CpG Islands

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  Subject Areas on Research

  • 5' CpG island methylation of the FHIT gene is correlated with loss of gene expression in lung and breast cancer. 
  • A DNA methylation biomarker of alcohol consumption. 
  • A Flexible, Efficient Binomial Mixed Model for Identifying Differential DNA Methylation in Bisulfite Sequencing Data. 
  • A targeted analysis reveals relevant shifts in the methylation and transcription of genes responsible for bile acid homeostasis and drug metabolism in non-alcoholic fatty liver disease. 
  • A variant in the CHEK2 promoter at a methylation site relieves transcriptional repression and confers reduced risk of lung cancer. 
  • Alternative translation of osteopontin generates intracellular and secreted isoforms that mediate distinct biological activities in dendritic cells. 
  • Amelioration of inflammatory arthritis by targeting the pre-ligand assembly domain of tumor necrosis factor receptors. 
  • An imprinted PEG1/MEST antisense expressed predominantly in human testis and in mature spermatozoa. 
  • Analysis of CpG methylation in the killifish CYP1A promoter. 
  • Analysis of DNA methylation in a three-generation family reveals widespread genetic influence on epigenetic regulation. 
  • Bacterial infection remodels the DNA methylation landscape of human dendritic cells. 
  • Bayesian genome- and epigenome-wide association studies with gene level dependence. 
  • Bisulfite sequencing of cloned alleles. 
  • Body mass index associated with genome-wide methylation in breast tissue. 
  • CD11c(+)B220(+)Gr-1(+) cells in mouse lymph nodes and spleen display characteristics of plasmacytoid dendritic cells. 
  • CRISPR Editing of Mutant IDH1 R132H Induces a CpG Methylation-Low State in Patient-Derived Glioma Models of G-CIMP. 
  • Cadmium exposure and the epigenome: Exposure-associated patterns of DNA methylation in leukocytes from mother-baby pairs. 
  • Callipyge mutation affects gene expression in cis: a potential role for chromatin structure. 
  • Cannabinoid exposure and altered DNA methylation in rat and human sperm. 
  • Cannabis use is associated with potentially heritable widespread changes in autism candidate gene DLGAP2 DNA methylation in sperm. 
  • Cell-of-Origin Patterns Dominate the Molecular Classification of 10,000 Tumors from 33 Types of Cancer. 
  • Chromosomes with high gene density are preferentially repaired in human cells. 
  • Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis. 
  • Comparison of smoking-related DNA methylation between newborns from prenatal exposure and adults from personal smoking. 
  • Convergent and divergent evolution of genomic imprinting in the marsupial Monodelphis domestica. 
  • CpG island methylator phenotype is associated with response to adjuvant irinotecan-based therapy for stage III colon cancer. 
  • CpG-related SNPs in the MS4A region have a dose-dependent effect on risk of late-onset Alzheimer disease. 
  • Cysteine-tailed class I-binding peptides bind to CpG adjuvant and enhance primary CTL responses. 
  • DNA Methylation Analysis Identifies Loci for Blood Pressure Regulation. 
  • DNA methylation and body mass index from birth to adolescence: meta-analyses of epigenome-wide association studies. 
  • DNA methylation and ovarian cancer. I. Analysis of CpG island hypermethylation in human ovarian cancer using differential methylation hybridization. 
  • DNA methylation of imprinted gene control regions in the regression of low-grade cervical lesions. 
  • DNA methylation profiling in the Carolina Breast Cancer Study defines cancer subclasses differing in clinicopathologic characteristics and survival. 
  • DNA methylation signatures of aggression and closely related constructs: A meta-analysis of epigenome-wide studies across the lifespan. 
  • DNA methylation signatures reflect aging in patients with nonalcoholic steatohepatitis. 
  • DNA methyltransferase levels and altered CpG methylation in the total genome and in the GSTP1 gene in human glioma cells transfected with sense and antisense DNA methyltransferase cDNA. 
  • DNA-based immunotherapy to treat atopic disease. 
  • DNA-remethylation around a STAT5-binding enhancer in the alphaS1-casein promoter is associated with abrupt shutdown of alphaS1-casein synthesis during acute mastitis. 
  • Derepression of BDNF transcription involves calcium-dependent phosphorylation of MeCP2. 
  • Dietary omega-3 fatty acid intake impacts peripheral blood DNA methylation -anti-inflammatory effects and individual variability in a pilot study. 
  • Differential DNA methylation patterns in human Schlemm's canal endothelial cells with glaucoma. 
  • Differential DNA methylation with age displays both common and dynamic features across human tissues that are influenced by CpG landscape. 
  • Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver. 
  • Distinct Epigenetic Effects of Tobacco Smoking in Whole Blood and among Leukocyte Subtypes. 
  • Dynamic DNA methylation across diverse human cell lines and tissues. 
  • Early nurture epigenetically tunes the oxytocin receptor. 
  • Edematous severe acute malnutrition is characterized by hypomethylation of DNA. 
  • Epigenetic Signatures of Cigarette Smoking. 
