Chromatin

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  Subject Areas on Research

  • A CDC6 protein-binding peptide selected using a bacterial two-hybrid-like system is a cell cycle inhibitor. 
  • A Lamina-Associated Domain Border Governs Nuclear Lamina Interactions, Transcription, and Recombination of the Tcrb Locus. 
  • A Pan-Cancer Analysis of Enhancer Expression in Nearly 9000 Patient Samples. 
  • A change in the structure of Vbeta chromatin associated with TCR beta allelic exclusion. 
  • A cis-regulatory map of the Drosophila genome. 
  • A compendium of promoter-centered long-range chromatin interactions in the human genome. 
  • A comprehensive structure-function analysis of Arabidopsis SNI1 defines essential regions and transcriptional repressor activity. 
  • A conserved acidic patch in the Myb domain is required for activation of an endogenous target gene and for chromatin binding. 
  • A discrete chromatin loop in the mouse Tcra-Tcrd locus shapes the TCRδ and TCRα repertoires. 
  • A dynamic H3K27ac signature identifies VEGFA-stimulated endothelial enhancers and requires EP300 activity. 
  • A festival of cell-cycle controls. 
  • A genome-wide analysis of open chromatin in human tracheal epithelial cells reveals novel candidate regulatory elements for lung function. 
  • A novel domain in Set2 mediates RNA polymerase II interaction and couples histone H3 K36 methylation with transcript elongation. 
  • A role for MAPK in feedback inhibition of Tcrb recombination. 
  • A role for histone acetylation in the developmental regulation of VDJ recombination. 
  • A role of the CTCF binding site at enhancer Eα in the dynamic chromatin organization of the Tcra-Tcrd locus. 
  • A tale of tails: how histone tails mediate chromatin compaction in different salt and linker histone environments. 
  • A user's guide to the encyclopedia of DNA elements (ENCODE). 
  • ATAC-ing the mechanisms of renin regulation. 
  • ATM Paradoxically Promotes Oncogenic Transformation via Transcriptional Reprogramming. 
  • Accessibility control of T cell receptor gene rearrangement in developing thymocytes. The TCR alpha/delta locus. 
  • Acetaminophen toxicity in cultured trout liver cells. I. Morphological alterations and effects on cytochrome P450 1A1. 
  • Acly Deficiency Enhances Myelopoiesis through Acetyl Coenzyme A and Metabolic-Epigenetic Cross-Talk. 
  • Acute toxicity of lead particulates on pulmonary alveolar macrophages. Ultrastructural and microanalytical studies. 
  • Allele-specific and heritable chromatin signatures in humans. 
  • Allele-specific distribution of RNA polymerase II on female X chromosomes. 
  • Allele-specific regulation of TCR beta variable gene segment chromatin structure. 
  • An aberrant transcription factor network essential for Wnt signaling and stem cell maintenance in glioblastoma. 
  • An anti-silencer- and SATB1-dependent chromatin hub regulates Rag1 and Rag2 gene expression during thymocyte development. 
  • An integrated encyclopedia of DNA elements in the human genome. 
  • Analysis of Cdc6 function in the assembly of mammalian prereplication complexes. 
  • Ankrd11 is a chromatin regulator involved in autism that is essential for neural development. 
  • Antiestrogen can establish nonproductive receptor complexes and alter chromatin structure at target enhancers. 
  • Apoptosis in Xenopus egg extracts. 
  • Apoptosis in the cervix of pregnant rats in association with cervical softening. 
  • Apoptotic nuclease assays. 
  • Association of Potentially Damaging De Novo Gene Variants With Neurologic Outcomes in Congenital Heart Disease. 
  • Bacterial Growth Inhibition Screen (BGIS) identifies a loss-of-function mutant of the DEK oncogene, indicating DNA modulating activities of DEK in chromatin. 
  • Beyond Hypothesis: Direct Evidence That V(D)J Recombination Is Regulated by the Accessibility of Chromatin Substrates. 
  • Bidirectional regulation of postmitotic H3K27me3 distributions underlie cerebellar granule neuron maturation dynamics. 
  • Biochemical Methods To Investigate lncRNA and the Influence of lncRNA:Protein Complexes on Chromatin. 
  • Biochemistry. A glucose-to-gene link. 
  • CD69 gene is differentially regulated in T and B cells by evolutionarily conserved promoter-distal elements. 
  • COMMD proteins, a novel family of structural and functional homologs of MURR1. 
  • Ca(2+)/calmodulin-dependent protein kinase IV is expressed in spermatids and targeted to chromatin and the nuclear matrix. 
  • Callipyge mutation affects gene expression in cis: a potential role for chromatin structure. 
  • Cell-Cycle-Dependent Chromatin Dynamics at Replication Origins. 
