A distinct class of antioxidant response elements is consistently activated in tumors with NRF2 mutations

[1]  D. Cullington The bad , 2018, The Rough Beast: Psychoanalysis in Everyday Life.

[2]  Yun Wang,et al.  ME1 Regulates NADPH Homeostasis to Promote Gastric Cancer Growth and Metastasis. , 2018, Cancer research.

[3]  E. Guney,et al.  Transcription Factor NRF2 as a Therapeutic Target for Chronic Diseases: A Systems Medicine Approach , 2018, Pharmacological Reviews.

[4]  H. Motohashi,et al.  NRF2 addiction in cancer cells , 2018, Cancer science.

[5]  R. Rohs,et al.  Relationship between histone modifications and transcription factor binding is protein family specific , 2018, Genome research.

[6]  Brent S. Pedersen,et al.  GIGGLE: a search engine for large-scale integrated genome analysis , 2017, Nature Methods.

[7]  King-Jen Chang,et al.  Transketolase Regulates the Metabolic Switch to Control Breast Cancer Cell Metastasis via the α-Ketoglutarate Signaling Pathway. , 2018, Cancer research.

[8]  Sarah M. Goggin,et al.  High-resolution genome-wide functional dissection of transcriptional regulatory regions in human , 2017, bioRxiv.

[9]  Takafumi Suzuki,et al.  Stress-sensing mechanisms and the physiological roles of the Keap1–Nrf2 system during cellular stress , 2017, The Journal of Biological Chemistry.

[10]  A. Ando,et al.  Inhibition of malic enzyme 1 disrupts cellular metabolism and leads to vulnerability in cancer cells in glucose-restricted conditions , 2017, Oncogenesis.

[11]  Hiroki Shima,et al.  Glucocorticoid receptor signaling represses the antioxidant response by inhibiting histone acetylation mediated by the transcriptional activator NRF2 , 2017, The Journal of Biological Chemistry.

[12]  Luca De Sano,et al.  OncoScore: a novel, Internet-based tool to assess the oncogenic potential of genes , 2017 .

[13]  F. Sotgia,et al.  Mitochondrial “power” drives tamoxifen resistance: NQO1 and GCLC are new therapeutic targets in breast cancer , 2017, Oncotarget.

[14]  R. Young,et al.  Transcriptional Addiction in Cancer , 2017, Cell.

[15]  Damian Szklarczyk,et al.  The STRING database in 2017: quality-controlled protein–protein association networks, made broadly accessible , 2016, Nucleic Acids Res..

[16]  J. Lingner,et al.  Peroxiredoxin 1 Protects Telomeres from Oxidative Damage and Preserves Telomeric DNA for Extension by Telomerase. , 2016, Cell reports.

[17]  M. Andersen,et al.  An overview of chemical inhibitors of the Nrf2-ARE signaling pathway and their potential applications in cancer therapy. , 2016, Free radical biology & medicine.

[18]  Matthew Slattery,et al.  Gene regulatory effects of disease-associated variation in the NRF2 network , 2016, Current opinion in toxicology.

[19]  Brandon Da Silva,et al.  NRF2 Promotes Tumor Maintenance by Modulating mRNA Translation in Pancreatic Cancer , 2016, Cell.

[20]  Y. Sung,et al.  NAMPT suppresses glucose deprivation-induced oxidative stress by increasing NADPH levels in breast cancer , 2016, Oncogene.

[21]  S. Giordano,et al.  The Dual Roles of NRF2 in Cancer. , 2016, Trends in molecular medicine.

[22]  G. Getz,et al.  The genomic landscape and evolution of endometrial carcinoma progression and abdominopelvic metastasis , 2016, Nature Genetics.

[23]  Andrew D. Rouillard,et al.  Enrichr: a comprehensive gene set enrichment analysis web server 2016 update , 2016, Nucleic Acids Res..

[24]  Michelle R. Campbell,et al.  A Polymorphic Antioxidant Response Element Links NRF2/sMAF Binding to Enhanced MAPT Expression and Reduced Risk of Parkinsonian Disorders. , 2016, Cell reports.

[25]  M. Arno,et al.  Bach1 differentially regulates distinct Nrf2-dependent genes in human venous and coronary artery endothelial cells adapted to physiological oxygen levels. , 2016, Free radical biology & medicine.

[26]  M. Andersen,et al.  Suppression of NRF2-ARE activity sensitizes chemotherapeutic agent-induced cytotoxicity in human acute monocytic leukemia cells. , 2016, Toxicology and applied pharmacology.

