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ChromatinChromatin Assembly and DisassemblyHistonesChromatin ImmunoprecipitationNucleosomesMaterials TestingChromosomal Proteins, Non-HistoneAcetylationMicrococcal NucleaseTranscription, GeneticPromoter Regions, GeneticCell NucleusTranscription FactorsChromatin Assembly Factor-1DNASex ChromatinDNA-Binding ProteinsNuclear ProteinsHeterochromatinEpigenesis, GeneticProtein BindingMethylationDeoxyribonuclease IGene SilencingGene Expression RegulationRepressor ProteinsHistone DeacetylasesHistone AcetyltransferasesCell LineChromosomesHeLa CellsMolecular Sequence DataSaccharomyces cerevisiae ProteinsBinding SitesSaccharomyces cerevisiaeBase SequenceDental MaterialsHistone-Lysine N-MethyltransferaseDNA MethylationBiocompatible MaterialsDNA ReplicationLysineCell Cycle ProteinsTranscriptional ActivationEuchromatinMutationInsulator ElementsMitosisRNA Polymerase IICentromereChickensDrosophila ProteinsDeoxyribonucleasesDNA DamageGene Expression Regulation, FungalEnhancer Elements, GeneticModels, BiologicalSpermatozoaCell Line, TumorDNA HelicasesPolycomb-Group ProteinsModels, GeneticInterphaseAcetyltransferasesProtein Structure, TertiaryHistone ChaperonesMicroscopy, ElectronCells, CulturedCell CycleHigh Mobility Group ProteinsNucleoproteinsAmino Acid SequenceDrosophila melanogasterDNA RepairAdenosine TriphosphatasesHydroxamic AcidsTime FactorsDrosophilaGene Expression Regulation, DevelopmentalDental Impression MaterialsTrans-ActivatorsResponse ElementsMi-2 Nucleosome Remodeling and Deacetylase ComplexChromomycin A3Cell DifferentiationNucleic Acid ConformationRNA InterferenceHistone Deacetylase Inhibitorsp300-CBP Transcription FactorsRNA, MessengerS PhaseTranscription Initiation SiteProtein Processing, Post-TranslationalNuclear EnvelopeCell NucleolusHistone CodeProtaminesHMGN1 ProteinNuclear MatrixRNA, Small Interfering
ImmunoprecipitationChromosomesEpigeneticGenome-wideHigher order chromatin structureProteinsGenomicOpen chromatin regionsDissecting chromatin stateTranscriptionalHistone modificationsNucleosomeActive chromatinAssaysRegulationModificationsMutantsEpigeneticsNucleusGenesAccessibilityGeneticLocusCytoplasmComplex of DNA and proteinHistonesReplication and transcriptionPhenotypeChIPRepressionChromosomeRegulateNucleoliKineticsNucleosomesLociFragmentationSonicationInterphaseComplexesDeveloped to analyzeRolesCTCFOrganizationDisruptionAnalyzeDynamicsGene transcriptionCrucialLandscapeFluorescenceInterestinglyStructureVivoMethodsFundamentalRegionsPromoter
Immunoprecipitation10
Chromosomes10
Epigenetic11
  • Para -sulphonato-calix[4]arene, SC4, known for epigenetic activity by interacting specifically with the lysine groups of histone proteins, was studied for its effect on an artificial chromatin. (nature.com)
  • Chromatin remodeling is important for the epigenetic reprogramming of human primordial germ cells. (nature.com)
  • Although the genome-wide histone modification landscapes of mouse in vivo germ cells and in vitro PGCLCs have been profiled and several germline-specific properties of epigenetic reprogramming have been revealed, the study of genome-scale chromatin states in human FGCs is still challenging, due to the scarcity of materials and technical difficulties. (nature.com)
  • Uncoupling DNA replication from CENP-A synthesis suggests that regulated chromatin assembly or remodeling could play a role in epigenetic centromere propagation. (rupress.org)
  • Epigenetic modification of the structural proteins in chromatin via methylation and acetylation also alters local chromatin structure and therefore gene expression. (wikipedia.org)
  • Such dynamic regulation is, in part, achieved through epigenetic modifications and selective incorporation of histone variants into chromatin. (biomedcentral.com)
  • Our findings propose epigenetic regulation of chromatin landscape as a critical factor in the rapid astrocyte response to dopamine. (jneurosci.org)
  • However, it is not clear whether changes in these epigenetic marks are causative regulatory factors in chromatin structure changes or whether they play a mainly reinforcing or maintenance role. (silverchair.com)
  • These findings provide direct evidence that the epigenetic histone tail modification of H3S10 phosphorylation at interphase can function as a causative regulator of higher-order chromatin structure in Drosophila in vivo. (silverchair.com)