  • Cell-type-specific effects of genetic variation on chromatin accessibility during human neuronal differentiation. 
  • Cell-type-specific enrichment of risk-associated regulatory elements at ovarian cancer susceptibility loci. 
  • Centromere identity in Drosophila is not determined in vivo by replication timing. 
  • Centromeric chromatin exhibits a histone modification pattern that is distinct from both euchromatin and heterochromatin. 
  • Chemically induced proximity in biology and medicine. 
  • Chromatin Modulatory Proteins and Olfactory Receptor Signaling in the Refinement and Maintenance of Fruitless Expression in Olfactory Receptor Neurons. 
  • Chromatin Regulation of Neuronal Maturation and Plasticity. 
  • Chromatin accessibility mapping identifies mediators of basal transcription and retinoid-induced repression of OTX2 in medulloblastoma. 
  • Chromatin accessibility reveals insights into androgen receptor activation and transcriptional specificity. 
  • Chromatin architecture reorganization during stem cell differentiation. 
  • Chromatin architecture, CCCTC-binding factor, and V(D)J recombination: managing long-distance relationships at antigen receptor loci. 
  • Chromatin association of rad17 is required for an ataxia telangiectasia and rad-related kinase-mediated S-phase checkpoint in response to low-dose ultraviolet radiation. 
  • Chromatin conformation of yeast centromeres 
  • Chromatin perturbations during the DNA damage response in higher eukaryotes. 
  • Chromatin signatures of the Drosophila replication program. 
  • Chromatin-associated HMG-17 is a major regulator of homeodomain transcription factor activity modulated by Wnt/beta-catenin signaling. 
  • Chromatin-based reprogramming of a courtship regulator by concurrent pheromone perception and hormone signaling. 
  • Chromatin-bound p53 anchors activated Smads and the mSin3A corepressor to confer transforming-growth-factor-beta-mediated transcription repression. 
  • Chromosomal microarray analysis in clinical evaluation of neurodevelopmental disorders-reporting a novel deletion of SETDB1 and illustration of counseling challenge. 
  • Circular ecDNA promotes accessible chromatin and high oncogene expression. 
  • Codon usage regulates human KRAS expression at both transcriptional and translational levels. 
  • Comparative Serum Challenges Show Divergent Patterns of Gene Expression and Open Chromatin in Human and Chimpanzee. 
  • Comparative analysis of metazoan chromatin organization. 
  • Comprehensive Survey of ChIP-Seq Datasets to Identify Candidate Iron Homeostasis Genes Regulated by Chromatin Modifications. 
  • Comprehensive analysis of the chromatin landscape in Drosophila melanogaster. 
  • Comprehensive molecular characterization of urothelial bladder carcinoma. 
  • Computational approaches for inferring 3D conformations of chromatin from chromosome conformation capture data. 
  • Conserved organization of centromeric chromatin in flies and humans. 
  • Contrasting Roles of Transcription Factors Spineless and EcR in the Highly Dynamic Chromatin Landscape of Butterfly Wing Metamorphosis. 
  • Control of gene expression and assembly of chromosomal subdomains by chromatin regulators with antagonistic functions. 
  • Cooperation among multiple transcription factors is required for access to minimal T-cell receptor alpha-enhancer chromatin in vivo. 
  • Coregulators in nuclear estrogen receptor action: from concept to therapeutic targeting. 
  • Correlation of DNA fragmentation and chromatin condensation in apoptotic nuclei of the Ser 6 mouse retina. 
  • Cyclin D1 inhibits peroxisome proliferator-activated receptor gamma-mediated adipogenesis through histone deacetylase recruitment. 
  • DEK is a poly(ADP-ribose) acceptor in apoptosis and mediates resistance to genotoxic stress. 
  • DEK over-expression promotes mitotic defects and micronucleus formation. 
  • DNA Methylation Indicates Susceptibility to Isoproterenol-Induced Cardiac Pathology and Is Associated With Chromatin States. 
  • DNA Sequence Constraints Define Functionally Active Steroid Nuclear Receptor Binding Sites in Chromatin. 
  • DNA methylation atlas of the mouse brain at single-cell resolution. 
  • DNA replication and transcription programs respond to the same chromatin cues. 
  • DNA replication. 
  • DNA-remethylation around a STAT5-binding enhancer in the alphaS1-casein promoter is associated with abrupt shutdown of alphaS1-casein synthesis during acute mastitis. 
  • DNaseI hypersensitivity at gene-poor, FSH dystrophy-linked 4q35.2. 
  • DNase I sensitivity QTLs are a major determinant of human expression variation. 
  • De Novo Centromere Formation: One's Company, Two's a Crowd. 