[27]  Masayuki Yamamoto,et al.  Unique cistrome defined as CsMBE is strictly required for Nrf2-sMaf heterodimer function in cytoprotection. , 2016, Free radical biology & medicine.

[28]  Chun-Ming Wong,et al.  Transketolase counteracts oxidative stress to drive cancer development , 2016, Proceedings of the National Academy of Sciences.

[29]  Michael P Snyder,et al.  Identification of significantly mutated regions across cancer types highlights a rich landscape of functional molecular alterations , 2015, Nature Genetics.

[30]  Yingying Zhao,et al.  Hypermethylation of the Keap1 gene inactivates its function, promotes Nrf2 nuclear accumulation, and is involved in arsenite-induced human keratinocyte transformation. , 2015, Free radical biology & medicine.

[31]  Michelle R. Campbell,et al.  Beyond antioxidant genes in the ancient Nrf2 regulatory network. , 2015, Free radical biology & medicine.

[32]  K. Davies,et al.  Oxidative stress response and Nrf2 signaling in aging. , 2015, Free radical biology & medicine.

[33]  H. Motohashi,et al.  Roles of Nrf2 in cell proliferation and differentiation. , 2015, Free radical biology & medicine.

[34]  E. Carpenter,et al.  Structures and functions of mitochondrial ABC transporters. , 2015, Biochemical Society transactions.

[35]  C. Vakoc,et al.  Targeting Transcription Factors in Cancer. , 2015, Trends in cancer.

[36]  C. Sanderson,et al.  Dissecting molecular cross-talk between Nrf2 and NF-κB response pathways , 2015, Biochemical Society transactions.

[37]  P. Pölönen,et al.  Dysregulation of the Keap1-Nrf2 pathway in cancer. , 2015, Biochemical Society transactions.

[38]  Raluca Gordân,et al.  Nonconsensus Protein Binding to Repetitive DNA Sequence Elements Significantly Affects Eukaryotic Genomes , 2015, PLoS Comput. Biol..

[39]  A. Sandelin,et al.  A Unified Architecture of Transcriptional Regulatory Elements , 2015, bioRxiv.

[40]  D. Chartoumpekis,et al.  Keap1/Nrf2 pathway in the frontiers of cancer and non-cancer cell metabolism , 2015, Biochemical Society transactions.

[41]  S. Lam,et al.  Disruption of KEAP1/CUL3/RBX1 E3‐ubiquitin ligase complex components by multiple genetic mechanisms: Association with poor prognosis in head and neck cancer , 2015, Head & neck.

[42]  Michael Q. Zhang,et al.  Integrative analysis of 111 reference human epigenomes , 2015, Nature.

[43]  S. Inoue,et al.  Glutathione and thioredoxin antioxidant pathways synergize to drive cancer initiation and progression. , 2015, Cancer cell.

[44]  Steven J. M. Jones,et al.  Comprehensive genomic characterization of head and neck squamous cell carcinomas , 2015, Nature.

[45]  Masayuki Yamamoto,et al.  Identification of a Functional Antioxidant Response Element within the Eighth Intron of the Human ABCC3 Gene , 2015, Drug Metabolism and Disposition.

[46]  R. Deberardinis,et al.  NAMPT inhibition sensitizes pancreatic adenocarcinoma cells to tumor-selective, PAR-independent metabolic catastrophe and cell death induced by β-lapachone , 2015, Cell Death and Disease.

[47]  Lihe Zhang,et al.  Elevated Expression of AKR1C3 Increases Resistance of Cancer Cells to Ionizing Radiation via Modulation of Oxidative Stress , 2014, PloS one.

[48]  André L. Martins,et al.  Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers , 2014, Nature Genetics.

[49]  G. Cao,et al.  Multidrug resistance-associated protein 3 confers resistance to chemoradiotherapy for rectal cancer by regulating reactive oxygen species and caspase-3-dependent apoptotic pathway. , 2014, Cancer letters.

[50]  Michael R. Green,et al.  The BRAF oncoprotein functions through the transcriptional repressor MAFG to mediate the CpG Island Methylator phenotype. , 2014, Molecular cell.

[51]  N. Seki,et al.  Expression of ABCB6 is related to resistance to 5-FU, SN-38 and vincristine. , 2014, Anticancer research.

[52]  Matthew Slattery,et al.  Absence of a simple code: how transcription factors read the genome. , 2014, Trends in biochemical sciences.