  • Epigenetic mechanisms underlying GBM tumor biology, including histone modifications, DNA methylation, and chromatin architecture, have become an attractive target for novel drug discovery strategies. (biomedcentral.com)
  • Other resistance mechanisms include DNA repair, suppression of oncogene activation, tumor-suppressor genes, epigenetic stabilization of chromatin structure, and apoptosis. (the-scientist.com)
Genome-wide7
  • Here we use nucleosome occupancy and methylation sequencing method to analyze both the genome-wide chromatin accessibility and DNA methylome at a series of crucial time points during fetal germ cell development in both human and mouse. (nature.com)
  • It is optimized for ChIP reactions with chromatin from 10 6 cells (up to ~50 μg DNA), and can also be scaled up (or several preparations pooled) to accommodate 10 8 cells for genome-wide binding studies in ChIP-chip and ChIP-Seq applications. (sigmaaldrich.com)
  • Chromatin states have initially been annotated in a spatial manner genome-wide, by segmenting the genome into distinct states based on histone modification ChIP-seq data from, for instance, one cell line, which represents an unsupervised learning problem. (biomedcentral.com)
  • However, the genome-wide chromatin accessibility has been only reported in limited tissue types in pigs. (biomedcentral.com)
  • Here we report a genome-wide landscape of chromatin accessibility of 20 tissues in two female pigs at ages of 6 months using ATAC-seq, and identified 557,273 merged peaks, which greatly expanded the pig regulatory element repository. (biomedcentral.com)
  • The advent of the assay for transposase-accessible chromatin using sequencing (ATAC-seq) has shown great potential as a leading method for analyzing the genome-wide profiling of chromatin accessibility. (molcells.org)
  • In this study, we present a genome-wide chromatin accessibility profile of 44 liver samples spanning the full histological spectrum of nonalcoholic fatty liver disease (NAFLD). (molcells.org)
Higher order chromatin structure4
  • In this study, we investigated how higher-order chromatin structure modulates differential expression of the human INK4b-ARF-INK4a locus during progenitor cell differentiation, cellular ageing and senescence of cancer cells. (biomedcentral.com)
  • Developmentally regulated EZH2 levels are one of the factors that can determine the higher order chromatin structure and expression pattern of the INK4b-ARF-INK4a locus, coupling human progenitor cell differentiation to proliferation control. (biomedcentral.com)
  • Histones are subject to numerous post-translational modifications that correlate with the state of higher-order chromatin structure and gene expression. (silverchair.com)
  • Here we show, using a LacI-tethering system, that JIL-1 mediated ectopic histone H3S10 phosphorylation is sufficient to induce a change in higher-order chromatin structure from a condensed heterochromatin-like state to a more open euchromatic state. (silverchair.com)
Proteins17
  • Our results provide new information on the chromatin engagement of two central players in transcription elongation and emphasize the importance of the nucleosome core as a hub for proteins that regulate chromatin during transcription. (biorxiv.org)
  • In general, there are three levels of chromatin organization: DNA wraps around histone proteins, forming nucleosomes and the so-called beads on a string structure (euchromatin). (wikipedia.org)
  • Histone proteins are the basic packers and arrangers of chromatin and can be modified by various post-translational modifications to alter chromatin packing (histone modification). (wikipedia.org)
  • An imbalance of charge within the polymer causes electrostatic repulsion between neighboring chromatin regions that promote interactions with positively charged proteins, molecules, and cations. (wikipedia.org)
  • Polycomb-group proteins play a role in regulating genes through modulation of chromatin structure. (wikipedia.org)
  • ChIP utilizes antibodies that selectively recognize and bind proteins, including histones, histone modifications, transcription factors, and cofactors, to provide information about chromatin states and gene transcription. (cellsignal.com)
  • ChIP can be used to answer a multitude of scientific questions involving the interaction of proteins and chromatin. (cellsignal.com)
  • In N-ChIP, no fixing agent is used to crosslink proteins to the chromatin. (cellsignal.com)