  • Defining the replication program through the chromatin landscape. 
  • Differences in chromatin proteins of resting and growing human lymphocytes. 
  • Differential DNA methylation with age displays both common and dynamic features across human tissues that are influenced by CpG landscape. 
  • Differential chromatin accessibility in peripheral blood mononuclear cells underlies COVID-19 disease severity prior to seroconversion. 
  • Differential contribution of cis-regulatory elements to higher order chromatin structure and expression of the CFTR locus. 
  • Differential expression of intracellular and secreted osteopontin isoforms by murine macrophages in response to toll-like receptor agonists. 
  • Differential functions for the transcription factor E2A in positive and negative gene regulation in pre-B lymphocytes. 
  • Diffusible factors are responsible for differences in nuclease sensitivity among chromatins originating from different cell types. 
  • Direct visualization of cardiac transcription factories reveals regulatory principles of nuclear architecture during pathological remodeling. 
  • Discovery of MLL1 binding units, their localization to CpG Islands, and their potential function in mitotic chromatin. 
  • Disruption of origin chromatin structure by helicase activation in the absence of DNA replication. 
  • Dissecting the regulatory architecture of gene expression QTLs. 
  • Distinct and histone-specific modifications mediate positive versus negative transcriptional regulation of TSHalpha promoter. 
  • Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome. 
  • Distribution of 5-methyldeoxycytidine in products of staphylococcal nuclease digestion of nuclei and purified DNA. 
  • Distribution of repair-incorporated nucleotides and nucleosome rearrangement in the chromatin of normal and xeroderma pigmentosum human fibroblasts. 
  • Drosophila ORC localizes to open chromatin and marks sites of cohesin complex loading. 
  • Drosophila PIWI associates with chromatin and interacts directly with HP1a. 
  • Dynamic DNA methylation across diverse human cell lines and tissues. 
  • Dynamic Opposition of Histone Modifications. 
  • Dynamics of BAF-Polycomb complex opposition on heterochromatin in normal and oncogenic states. 
  • E2A and IRF-4/Pip promote chromatin modification and transcription of the immunoglobulin kappa locus in pre-B cells. 
  • Early Diverging Fungus Mucor circinelloides Lacks Centromeric Histone CENP-A and Displays a Mosaic of Point and Regional Centromeres. 
  • Early adaptive chromatin remodeling events precede pathologic phenotypes and are reinforced in the failing heart. 
  • Editing the Neuronal Genome: a CRISPR View of Chromatin Regulation in Neuronal Development, Function, and Plasticity. 
  • Effect of DNA conformation on cisplatin adduct formation. 
  • Effect of nickel(II) on DNA-protein binding, thymidine incorporation, and sedimentation pattern of chromatin fractions from intact mammalian cells. 
  • Effects of sequence variation on differential allelic transcription factor occupancy and gene expression. 
  • Efficient estimation of contact probabilities from inter-bead distance distributions in simulated polymer chains. 
  • Efficient global biopolymer sampling with end-transfer configurational bias Monte Carlo. 
  • Enhancer RNAs predict enhancer-gene regulatory links and are critical for enhancer function in neuronal systems. 
  • Epigenetic activation of unintegrated HIV-1 genomes by gut-associated short chain fatty acids and its implications for HIV infection. 
  • Epigenetic dynamics of centromeres and neocentromeres in Cryptococcus deuterogattii. 
  • Epigenetic regulation of male fate commitment from an initially bipotential system. 
  • Epigenetics and psychostimulant addiction. 
  • Epigenome characterization at single base-pair resolution. 
  • Epigenomic links from metabolism-methionine and chromatin architecture. 
  • Epigenomic reprogramming during pancreatic cancer progression links anabolic glucose metabolism to distant metastasis. 
  • Epigenomics of centromere assembly and function. 
  • Evaluating Chromatin Accessibility Differences Across Multiple Primate Species Using a Joint Modeling Approach. 
  • Evaluation of chromatin accessibility in prefrontal cortex of individuals with schizophrenia. 
  • Evidence that breast cancer risk at the 2q35 locus is mediated through IGFBP5 regulation. 
  • Evidence that non-caspase proteases are required for chromatin degradation during apoptosis. 
  • Evolutionary Changes in the Chromatin Landscape Contribute to Reorganization of a Developmental Gene Network During Rapid Life History Evolution in Sea Urchins. 
  • Evolutionary dynamics and information hierarchies in biological systems. 
  • Explicit DNase sequence bias modeling enables high-resolution transcription factor footprint detection. 
  • Extensive evolutionary changes in regulatory element activity during human origins are associated with altered gene expression and positive selection. 
  • Facile synthesis of site-specifically acetylated and methylated histone proteins: reagents for evaluation of the histone code hypothesis. 