[53]  L. Gan,et al.  Oxidative damage and the Nrf2-ARE pathway in neurodegenerative diseases. , 2014, Biochimica et biophysica acta.

[54]  Steven J. M. Jones,et al.  Comprehensive molecular profiling of lung adenocarcinoma , 2014, Nature.

[55]  T. Finkel,et al.  Cellular mechanisms and physiological consequences of redox-dependent signalling , 2014, Nature Reviews Molecular Cell Biology.

[56]  J. Hayes,et al.  The Nrf2 regulatory network provides an interface between redox and intermediary metabolism. , 2014, Trends in biochemical sciences.

[57]  P. Ménard,et al.  Tousled-like kinases phosphorylate Asf1 to promote histone supply during DNA replication , 2014, Nature Communications.

[58]  Steven J. M. Jones,et al.  Comprehensive molecular characterization of urothelial bladder carcinoma , 2014, Nature.

[59]  K. Davies,et al.  How do nutritional antioxidants really work: nucleophilic tone and para-hormesis versus free radical scavenging in vivo. , 2014, Free radical biology & medicine.

[60]  R Core Team,et al.  R: A language and environment for statistical computing. , 2014 .

[61]  The Cancer Genome Atlas Research Network,et al.  Comprehensive molecular characterization of urothelial bladder carcinoma , 2014, Nature.

[62]  G. Garcia-Manero,et al.  Oncogenic functions of the transcription factor Nrf2. , 2013, Free radical biology & medicine.

[63]  W. Lam,et al.  Frequent concerted genetic mechanisms disrupt multiple components of the NRF2 inhibitor KEAP1/CUL3/RBX1 E3-ubiquitin ligase complex in thyroid cancer , 2013, Molecular Cancer.

[64]  Michael P. Schroeder,et al.  IntOGen-mutations identifies cancer drivers across tumor types , 2013, Nature Methods.

[65]  Kevin P. White,et al.  Divergent Transcriptional Regulatory Logic at the Intersection of Tissue Growth and Developmental Patterning , 2013, PLoS genetics.

[66]  Manolis Kellis,et al.  Interplay between chromatin state, regulator binding, and regulatory motifs in six human cell types , 2013, Genome research.

[67]  Steven J. M. Jones,et al.  Integrated genomic characterization of endometrial carcinoma , 2013, Nature.

[68]  P. Csermely,et al.  NRF2-ome: An Integrated Web Resource to Discover Protein Interaction and Regulatory Networks of NRF2 , 2013, Oxidative medicine and cellular longevity.

[69]  Avi Ma'ayan,et al.  Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool , 2013, BMC Bioinformatics.

[70]  Karl J. Dykema,et al.  CUL3 and NRF2 mutations confer an NRF2 activation phenotype in a sporadic form of papillary renal cell carcinoma. , 2013, Cancer research.

[71]  T. Moliné,et al.  Oxidative stress and cancer: An overview , 2013, Ageing Research Reviews.

[72]  A. Levonen,et al.  The Keap1-Nrf2 pathway: Mechanisms of activation and dysregulation in cancer☆ , 2013, Redox biology.

[73]  James B. Brown,et al.  DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila , 2012, Proceedings of the National Academy of Sciences.

[74]  J. Chan,et al.  Deficiency in the nuclear‐related factor erythroid 2 transcription factor (Nrf1) leads to genetic instability , 2012, The FEBS journal.

[75]  V. Blank,et al.  The small MAF transcription factors MAFF, MAFG and MAFK: current knowledge and perspectives. , 2012, Biochimica et biophysica acta.

[76]  Data production leads,et al.  An integrated encyclopedia of DNA elements in the human genome , 2012 .

[77]  Steven J. M. Jones,et al.  Comprehensive genomic characterization of squamous cell lung cancers , 2012, Nature.

[78]  Nathan C. Sheffield,et al.  The accessible chromatin landscape of the human genome , 2012, Nature.

[79]  H. Zhang,et al.  Regulatory role of KEAP1 and NRF2 in PPARγ expression and chemoresistance in human non-small-cell lung carcinoma cells. , 2012, Free radical biology & medicine.

[80]  H. Aburatani,et al.  Nrf2 redirects glucose and glutamine into anabolic pathways in metabolic reprogramming. , 2012, Cancer cell.

[81]  ENCODEConsortium,et al.  An Integrated Encyclopedia of DNA Elements in the Human Genome , 2012, Nature.

[82]  Ruth Nussinov,et al.  The NRF2‐related interactome and regulome contain multifunctional proteins and fine‐tuned autoregulatory loops , 2012, FEBS letters.