  • The advantage of X-ChIP is that it can be used with histone and non-histone proteins and generally requires less cellular starting material than N-ChIP. (cellsignal.com)
  • ChIP has also been used to determine the temporal regulation underlying the occupation of the particular chromatin locus by multiple proteins. (sigmaaldrich.com)
  • These LRC are the signature of the DNA-histone proteins interactions within the nucleosomes, the basic units for DNA compaction in eukaryotic cell nuclei, that constitute a regulatory factor for accessibility to genetic material. (ens-lyon.fr)
  • DNA is wound up like a spool with proteins in a complex called chromatin. (ca.gov)
  • This occurs by the RNAs talking to proteins that keep chromatin in an active configuration. (ca.gov)
  • Inspired by this, we are interested in understanding how DNA topology is regulated in vivo, e.g. by Topoisomerase, Recombinase and SMC proteins, and while doing so we aim to discover new soft materials. (ed.ac.uk)
  • The microrchidia (MORC) proteins are a family of evolutionarily conserved GHKL-type ATPases involved in chromatin compaction and gene silencing. (biomedcentral.com)
  • We find that MORC proteins compact chromatin and reduce DNA accessibility to transcription factors, thereby repressing gene expression. (biomedcentral.com)
  • We show that MORC proteins compact chromatin and reduce DNA accessibility to TFs, thereby repressing the transcription of stress-responsive genes. (biomedcentral.com)
Genomic3
  • Thus, unlike most genomic chromatin, histone synthesis and assembly are uncoupled from DNA replication at the kinetochore. (rupress.org)
  • However, the chromatin landscape of pig genomic TEs has not been explored yet. (biomedcentral.com)
  • BAF (Brg/Brm-associated factors) complexes play important roles in development and are linked to chromatin plasticity at selected genomic loci. (mpg.de)
Open chromatin regions1
  • We investigated the presence of transposable elements (TEs) in open chromatin regions across all tissues, these included identifications of porcine endogenous retroviruses (PERVs) exhibiting high accessibility in liver and homology of porcine specific virus sequences to universally accessible transposable elements. (biomedcentral.com)
Dissecting chromatin state1
  • Our work offers a comprehensive and high-resolution roadmap for dissecting chromatin state transition dynamics during the epigenomic reprogramming of human and mouse FGCs. (nature.com)
Transcriptional8
  • We subclassified intergenic lncRNAs according to chromatin status at transcriptional initiation regions, defined by relative levels of histone H3K4 mono- and trimethylation. (biomedcentral.com)
  • Lysine trimethylation can either lead to increased transcriptional activity (trimethylation of histone H3 lysine 4) or transcriptional repression and chromatin compaction (trimethylation of histone H3, lysine 9 or lysine 27). (wikipedia.org)
  • Our results provide an evolutionary perspective on H3.3's conserved role in maintaining the transcriptional landscape of cells and on the emergence of specialized chromatin assembly pathways. (biomedcentral.com)
  • However, in many single-gene studies it has become clear that chromatin regulators often do not affect steady-state transcription, but instead are required for normal transcriptional reprogramming by environmental cues. (harvard.edu)
  • Thus, we propose that cytoplasmic UPF1-centric RNA surveillance mechanism could be extended further up to the chromatin-associated UPF1 and co-transcriptional RNA surveillance. (molcells.org)
  • Loss of BAF (mSWI/SNF) complexes causes global transcriptional and chromatin state changes in forebrain development. (mpg.de)
  • Our findings reveal a molecular mechanism mediated by BAF complexes that controls the global transcriptional program and chromatin state in development. (mpg.de)
  • Recent studies revealed that epigenomic alterations, specifically chromatin insulation and DNA loop formation, play a crucial role in establishing and maintaining the GSC transcriptional program. (biomedcentral.com)
Histone modifications4
  • For additional information, see Chromatin variant, Histone modifications in chromatin regulation and RNA polymerase control by chromatin structure. (wikipedia.org)
  • Co-localized combinations of histone modifications ("chromatin states") have been shown to correlate with promoter and enhancer activity. (biomedcentral.com)