  • Female steroid hormones and target cell nuclei. 
  • Fine needle aspiration biopsy of metastatic melanoma. A morphologic analysis of 174 cases. 
  • Fine-needle aspiration of papillary thyroid carcinoma: distinguishing between cases that performed well and those that performed poorly in the College of American Pathologists Nongynecologic Cytology Program. 
  • Five pillars of centromeric chromatin in fungal pathogens. 
  • Flexible histone tails in a new mesoscopic oligonucleosome model. 
  • Formation of DNA-protein cross-links in cultured mammalian cells upon treatment with iron ions. 
  • Functional epialleles at an endogenous human centromere. 
  • Gene segment selection in V(D)J recombination: accessibility and beyond. 
  • Genetic manipulation of centromere function. 
  • Genome-wide activity-dependent MeCP2 phosphorylation regulates nervous system development and function. 
  • Genome-wide chromatin footprinting reveals changes in replication origin architecture induced by pre-RC assembly. 
  • Genome-wide chromatin state transitions associated with developmental and environmental cues. 
  • Genome-wide identification of autosomal genes with allelic imbalance of chromatin state. 
  • Genome-wide localization of replication factors. 
  • Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS). 
  • Genome-wide quantification of the effects of DNA methylation on human gene regulation. 
  • Genome-wide specificity of DNA binding, gene regulation, and chromatin remodeling by TALE- and CRISPR/Cas9-based transcriptional activators. 
  • Genomic analysis reveals distinct mechanisms and functional classes of SOX10-regulated genes in melanocytes. 
  • Genomic and Epigenetic Foundations of Neocentromere Formation. 
  • Genomic and functional variation of human centromeres. 
  • Genomic distribution of CHD7 on chromatin tracks H3K4 methylation patterns. 
  • Genomic size of CENP-A domain is proportional to total alpha satellite array size at human centromeres and expands in cancer cells. 
  • Genomic variation within alpha satellite DNA influences centromere location on human chromosomes with metastable epialleles. 
  • Germline transcription: a key regulator of accessibility and recombination. 
  • Global gene expression and chromatin accessibility of the peripheral nervous system in animal models of persistent pain. 
  • Glucocorticoid receptor triggers a reversible drug-tolerant dormancy state with acquired therapeutic vulnerabilities in lung cancer. 
  • HES1 is a novel downstream modifier of the SHH-GLI3 Axis in the development of preaxial polydactyly. 
  • Heritable individual-specific and allele-specific chromatin signatures in humans. 
  • Heterochromatin and RNAi act independently to ensure genome stability in Mucorales human fungal pathogens. 
  • HiCAR is a robust and sensitive method to analyze open-chromatin-associated genome organization. 
  • High-Resolution Mapping of Chromatin Conformation in Cardiac Myocytes Reveals Structural Remodeling of the Epigenome in Heart Failure. 
  • High-resolution mapping and characterization of open chromatin across the genome. 
  • High-resolution mapping of open chromatin in the rice genome. 
  • Histone Methylation Dynamics and Gene Regulation Occur through the Sensing of One-Carbon Metabolism. 
  • Histone modifications and chromatin organization in prostate cancer. 
  • Histone modifications at human enhancers reflect global cell-type-specific gene expression. 
  • Histones of rat testis chromatin during early postnatal development and their interactions with DNA. 
  • Hormonal control of oviduct growth and differentiation. 
  • Human Centromeres Produce Chromosome-Specific and Array-Specific Alpha Satellite Transcripts that Are Complexed with CENP-A and CENP-C. 
  • Human centromeric chromatin is a dynamic chromosomal domain that can spread over noncentromeric DNA. 
  • Human gamma-satellite DNA maintains open chromatin structure and protects a transgene from epigenetic silencing. 
  • Human immunodeficiency virus type 1 Vpr-binding protein VprBP, a WD40 protein associated with the DDB1-CUL4 E3 ubiquitin ligase, is essential for DNA replication and embryonic development. 
  • Human origin recognition complex large subunit is degraded by ubiquitin-mediated proteolysis after initiation of DNA replication. 
  • Hydrodynamic evidence in support of spacer regions in chromatin. 
  • Hyperphosphorylated C-terminal repeat domain-associating proteins in the nuclear proteome link transcription to DNA/chromatin modification and RNA processing. 
  • Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. 
  • Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome. 
  • Identification and requirements of enhancers that direct gene expression during zebrafish fin regeneration. 
  • Identification of E2A target genes in B lymphocyte development by using a gene tagging-based chromatin immunoprecipitation system. 
  • Identification of enhancer regulatory elements that direct epicardial gene expression during zebrafish heart regeneration. 
