, Nature Communications.

[26]  J. Ranish,et al.  Modular Organization and Assembly of SWI/SNF Family Chromatin Remodeling Complexes , 2018, Cell.

[27]  C. Lareau,et al.  A non-canonical SWI/SNF complex is a synthetic lethal target in cancers driven by BAF complex perturbation , 2018, Nature Cell Biology.

[28]  S. Vanharanta,et al.  Endogenous HIF2A reporter systems for high-throughput functional screening , 2018, Scientific Reports.

[29]  B. Comin-Anduix,et al.  Immunotherapy Resistance by Inflammation-Induced Dedifferentiation. , 2018, Cancer discovery.

[30]  S. Vanharanta,et al.  NF-κB-Dependent Lymphoid Enhancer Co-option Promotes Renal Carcinoma Metastasis. , 2018, Cancer discovery.

[31]  T. Graeber,et al.  Multi-stage Differentiation Defines Melanoma Subtypes with Differential Vulnerability to Drug-Induced Iron-Dependent Oxidative Stress. , 2018, Cancer cell.

[32]  Zoltan Szallasi,et al.  Deterministic Evolutionary Trajectories Influence Primary Tumor Growth: TRACERx Renal , 2018, Cell.

[33]  C. Roberts,et al.  SWI/SNF (BAF) Complexes: Guardians of the Epigenome , 2018 .

[34]  R. Young,et al.  Cross-Cohort Analysis Identifies a TEAD4-MYCN Positive Feedback Loop as the Core Regulatory Element of High-Risk Neuroblastoma. , 2018, Cancer discovery.

[35]  Wai Lim Ku,et al.  SMARCB1 is required for widespread BAF complex-mediated activation of enhancers and bivalent promoters , 2017, Nature Genetics.

[36]  Antoine de Weck,et al.  Project DRIVE: A Compendium of Cancer Dependencies and Synthetic Lethal Relationships Uncovered by Large-Scale, Deep RNAi Screening , 2017, Cell.

[37]  Phillip G. Montgomery,et al.  Defining a Cancer Dependency Map , 2017, Cell.

[38]  Ann E. Sizemore,et al.  Computational correction of copy-number effect improves specificity of CRISPR-Cas9 essentiality screens in cancer cells , 2017, Nature Genetics.

[39]  P. Park,et al.  The SWI/SNF chromatin remodelling complex is required for maintenance of lineage specific enhancers , 2017, Nature Communications.

[40]  Levi A Garraway,et al.  Adaptive resistance of melanoma cells to RAF inhibition via reversible induction of a slowly dividing de‐differentiated state , 2017, Molecular systems biology.

[41]  O. Kretz,et al.  Direct reprogramming of fibroblasts into renal tubular epithelial cells by defined transcription factors , 2016, Nature Cell Biology.

[42]  Fidel Ramírez,et al.  deepTools2: a next generation web server for deep-sequencing data analysis , 2016, Nucleic Acids Res..

[43]  Klaus Hansen,et al.  An interactive environment for agile analysis and visualization of ChIP-sequencing data , 2016, Nature Structural &Molecular Biology.

[44]  Matteo Benelli,et al.  Divergent clonal evolution of castration resistant neuroendocrine prostate cancer , 2016, Nature Medicine.

[45]  G. Getz,et al.  RB loss in resistant EGFR mutant lung adenocarcinomas that transform to small-cell lung cancer , 2015, Nature Communications.

[46]  Hongliang Li,et al.  Interferon regulatory factors: at the crossroads of immunity, metabolism, and disease. , 2015, Biochimica et biophysica acta.

[47]  W. Huber,et al.  Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.

[48]  Christof Fellmann,et al.  An optimized microRNA backbone for effective single-copy RNAi. , 2013, Cell reports.

[49]  E. Lander,et al.  Genetic Screens in Human Cells Using the CRISPR-Cas9 System , 2013, Science.

[50]  Howard Y. Chang,et al.  Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position , 2013, Nature Methods.

[51]  J. Cheville,et al.  The International Society of Urological Pathology (ISUP) Grading System for Renal Cell Carcinoma and Other Prognostic Parameters , 2013, The American journal of surgical pathology.

[52]  The Cancer Genome Atlas Research Network COMPREHENSIVE MOLECULAR CHARACTERIZATION OF CLEAR CELL RENAL CELL CARCINOMA , 2013, Nature.

[53]  R. Buettner,et al.  SNAI1-Mediated Epithelial-Mesenchymal Transition Confers Chemoresistance and Cellular Plasticity by Regulating Genes Involved in Cell Death and Stem Cell Maintenance , 2013, PloS one.

[54]  G. Crabtree,et al.  Proteomic and bioinformatic analysis of mammalian SWI/SNF complexes identifies extensive roles in human malignancy , 2013, Nature Genetics.

[55]  A. Viale,et al.  Epigenetic expansion of VHL-HIF signal output drives multi-organ metastasis in renal cancer , 2012, Nature Medicine.

[56]  J. Landsberg,et al.  Melanomas resist T-cell therapy through inflammation-induced reversible dedifferentiation , 2012, Nature.

[57]  Guangchuang Yu,et al.  clusterProfiler: an R package for comparing biological themes among gene clusters. , 2012, Omics : a journal of integrative biology.

[58]  Wenjun Guo,et al.  Slug and Sox9 Cooperatively Determine the Mammary Stem Cell State , 2012, Cell.

[59]  Jolanta Grembecka,et al.  Menin-MLL inhibitors reverse oncogenic activity of MLL fusion proteins in leukemia. , 2012, Nature chemical biology.

[60]  C. Glass,et al.  Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. , 2010, Molecular cell.

[61]  P. Hirvikoski,et al.  Evaluation of neuroendocrine markers in renal cell carcinoma , 2010, Diagnostic pathology.

[62]  W. Tilley,et al.  Breast and prostate cancer: more similar than different , 2010, Nature Reviews Cancer.

[63]  M. Mansukhani,et al.  Expression of PAX8 in normal and neoplastic renal tissues: an immunohistochemical study , 2009, Modern Pathology.

[64]  G. Evan,et al.  Distinct thresholds govern Myc's biological output in vivo. , 2008, Cancer cell.

[65]  Clifford A. Meyer,et al.  Model-based Analysis of ChIP-Seq (MACS) , 2008, Genome Biology.

[66]  Jane M J Lin,et al.  Identification and Characterization of Cell Type–Specific and Ubiquitous Chromatin Regulatory Structures in the Human Genome , 2007, PLoS genetics.

[67]  Kentaro Takahashi,et al.  Von Hippel-Lindau Disease , 2024 .

[68]  M. Busslinger,et al.  Nephric lineage specification by Pax2 and Pax8. , 2002, Genes & development.

[69]  Olivier Delattre,et al.  Truncating mutations of hSNF5/INI1 in aggressive paediatric cancer , 1998, Nature.

[70]  Jacob D. Jaffe,et al.  Next-generation characterization of the Cancer Cell Line Encyclopedia , 2019, Nature.

[71]  Yui Jin,et al.  Stra13 and Sharp-1, the non-grouchy regulators of development and disease. , 2014, Current topics in developmental biology.

[72]  P. Krammer,et al.  IFN-gamma represses IL-4 expression via IRF-1 and IRF-2. , 2002, Immunity.

[73]  T. Taniguchi,et al.  IRF family of transcription factors as regulators of host defense. , 2001, Annual review of immunology.