  • TimelessFlex clusters time series histone modifications at promoter-enhancer pairs based on Hi-C and it can identify distinct chromatin states at promoter and enhancer feature regions and their changes over time. (biomedcentral.com)
  • Furthermore, by jointly analyzing the substrates (histone mutants) and enzymes (chromatin modifier deletions) we identify specific interactions between histone modifications and their regulators. (harvard.edu)
Nucleosome3
  • By means of Silicon Nano Tweezers (SNTs) the effects on the mechanical properties of λ-phage DNA during interaction with calf thymus nucleosome to form an artificial chromatin analog were measured. (nature.com)
  • The EZ-Zyme Chromatin Prep kit allows ChIP analysis at nucleosome resolution by performing complete or partial digestions with a proprietary enzymatic cocktail to obtain chromatin fragments of on average one to a few nucleosomes in length. (sigmaaldrich.com)
  • The fundamental repeating unit of chromatin is the nucleosome which is composed of two copies each of the four core histones H2A, H2B, H3, and H4 around which about 147 bp of DNA is wrapped [ 1 ]. (biomedcentral.com)
Active chromatin1
  • Here, we report that the loss of BAF155/BAF170 in double-conditional knockout (dcKO) mice eliminates all known BAF subunits, resulting in an overall reduction in active chromatin marks (H3K9Ac), a global increase in repressive marks (H3K27me2/3), and downregulation of gene expression. (mpg.de)
Assays2
  • Chromatin binding assays in yeast and mammalian cells demonstrated that these IN mutants were impaired for the ability to bind chromatin. (biomedcentral.com)
  • Comet and MN assays demonstrated the induction of DNA damage and MN after exposure to all tested materials with the strongest effect seen for CNF. (cdc.gov)
Regulation4
  • Down regulation of EZH2 causes release of the ~35 kb repressive chromatin loop and induction of both INK4a and INK4b , whereas ARF expression remains unaltered. (biomedcentral.com)
  • Although H3.3 has been well studied in metazoans, information regarding the assembly of H3.3 onto chromatin and its possible role in transcription regulation remain poorly documented outside of Opisthokonts. (biomedcentral.com)
  • Together, our dynamic studies provide a rich resource for investigating chromatin regulation, and identify a significant role for the "activating" mark H3K4me3 in gene repression. (harvard.edu)
  • Our findings provide insights into the molecular mechanisms of MORC-mediated chromatin compaction and transcription regulation. (biomedcentral.com)
Modifications3
  • Using camalexin biosynthesis genes as an example, we confirmed that these two modifications were co-localized to form bivalent chromatin. (biorxiv.org)
  • As these modifications occur, the electrostatic environment surrounding the chromatin will flux and the level of chromatin compaction will alter. (wikipedia.org)
  • The RI histone variants have an uneven distribution across the genome, carry specific posttranslational modifications (PTMs), and can affect gene expression by altering the chromatin state [ 3 ]. (biomedcentral.com)
Mutants1
  • Nevertheless, a full understanding of their role in development and chromatin remodeling has been hindered by the absence of mutants completely lacking BAF complexes. (mpg.de)
Epigenetics1
  • The topic of my lecture is skin epigenetics or the story on how chromatin regulators orchestrate skin functions. (hstalks.com)
Nucleus4
  • To isolate possible mechanisms underlying these structural and functional changes, we used whole-genome RNA sequencing and found prominent dopamine-induced enrichment of genes containing the CCCTC-binding factor (CTCF) motif, suggesting involvement of chromatin restructuring in the nucleus. (jneurosci.org)
  • We demonstrated that UPF1 can be localized to the nucleus and predominantly associated with the chromatin. (molcells.org)
  • If the atomic structure of the material is such that the force of attraction between its nucleus and outer electrons is small, little force is required to cause electron loss. (medscape.com)
  • The cells are usually large and polygonal, containing abundant eosinophilic cytoplasm, a large nucleus with open chromatin, a prominent eosinophilic nucleolus, and an occasional intracellular lumina containing red blood cells 1,4-7 . (bvsalud.org)
Genes4