  • Identification of functional elements and regulatory circuits by Drosophila modENCODE. 
  • Imaging genotyping of functional signaling pathways in lung squamous cell carcinoma using a radiomics approach. 
  • Incomplete MyoD-induced transdifferentiation is associated with chromatin remodeling deficiencies. 
  • Inhibitor-kappaB kinase-beta regulates LPS-induced TNF-alpha production in cardiac myocytes through modulation of NF-kappaB p65 subunit phosphorylation. 
  • Integrated cistromic and expression analysis of amplified NKX2-1 in lung adenocarcinoma identifies LMO3 as a functional transcriptional target. 
  • Integrated detection of natural antisense transcripts using strand-specific RNA sequencing data. 
  • Integrative QTL analysis of gene expression and chromatin accessibility identifies multi-tissue patterns of genetic regulation. 
  • Interactions of chromatin context, binding site sequence content, and sequence evolution in stress-induced p53 occupancy and transactivation. 
  • Isolation of unique STAT5 targets by chromatin immunoprecipitation-based gene identification. 
  • Jun dimerization protein 2 functions as a progesterone receptor N-terminal domain coactivator. 
  • Landscape of stimulation-responsive chromatin across diverse human immune cells. 
  • Leveraging chromatin accessibility for transcriptional regulatory network inference in T Helper 17 Cells. 
  • Ligand-dependent and -independent function of the transactivation regions of the human estrogen receptor in yeast. 
  • Ligand-induced recruitment of a histone deacetylase in the negative-feedback regulation of the thyrotropin beta gene. 
  • Lineage-Specific Genome Architecture Links Enhancers and Non-coding Disease Variants to Target Gene Promoters. 
  • Lineage-specific compaction of Tcrb requires a chromatin barrier to protect the function of a long-range tethering element. 
  • Linking the dynamics of chromatin occupancy and transcription with predictive models. 
  • LncRNA PSR Regulates Vascular Remodeling Through Encoding a Novel Protein Arteridin. 
  • Long transposon-rich centromeres in an oomycete reveal divergence of centromere features in Stramenopila-Alveolata-Rhizaria lineages. 
  • Long-distance regulation of fetal V(δ) gene segment TRDV4 by the Tcrd enhancer. 
  • Loss of a histone deacetylase dramatically alters the genomic distribution of Spo11p-catalyzed DNA breaks in Saccharomyces cerevisiae. 
  • Lymphocyte activation gene-3-associated protein networks are associated with HDL-cholesterol and mortality in the Trans-omics for Precision Medicine program. 
  • Mapping nucleosome positions using DNase-seq. 
  • Mcm10 and And-1/CTF4 recruit DNA polymerase alpha to chromatin for initiation of DNA replication. 
  • Mechanism of estrogen action: early transcriptional and translational events. 
  • Mechanisms of Chromatin Remodeling and Repurposing During Extracellular Translocation. 
  • Mechanisms of specificity in neuronal activity-regulated gene transcription. 
  • Memory of Inflammation in Regulatory T Cells. 
  • Modification of DNA bases in chromatin of intact target human cells by activated human polymorphonuclear leukocytes. 
  • Molecular hallmarks of endogenous chromatin complexes containing master regulators of hematopoiesis. 
  • Moonlighting chromatin: when DNA escapes nuclear control. 
  • Multiple independent variants at the TERT locus are associated with telomere length and risks of breast and ovarian cancer. 
  • Mutation-specific pathophysiological mechanisms define different neurodevelopmental disorders associated with SATB1 dysfunction. 
  • Mutational landscapes of tongue carcinoma reveal recurrent mutations in genes of therapeutic and prognostic relevance. 
  • Nanoscale chromatin profiling of gastric adenocarcinoma reveals cancer-associated cryptic promoters and somatically acquired regulatory elements. 
  • Nascent chromatin occupancy profiling reveals locus- and factor-specific chromatin maturation dynamics behind the DNA replication fork. 
  • Native recombinant cyclophilins A, B, and C degrade DNA independently of peptidylprolyl cis-trans-isomerase activity. Potential roles of cyclophilins in apoptosis. 
  • Neocentromeres: a place for everything and everything in its place. 
  • Nephropathy in human immunodeficiency virus-1 transgenic mice is due to renal transgene expression. 
  • Neuronal and glial 3D chromatin architecture informs the cellular etiology of brain disorders. 
  • Noncoding transcription controls downstream promoters to regulate T-cell receptor alpha recombination. 
  • Notch signaling genes: myogenic DNA hypomethylation and 5-hydroxymethylcytosine. 
  • Nuclear deformation during breast cancer cell transmigration. 
  • Nuclear estrogen receptor in the avian liver: correlation with biologic response. 