[83]  Michelle R. Campbell,et al.  Identification of novel NRF2-regulated genes by ChIP-Seq: influence on retinoid X receptor alpha , 2012, Nucleic acids research.

[84]  C. N. Coleman,et al.  Inhibition of Nicotinamide Phosphoribosyltransferase (NAMPT) Activity by Small Molecule GMX1778 Regulates Reactive Oxygen Species (ROS)-mediated Cytotoxicity in a p53- and Nicotinic Acid Phosphoribosyltransferase1 (NAPRT1)-dependent Manner* , 2012, The Journal of Biological Chemistry.

[85]  M. Jimenez-Del-Rio,et al.  The Bad, the Good, and the Ugly about Oxidative Stress , 2012, Oxidative medicine and cellular longevity.

[86]  P. Deininger Alu elements: know the SINEs , 2011, Genome Biology.

[87]  S. Spicuglia,et al.  H3K4 tri‐methylation provides an epigenetic signature of active enhancers , 2011, The EMBO journal.

[88]  S. Cannistra,et al.  Keap1 mutations and Nrf2 pathway activation in epithelial ovarian cancer. , 2011, Cancer research.

[89]  Scott E. Kern,et al.  Oncogene-induced Nrf2 transcription promotes ROS detoxification and tumorigenesis , 2011, Nature.

[90]  Colin N. Dewey,et al.  Discovering Transcription Factor Binding Sites in Highly Repetitive Regions of Genomes with Multi-Read Analysis of ChIP-Seq Data , 2011, PLoS Comput. Biol..

[91]  G. Getz,et al.  GISTIC2.0 facilitates sensitive and confident localization of the targets of focal somatic copy-number alteration in human cancers , 2011, Genome Biology.

[92]  J. Stamatoyannopoulos,et al.  The role of chromatin accessibility in directing the widespread, overlapping patterns of Drosophila transcription factor binding , 2011, Genome Biology.

[93]  N. Gray,et al.  Small molecule modulators of antioxidant response pathway. , 2011, Current opinion in chemical biology.

[94]  David J. Arenillas,et al.  Global mapping of binding sites for Nrf2 identifies novel targets in cell survival response through ChIP-Seq profiling and network analysis , 2010, Nucleic acids research.

[95]  G. Sykiotis,et al.  Stress-Activated Cap'n'collar Transcription Factors in Aging and Human Disease , 2010, Science Signaling.

[96]  N. Yoo,et al.  Oncogenic NRF2 mutations in squamous cell carcinomas of oesophagus and skin , 2010, The Journal of pathology.

[97]  Mihee M. Kim,et al.  The selective autophagy substrate p62 activates the stress responsive transcription factor Nrf2 through inactivation of Keap1 , 2010, Nature Cell Biology.

[98]  Hailong Wu,et al.  Loss of Kelch-Like ECH-Associated Protein 1 Function in Prostate Cancer Cells Causes Chemoresistance and Radioresistance and Promotes Tumor Growth , 2010, Molecular Cancer Therapeutics.

[99]  Aaron R. Quinlan,et al.  Bioinformatics Applications Note Genome Analysis Bedtools: a Flexible Suite of Utilities for Comparing Genomic Features , 2022 .

[100]  Eric T. Wang,et al.  An Abundance of Ubiquitously Expressed Genes Revealed by Tissue Transcriptome Sequence Data , 2009, PLoS Comput. Biol..

[101]  J. Schuetz,et al.  Cell survival under stress is enhanced by a mitochondrial ATP-binding cassette transporter that regulates hemoproteins. , 2009, Cancer research.

[102]  M. Arand,et al.  Mammalian epoxide hydrolases in xenobiotic metabolism and signalling , 2009, Archives of Toxicology.

[103]  Tsutomu Ohta,et al.  Cancer related mutations in NRF2 impair its recognition by Keap1-Cul3 E3 ligase and promote malignancy , 2008, Proceedings of the National Academy of Sciences.

[104]  Rui Wang,et al.  Hypermethylation of the Keap1 gene in human lung cancer cell lines and lung cancer tissues. , 2008, Biochemical and biophysical research communications.

[105]  G. Sykiotis,et al.  Keap1/Nrf2 signaling regulates oxidative stress tolerance and lifespan in Drosophila. , 2008, Developmental cell.

[106]  Ok-Hee Lee,et al.  An Auto-regulatory Loop between Stress Sensors INrf2 and Nrf2 Controls Their Cellular Abundance* , 2007, Journal of Biological Chemistry.