  • Epigenetic alterations in cytochrome P450 oxidoreductase (Por) in sperm of rats exposed to tetrahydrocannabinol (THC). 
  • Epigenetic deregulation in pediatric acute lymphoblastic leukemia. 
  • Epigenetic dysregulation of SHANK3 in brain tissues from individuals with autism spectrum disorders. 
  • Epigenetic regulation of AXL and risk of childhood asthma symptoms. 
  • Epigenome-Wide Association Study for All-Cause Mortality in a Cardiovascular Cohort Identifies Differential Methylation in Castor Zinc Finger 1 (CASZ1). 
  • Epigenome-wide association study of kidney function identifies trans-ethnic and ethnic-specific loci. 
  • Epigenome-wide association study of metabolic syndrome in African-American adults. 
  • Epigenome-wide meta-analysis of DNA methylation and childhood asthma. 
  • Erythrocyte folate concentrations, CpG methylation at genomically imprinted domains, and birth weight in a multiethnic newborn cohort. 
  • Establishing the epigenetic status of the Prader-Willi/Angelman imprinting center in the gametes and embryo. 
  • Evaluating DNA methylation age on the Illumina MethylationEPIC Bead Chip. 
  • Evidence for monozygotic twin (MZ) discordance in methylation level at two CpG sites in the promoter region of the catechol-O-methyltransferase (COMT) gene. 
  • Gene markers in brain tumors: what the epileptologist should know. 
  • Gene segment selection in V(D)J recombination: accessibility and beyond. 
  • Genetic and epigenetic inactivation of Kruppel-like factor 4 in medulloblastoma. 
  • Genetic contribution to variation in DNA methylation at maternal smoking-sensitive loci in exposed neonates. 
  • Genetic editing of colonic organoids provides a molecularly distinct and orthotopic preclinical model of serrated carcinogenesis. 
  • Genetic variation of DNA methyltransferase-3A contributes to protection against persistent MRSA bacteremia in patients. 
  • Genetic, epigenetic, and environmental factors controlling oxytocin receptor gene expression. 
  • Genome-scale screen for DNA methylation-based detection markers for ovarian cancer. 
  • Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types. 
  • Genome-wide methylation analyses in glioblastoma multiforme. 
  • Genome-wide methylation analysis identifies genes specific to breast cancer hormone receptor status and risk of recurrence. 
  • Genome-wide quantification of the effects of DNA methylation on human gene regulation. 
  • Genomic organization, expression, and localization of murine Ran-binding protein 2 (RanBP2) gene. 
  • Genomic sweeping for hypermethylated genes. 
  • High frequency of hypermethylation at the 14-3-3 sigma locus leads to gene silencing in breast cancer. 
  • High quality methylome-wide investigations through next-generation sequencing of DNA from a single archived dry blood spot. 
  • High throughput detection of M6P/IGF2R intronic hypermethylation and LOH in ovarian cancer. 
  • Highly recurrent CBS epimutations in gastric cancer CpG island methylator phenotypes and inflammation. 
  • Host response to infection: the role of CpG DNA in induction of cyclooxygenase 2 and nitric oxide synthase 2 in murine macrophages. 
  • Human plasmacytoid dendritic cells activated by CpG oligodeoxynucleotides induce the generation of CD4+CD25+ regulatory T cells. 
  • Hypermethylation of 14-3-3 sigma (stratifin) is an early event in breast cancer. 
  • Hypermethylation of growth arrest DNA damage-inducible gene 45 beta promoter in human hepatocellular carcinoma. 
  • Hypo-CpG methylation controls PTEN expression and cell apoptosis in irradiated lung. 
  • Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome. 
  • Immunization with the Haemophilus ducreyi trimeric autotransporter adhesin DsrA with alum, CpG or imiquimod generates a persistent humoral immune response that recognizes the bacterial surface. 
  • Immunostimulatory properties of genomic DNA from different bacterial species. 
  • Imprinted expression of the canine IGF2R, in the absence of an anti-sense transcript or promoter methylation. 
  • Imprinting evolution and the price of silence. 
  • Imprinting of PEG3, the human homologue of a mouse gene involved in nurturing behavior. 
  • In vitro assay of immunostimulatory activities of plasmid vectors. 
  • In-utero epigenetic factors are associated with early-onset myopia in young children. 
  • Inactivation of the MAL gene in breast cancer is a common event that predicts benefit from adjuvant chemotherapy. 
  • Induction of immune activation by a novel immunomodulatory oligonucleotide without thymocyte apoptosis. 
  • Inhibition of murine macrophage IL-12 production by natural and synthetic DNA. 
  • Initial sequencing and analysis of the human genome. 
  • Initial sequencing and comparative analysis of the mouse genome. 
  • Isoform Switch of TET1 Regulates DNA Demethylation and Mouse Development. 
  • Long-term outdoor air pollution and DNA methylation in circulating monocytes: results from the Multi-Ethnic Study of Atherosclerosis (MESA). 
  • Loss of cyclin D2 expression in the majority of breast cancers is associated with promoter hypermethylation. 
  • Mechanisms of immune stimulation by bacterial DNA. 