  • Nucleoporin 153 links nuclear pore complex to chromatin architecture by mediating CTCF and cohesin binding. 
  • One-carbon metabolism and epigenetics: understanding the specificity. 
  • Open Chromatin Profiling in Adipose Tissue Marks Genomic Regions with Functional Roles in Cardiometabolic Traits. 
  • Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity. 
  • Optical High Content Nanoscopy of Epigenetic Marks Decodes Phenotypic Divergence in Stem Cells. 
  • Optical mapping of protein-DNA complexes on chromatin fibers. 
  • Orchestrating T-cell receptor α gene assembly through changes in chromatin structure and organization. 
  • Osmotic stress alters chromatin condensation and nucleocytoplasmic transport. 
  • Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas. 
  • Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions. 
  • Peroxide-mediated chromatin remodelling of a nuclear factor kappa B site in the mouse inducible nitric oxide synthase promoter. 
  • Phase separation of chromatin and small RNA pathways in plants. 
  • Phospho-MED1-enhanced UBE2C locus looping drives castration-resistant prostate cancer growth. 
  • Phosphorylation by protein kinase CK2 changes the DNA binding properties of the human chromatin protein DEK. 
  • Plakoglobin and High-Mobility Group Box 1 Mediate Intestinal Epithelial Cell Apoptosis Induced by Clostridioides difficile TcdB. 
  • Plant transcription factors - being in the right place with the right company. 
  • Polyspecific reactivity of a murine monoclonal antibody that binds to nuclear matrix-associated, chromatin-bound autoantigens. 
  • Pre-established Chromatin Interactions Mediate the Genomic Response to Glucocorticoids. 
  • Preferential DNA-protein cross-linking by NiCl2 in magnesium-insoluble regions of fractionated Chinese hamster ovary cell chromatin. 
  • Preferential formation and repair of chromium-induced DNA adducts and DNA--protein crosslinks in nuclear matrix DNA. 
  • Profiling the quantitative occupancy of myriad transcription factors across conditions by modeling chromatin accessibility data. 
  • Progesterone Signaling in Endometrial Epithelial Organoids. 
  • Progesterone receptor interacting coregulatory proteins and cross talk with cell signaling pathways. 
  • 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. 
  • Proteomic dissection of LPS-inducible, PHF8-dependent secretome reveals novel roles of PHF8 in TLR4-induced acute inflammation and T cell proliferation. 
  • Quantitative analysis of the chromatin proteome in disease reveals remodeling principles and identifies high mobility group protein B2 as a regulator of hypertrophic growth. 
  • Quasielastic light scattering by biopolymers. Conformation of chromatin multimers. 
  • RCC1, a regulator of mitosis, is essential for DNA replication. 
  • RNA polymerase B (or II) in heat induced puffs of Drosophila polytene chromosomes. 
  • RUNX1 maintains the identity of the fetal ovary through an interplay with FOXL2. 
  • Rapid and reversible epigenome editing by endogenous chromatin regulators. 
  • Recent reconfiguration of an ancient developmental gene regulatory network in Heliocidaris sea urchins. 
  • Reciprocal Regulation of the Cardiac Epigenome by Chromatin Structural Proteins Hmgb and Ctcf: IMPLICATIONS FOR TRANSCRIPTIONAL REGULATION. 
  • Recovering ensembles of chromatin conformations from contact probabilities. 
  • Redefining the relationship between sperm deoxyribonucleic acid fragmentation as measured by the sperm chromatin structure assay and outcomes of assisted reproductive techniques. 
  • Regulation of T cell receptor alpha gene assembly by a complex hierarchy of germline Jalpha promoters. 
  • Regulation of T cell receptor beta allelic exclusion at a level beyond accessibility. 
  • Regulation of TCR delta and alpha repertoires by local and long-distance control of variable gene segment chromatin structure. 
  • Regulation of TCRβ allelic exclusion by gene segment proximity and accessibility. 
  • Regulation of chromatin accessibility and Zic binding at enhancers in the developing cerebellum. 
  • Regulation of chromatin accessibility for V(D)J recombination. 
  • Regulation of the TCRalpha repertoire by the survival window of CD4(+)CD8(+) thymocytes. 
  • Relationship between nuclease-hypersensitive sites and meiotic recombination hot spot activity at the HIS4 locus of Saccharomyces cerevisiae. 
  • Relationship of disease-associated gene expression to cardiac phenotype is buffered by genetic diversity and chromatin regulation. 
  • Repair versus Checkpoint Functions of BRCA1 Are Differentially Regulated by Site of Chromatin Binding. 
  • RoboCOP: jointly computing chromatin occupancy profiles for numerous factors from chromatin accessibility data. 
  • Roles of ATM and NBS1 in chromatin structure modulation and DNA double-strand break repair. 