  • The local structure of chromatin during interphase depends on the specific genes present in the DNA. (wikipedia.org)
  • Curiously, it is commonly observed that deletion of a global chromatin regulator affects expression of only a limited subset of genes bound to or modified by the regulator in question. (harvard.edu)
  • Set1-dependent repression of ribosomal genes occurs via distinct pathways for ribosomal protein genes and ribosomal biogenesis genes, which can be separated based on genetic requirements for repression and based on chromatin changes during gene repression. (harvard.edu)
  • While all cells in the body share the same genetic material in DNA, different cell types can turn different genes on or off by controlling the access to DNA. (ca.gov)
Accessibility3
  • The consequences in terms of chromatin accessibility and compaction depend both on the modified amino acid and the type of modification. (wikipedia.org)
  • For example, histone acetylation results in loosening and increased accessibility of chromatin for replication and transcription. (wikipedia.org)
  • Over the past decades, several chromatin accessibility profiling methods including DNase I hypersensitive site sequencing (DNase-seq), micrococcal nuclease sequencing (MNase-seq) and assay for transposase-accessible chromatin using sequencing (ATAC-seq) have been developed. (biomedcentral.com)
Genetic5
  • A chromosome is a long DNA molecule with part or all of the genetic material of an organism. (wikipedia.org)
  • Interphase comprises the gap 1 (G1), synthesis (S), and gap 2 (G2) phases, in which the cell grows and replicates its genetic material. (coursehero.com)
  • During the S phase, the replication of the cell's genetic material, DNA, occurs. (coursehero.com)
  • Most affected individuals are missing a small amount of genetic material, including the KANSL1 gene, from one copy of chromosome 17 . (medlineplus.gov)
  • However, genetic material can be lost or duplicated when the inversion is passed to the next generation. (medlineplus.gov)
Locus3
  • A discrete chromatin loop in the mouse Tcra-Tcrd locus shapes the TCRδ and TCRα repertoires. (duke.edu)
  • Here we identified a chromatin-interaction network in the Tcra-Tcrd locus in double-negative thymocytes that was formed by interactions between binding elements for the transcription factor CTCF. (duke.edu)
  • Our results revealed a chromatin looping mechanism of long-range control and argue against models involving homogeneous spreading of PcG silencers across the INK4b-ARF-INK4a locus. (biomedcentral.com)
Cytoplasm4
  • These findings suggest a novel role of UPF1 in transcription elongation-coupled RNA machinery in the chromatin, as well as in translation-coupled NMD in the cytoplasm. (molcells.org)
  • At higher magnification, the tumor cells showed minimal cytological atypia, scant cytoplasm, fine chromatin, small inconspicuous nucleoli, and rare mitotic figures (Figure 2 ). (hindawi.com)
  • The tumor cells were round to oval with fine chromatin, small inconspicuous nucleoli, indistinct cell borders, and light nongranular cytoplasm. (hindawi.com)
  • Plasmodium parasites are always intracellular, and they demonstrate, if stained correctly, blue cytoplasm with a red chromatin dot. (cdc.gov)
Complex of DNA and protein1
  • Chromatin is a complex of DNA and protein found in eukaryotic cells. (wikipedia.org)
Histones2
Replication and transcription1
  • We have proposed that this specific organization could result from the constraints of accommodating the replication and transcription initiation processes at chromatin level, and reducing head-on collisions between the two machineries. (ens-lyon.fr)
Phenotype2
  • Overall, this study demonstrates that three mutations located in the C-terminal region of the catalytic core domain of HIV-1 IN inhibit the IN-induced lethal phenotype in yeast by inhibiting the binding of IN to the host chromatin. (biomedcentral.com)
  • These results demonstrate that the C-terminal region of the catalytic core domain of HIV-1 IN is important for binding to host chromatin and is crucial for both viral replication and the promotion of the IN-induced lethal phenotype in yeast. (biomedcentral.com)
ChIP7
  • The principle behind ChIP is relatively straightforward and relies on the use of an antibody to isolate, or precipitate, a certain protein, histone, transcription factor, or cofactor and its bound chromatin from a protein mixture that was extracted from cells or tissues. (cellsignal.com)