[107]  B. Halliwell,et al.  Biochemistry of oxidative stress. , 2007, Biochemical Society transactions.

[108]  Brian N Chorley,et al.  Identification of polymorphic antioxidant response elements in the human genome. , 2007, Human molecular genetics.

[109]  A. De Benedetti,et al.  Bmc Molecular Biology Tlk1b Promotes Repair of Uv-damaged Dna through Chromatin Remodeling by Asf1 , 2022 .

[110]  J. Herman,et al.  Dysfunctional KEAP1–NRF2 Interaction in Non-Small-Cell Lung Cancer , 2006, PLoS medicine.

[111]  William Stafford Noble,et al.  Genome-scale mapping of DNase I sensitivity in vivo using tiling DNA microarrays , 2006, Nature Methods.

[112]  H. Ahsan,et al.  Reactive oxygen species: role in the development of cancer and various chronic conditions , 2006, Journal of carcinogenesis.

[113]  Tsutomu Ohta,et al.  Structural basis for defects of Keap1 activity provoked by its point mutations in lung cancer. , 2006, Molecular cell.

[114]  Mark Hannink,et al.  Keap1 Is a Redox-Regulated Substrate Adaptor Protein for a Cul3-Dependent Ubiquitin Ligase Complex , 2004, Molecular and Cellular Biology.

[115]  G. Barja Free radicals and aging , 2004, Trends in Neurosciences.

[116]  J. Harper,et al.  The Keap1-BTB Protein Is an Adaptor That Bridges Nrf2 to a Cul3-Based E3 Ligase: Oxidative Stress Sensing by a Cul3-Keap1 Ligase , 2004, Molecular and Cellular Biology.

[117]  Masayuki Yamamoto,et al.  Oxidative Stress Sensor Keap1 Functions as an Adaptor for Cul3-Based E3 Ligase To Regulate Proteasomal Degradation of Nrf2 , 2004, Molecular and Cellular Biology.

[118]  T. Hubbard,et al.  A census of human cancer genes , 2004, Nature Reviews Cancer.

[119]  D. Townsend,et al.  The role of glutathione-S-transferase in anti-cancer drug resistance , 2003, Oncogene.

[120]  J. D. Engel,et al.  Keap1-null mutation leads to postnatal lethality due to constitutive Nrf2 activation , 2003, Nature Genetics.

[121]  K. Itoh,et al.  Keap1-dependent Proteasomal Degradation of Transcription Factor Nrf2 Contributes to the Negative Regulation of Antioxidant Response Element-driven Gene Expression* , 2003, Journal of Biological Chemistry.

[122]  J. Darnell Transcription factors as targets for cancer therapy , 2002, Nature Reviews Cancer.

[123]  L. Zipper,et al.  The Keap1 BTB/POZ Dimerization Function Is Required to Sequester Nrf2 in Cytoplasm* , 2002, The Journal of Biological Chemistry.

[124]  R. Cole,et al.  Direct evidence that sulfhydryl groups of Keap1 are the sensors regulating induction of phase 2 enzymes that protect against carcinogens and oxidants , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[125]  Erich A Nigg,et al.  Human Asf1 and CAF‐1 interact and synergize in a repair‐coupled nucleosome assembly pathway , 2002, EMBO reports.

[126]  E. Nigg,et al.  Identification of human Asf1 chromatin assembly factors as substrates of Tousled-like kinases , 2001, Current Biology.

[127]  J. D. Engel,et al.  Keap1 represses nuclear activation of antioxidant responsive elements by Nrf2 through binding to the amino-terminal Neh2 domain. , 1999, Genes & development.

[128]  K. Itoh,et al.  An Nrf2/small Maf heterodimer mediates the induction of phase II detoxifying enzyme genes through antioxidant response elements. , 1997, Biochemical and biophysical research communications.

[129]  N. Nomura,et al.  Human small Maf proteins form heterodimers with CNC family transcription factors and recognize the NF-E2 motif , 1997, Oncogene.

[130]  T. Rushmore,et al.  The antioxidant responsive element. Activation by oxidative stress and identification of the DNA consensus sequence required for functional activity. , 1991, The Journal of biological chemistry.

[131]  A. Bensimon,et al.  Xenobiotic-inducible expression of murine glutathione S-transferase Ya subunit gene is controlled by an electrophile-responsive element. , 1990, Proceedings of the National Academy of Sciences of the United States of America.