  • Meta-analyses identify DNA methylation associated with kidney function and damage. 
  • Meta-analysis of epigenome-wide association studies in neonates reveals widespread differential DNA methylation associated with birthweight. 
  • Methylation subtypes and large-scale epigenetic alterations in gastric cancer. 
  • Methylation-specific PCR. 
  • Methylomics of gene expression in human monocytes. 
  • Mutational fingerprints of aging. 
  • Mutations in isocitrate dehydrogenase 1 and 2 occur frequently in intrahepatic cholangiocarcinomas and share hypermethylation targets with glioblastomas. 
  • Osteopontin expression is essential for interferon-alpha production by plasmacytoid dendritic cells. 
  • Prediction of genome-wide DNA methylation in repetitive elements. 
  • Primary immunodeficiency mutation databases. 
  • Prognostic methylation markers for overall survival in cytogenetically normal patients with acute myeloid leukemia treated on SWOG trials. 
  • Promoter hypermethylation profile of kidney cancer. 
  • Promoter methylation and silencing of the tissue factor pathway inhibitor-2 (TFPI-2), a gene encoding an inhibitor of matrix metalloproteinases in human glioma cells. 
  • Regulation of the metastasis suppressor gene MKK4 in ovarian cancer. 
  • Relationship between methylome and transcriptome in patients with nonalcoholic fatty liver disease. 
  • Replicated umbilical cord blood DNA methylation loci associated with gestational age at birth. 
  • Resource base influences genome-wide DNA methylation levels in wild baboons (Papio cynocephalus). 
  • Retroviral DNA integration: viral and cellular determinants of target-site selection. 
  • Sperm DNA methylation altered by THC and nicotine: Vulnerability of neurodevelopmental genes with bivalent chromatin. 
  • Stimulation of thymocyte proliferation by phosphorothioate DNA oligonucleotides. 
  • T cell receptor (TCR) and transforming growth factor β (TGF-β) signaling converge on DNA (cytosine-5)-methyltransferase to control forkhead box protein 3 (foxp3) locus methylation and inducible regulatory T cell differentiation. 
  • TLR agonists regulate PDGF-B production and cell proliferation through TGF-beta/type I IFN crosstalk. 
  • Targeting UDP-α-D-glucose 6-dehydrogenase inhibits glioblastoma growth and migration. 
  • Telomere-to-telomere assembly of a complete human X chromosome. 
  • Temporal association of ORCA/LRWD1 to late-firing origins during G1 dictates heterochromatin replication and organization. 
  • The Cancer Genome Atlas expression profiles of low-grade gliomas. 
  • The CpG island methylator phenotype and chromosomal instability are inversely correlated in sporadic colorectal cancer. 
  • The Role of EBV-Induced Hypermethylation in Gastric Cancer Tumorigenesis. 
  • The antigenic properties of bacterial DNA in normal and aberrant immunity. 
  • The effects of CpG DNA on HMGB1 release by murine macrophage cell lines. 
  • The expression of plasma nucleosomes in mice undergoing in vivo apoptosis. 
  • The genome-wide impact of trisomy 21 on DNA methylation and its implications for hematopoiesis. 
  • The influence of base sequence on the immunostimulatory properties of DNA. 
  • The mouse Snrpn minimal promoter and its human orthologue: activity and imprinting. 
  • The neuronatin gene resides in a "micro-imprinted" domain on human chromosome 20q11.2. 
  • The role of cpg sequences in the induction of anti-DNA antibodies. 
  • The role of the macrophage scavenger receptor in immune stimulation by bacterial DNA and synthetic oligonucleotides. 
  • Transcription initiation patterns indicate divergent strategies for gene regulation at the chromatin level. 
  • Transcriptomic profiles of aging in purified human immune cells. 
  • Utility of a molecular prescreening program in advanced colorectal cancer for enrollment on biomarker-selected clinical trials. 
  • Whole Blood DNA Methylation Signatures of Diet Are Associated With Cardiovascular Disease Risk Factors and All-Cause Mortality. 
  • Whole-Genome and Epigenomic Landscapes of Etiologically Distinct Subtypes of Cholangiocarcinoma. 
  • Whole-epigenome analysis in multiple myeloma reveals DNA hypermethylation of B cell-specific enhancers. 
  • Whole-genome fingerprint of the DNA methylome during human B cell differentiation. 
  • lncRNA Epigenetic Landscape Analysis Identifies EPIC1 as an Oncogenic lncRNA that Interacts with MYC and Promotes Cell-Cycle Progression in Cancer. 
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  Keywords of People

  • Berchuck, Andrew, James M. Ingram Distinguished Professor of Gynecologic Oncology, Obstetrics and Gynecology, Gynecologic Oncology
  • Gunn, Michael Dee, Professor of Medicine, Immunology
  • Pang, Herbert, Adjunct Assistant Professor in the Department of Biostatistics & Bioinformatics, Biostatistics & Bioinformatics
  • Shinohara, Mari L., Associate Professor of Immunology, Immunology
  • Yan, Hai, Adjunct Professor of Pathology, Pathology