  • Sex dependent glial-specific changes in the chromatin accessibility landscape in late-onset Alzheimer's disease brains. 
  • Shaping Chromatin States in Prostate Cancer by Pioneer Transcription Factors. 
  • Shift in nucleosome populations during embryogenesis: microheterogeneity in nucleosomes during development of the sea urchin embryo. 
  • Single nucleus multi-omics regulatory landscape of the murine pituitary. 
  • Single-cell CUT&Tag analysis of chromatin modifications in differentiation and tumor progression. 
  • Single-cell chromatin profiling of the primitive gut tube reveals regulatory dynamics underlying lineage fate decisions. 
  • Single-molecule FRET reveals multiscale chromatin dynamics modulated by HP1α. 
  • Site-specific silencing of regulatory elements as a mechanism of X inactivation. 
  • Social status alters chromatin accessibility and the gene regulatory response to glucocorticoid stimulation in rhesus macaques. 
  • Somatic mutations in the chromatin remodeling gene ARID1A occur in several tumor types. 
  • Spatial organization of the mammalian genome surveillance machinery in response to DNA strand breaks. 
  • Spatiotemporal regulation of Aurora B recruitment ensures release of cohesion during C. elegans oocyte meiosis. 
  • Sperm DNA methylation altered by THC and nicotine: Vulnerability of neurodevelopmental genes with bivalent chromatin. 
  • Stacking the DEK: from chromatin topology to cancer stem cells. 
  • Stem cell differentiation indicated by noninvasive photonic characterization and fractal analysis of subcellular architecture. 
  • Structural and functional dynamics of human centromeric chromatin. 
  • Structural differences in the chromatin from compartmentalized cells of the sea urchin embryo: differential nuclease accessibility of micromere chromatin. 
  • Structural studies on Neurospora RNA polymerases and associated proteins. 
  • Subcellular localization of the human proto-oncogene protein DEK. 
  • Subtype-specific 3D genome alteration in acute myeloid leukaemia. 
  • Synaptic, transcriptional and chromatin genes disrupted in autism. 
  • Synthetic transcription factors for cell fate reprogramming. 
  • Systems proteomics of cardiac chromatin identifies nucleolin as a regulator of growth and cellular plasticity in cardiomyocytes. 
  • T cell development: better living through chromatin. 
  • T-cell receptor α enhancer is inactivated in αβ T lymphocytes. 
  • Targeted inhibition of V(D)J recombination by a histone methyltransferase. 
  • Tcra gene recombination is supported by a Tcra enhancer- and CTCF-dependent chromatin hub. 
  • Techniques used to study transcription on chromatin templates. 
  • Temporal association of ORCA/LRWD1 to late-firing origins during G1 dictates heterochromatin replication and organization. 
  • The Chromatin State during Gonadal Sex Determination. 
  • The DEK protein--an abundant and ubiquitous constituent of mammalian chromatin. 
  • The Drosophila BEAF insulator protein interacts with the polybromo subunit of the PBAP chromatin remodeling complex. 
  • The Ess1 prolyl isomerase is linked to chromatin remodeling complexes and the general transcription machinery. 
  • The Estrogen Receptor α Cistrome in Human Endometrium and Epithelial Organoids. 
  • The Hypersaline Archaeal Histones HpyA and HstA Are DNA Binding Proteins That Defy Categorization According to Commonly Used Functional Criteria. 
  • The Nuclear Pore Complex in Cell Type-Specific Chromatin Structure and Gene Regulation. 
  • The RNA binding protein DND1 is elevated in a subpopulation of pro-spermatogonia and targets chromatin modifiers and translational machinery during late gestation. 
  • The RNA-binding protein DND1 acts sequentially as a negative regulator of pluripotency and a positive regulator of epigenetic modifiers required for germ cell reprogramming. 
  • The SAF-box domain of chromatin protein DEK. 
  • The Ties that Bind (the Igh Locus). 
  • The accessible chromatin landscape of the human genome. 
  • The bromodomain protein Brd4 insulates chromatin from DNA damage signalling. 
  • The compact chromatin structure of a Ty repeated sequence suppresses recombination hotspot activity in Saccharomyces cerevisiae. 
  • The conserved bromo-adjacent homology domain of yeast Orc1 functions in the selection of DNA replication origins within chromatin. 
  • The deacetylase Sir2 from the yeast Clavispora lusitaniae lacks the evolutionarily conserved capacity to generate subtelomeric heterochromatin. 
  • The effects of exposure of articular cartilage to air. A histochemical and ultrastructural investigation. 
  • The evolving metabolic landscape of chromatin biology and epigenetics. 
  • The forkhead transcription factor FoxI1 remains bound to condensed mitotic chromosomes and stably remodels chromatin structure. 
  • The genetics of autoantibody production in MRL/lpr lupus mice. 
  • The genomic landscape of mantle cell lymphoma is related to the epigenetically determined chromatin state of normal B cells. 
  • The histone modification pattern of active genes revealed through genome-wide chromatin analysis of a higher eukaryote. 
  • The human oncoprotein and chromatin architectural factor DEK counteracts DNA replication stress. 
  • The impact of cellular metabolism on chromatin dynamics and epigenetics. 
  • The nuclear DEK interactome supports multi-functionality. 
  • The process of kinetochore assembly in yeasts. 
  • The tor pathway regulates gene expression by linking nutrient sensing to histone acetylation. 
  • Three amphioxus reference genomes reveal gene and chromosome evolution of chordates. 
  • Three-tiered role of the pioneer factor GATA2 in promoting androgen-dependent gene expression in prostate cancer. 
  • Thyroid carcinoma showing thymus-like differentiation (CASTLE): case report with cytomorphology and review of the literature. 
  • Tissue- and strain-specific effects of a genotoxic carcinogen 1,3-butadiene on chromatin and transcription. 
  • Topology and control of the cell-cycle-regulated transcriptional circuitry. 
  • Torsional behavior of chromatin is modulated by rotational phasing of nucleosomes. 
  • Transactivation functions facilitate the disruption of chromatin structure by estrogen receptor derivatives in vivo. 
  • Transcribing Memories in Genome Architecture. 
  • Transcribing the connectome: roles for transcription factors and chromatin regulators in activity-dependent synapse development. 
  • Transcription Factor-Directed Re-wiring of Chromatin Architecture for Somatic Cell Nuclear Reprogramming toward trans-Differentiation. 
  • Transcription factors are required for the meiotic recombination hotspot at the HIS4 locus in Saccharomyces cerevisiae. 
  • Transcription initiation patterns indicate divergent strategies for gene regulation at the chromatin level. 
  • Transcriptome and regulatory maps of decidua-derived stromal cells inform gene discovery in preterm birth. 
  • Transcriptome regulation and chromatin occupancy by E2F3 and MYC in mice. 
  • Transcriptome-wide association study of schizophrenia and chromatin activity yields mechanistic disease insights. 
  • Ultrastructure and x-ray microanalysis of macrophages exposed to cadmium chloride. 
  • VHL Deficiency Drives Enhancer Activation of Oncogenes in Clear Cell Renal Cell Carcinoma. 
  • Variable Extent of Lineage-Specificity and Developmental Stage-Specificity of Cohesin and CCCTC-Binding Factor Binding Within the Immunoglobulin and T Cell Receptor Loci. 
  • Variation in DNA-Damage Responses to an Inhalational Carcinogen (1,3-Butadiene) in Relation to Strain-Specific Differences in Chromatin Accessibility and Gene Transcription Profiles in C57BL/6J and CAST/EiJ Mice. 
  • X-chromosome hyperactivation in mammals via nonlinear relationships between chromatin states and transcription. 
  • c-Maf regulates the plasticity of group 3 innate lymphoid cells by restraining the type 1 program. 
  • p45 NF-E2 regulates expression of thromboxane synthase in megakaryocytes. 
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  Keywords of People

  • Arya, Gaurav, Professor in the Thomas Lord Department of Mechanical Engineering and Materials Science, Pratt School of Engineering
  • Berchuck, Andrew, James M. Ingram Distinguished Professor of Gynecologic Oncology, Obstetrics and Gynecology, Gynecologic Oncology
  • Floyd, Scott Richard, Gary Hock and Lyn Proctor Associate Professor of Radiation Oncology, Pharmacology & Cancer Biology
  • Gordan, Raluca Mihaela, Associate Professor in Biostatistics & Bioinformatics, Computer Science
  • Hartemink, Alexander J., Professor in the Department of Computer Science, Biology
  • Krangel, Michael S., George Barth Geller Distinguished Professor of Immunology, Integrative Immunobiology
  • McDonnell, Donald Patrick, Glaxo-Wellcome Distinguished Professor of Molecular Cancer Biology, in the School of Medicine, Cell Biology
  • Perez Arques, Carlos, Postdoctoral Associate, Molecular Genetics and Microbiology
  • Reddy, Timothy E, Associate Professor of Biostatistics & Bioinformatics,, Molecular Genetics and Microbiology
  • Sullivan, Beth Ann, Professor of Molecular Genetics and Microbiology, Duke Science & Society
  • Wax, Adam P., Professor of Biomedical Engineering, Biomedical Engineering
  • Wray, Gregory Allan, Professor of Biology, Evolutionary Anthropology