  • There are 2 types of ChIP techniques that can be carried out depending on the experimental question and the starting material for the experiment: 1) native ChIP (N-ChIP) and 2) crosslinked ChIP (X-ChIP). (cellsignal.com)
  • In X-ChIP, chemical fixatives such as formaldehyde are used to crosslink the protein of interest to the DNA and fragmentation of chromatin is achieved through sonication or nuclease digestion. (cellsignal.com)
  • X-ChIP also minimizes the chances of chromatin protein loss during extraction, allowing for the detection of transient protein interactions. (cellsignal.com)
  • When performing ChIP, chromatin from cells and tissues needs to be fragmented so that it becomes soluble and resolution can be achieved in detecting protein-DNA interaction at specific loci. (sigmaaldrich.com)
  • With the advent of new genomics technologies and improved biological in vitro differentiation systems, time series ChIP-seq data sets have been generated that allow for investigating chromatin states across multiple time points. (biomedcentral.com)
  • 10 ng of chromatin-immunoprecipitated (ChIP) qPCR verified or control DNA, in ≤ 40 μl of water or elution buffer. (neb.com)
Repression2
  • Importantly, we find that chromatin regulators play far more pronounced roles during gene induction/repression than they do in steady-state expression. (harvard.edu)
  • Instead, the `kinase dead' construct had a dominant-negative effect, leading to a disruption of chromatin structure that was associated with a global repression of histone H3S10 phosphorylation levels. (silverchair.com)
Chromosome1
  • Some use the term chromosome in a wider sense, to refer to the individualized portions of chromatin in cells, either visible or not under light microscopy. (wikipedia.org)
Regulate2
  • We believe that the topology and viscoelasticity of DNA and chromatin are important - yet under-explored -- elements that regulate genome function. (ed.ac.uk)
  • The KANSL1 gene provides instructions for making a protein that helps regulate gene activity (expression) by modifying chromatin . (medlineplus.gov)
Nucleoli1
  • The nuclei are pleomorphic, occasionally bizarre, with irregular chromatin and prominent nucleoli. (medscape.com)
Kinetics1
Nucleosomes1
Loci1
  • Our data provides a novel multi-tissues accessible chromatin landscape that serve as an important resource for interpreting regulatory sequences in tissue-specific and conserved biological functions, as well as regulatory variants of loci associated with complex traits in pigs. (biomedcentral.com)
Fragmentation1
  • For example, foaming and overheating associated with sonication can result in protein denaturation or incomplete chromatin fragmentation. (sigmaaldrich.com)
Sonication1
Interphase1
Complexes1
Developed to analyze1
  • Such sequential chromatin states are referred to as "chromatin state trajectories", and only a handful of methods have been developed to analyze these. (biomedcentral.com)
Roles2
  • H3.3 is the ancestral H3 variant with key roles in regulating chromatin states and transcription. (biomedcentral.com)
  • Additionally, HIV-1 IN has been shown to play important roles in several other steps during the viral life cycle, including reverse transcription, nuclear import and chromatin targeting. (biomedcentral.com)
CTCF1
  • Hence, a single CTCF-mediated chromatin loop directly regulated TCRδ diversity and indirectly regulated TCRα diversity. (duke.edu)
Organization2
  • Our findings has provided a new model of gene organization in the human genome, which integrates transcription, replication, and chromatin structure as coordinated determinants of genome architecture. (ens-lyon.fr)
  • Stem cells can choose and commit to different cell fates by carefully rearranging the organization of chromatin. (ca.gov)
Disruption1
  • Disruption of a discrete chromatin loop encompassing the D, J and constant (C) segments of Tcrd allowed a single V segment to frequently contact and rearrange to D and J segments and dominate the adult TCRδ repertoire. (duke.edu)
Analyze1
  • With the advent of time series Hi-C data it is now possible to connect promoters and enhancers and to analyze chromatin state trajectories at promoter-enhancer pairs. (biomedcentral.com)
Dynamics1
Gene transcription1
  • Packaging of eukaryotic genomes into chromatin has wide-ranging effects on gene transcription. (harvard.edu)
Crucial1
  • As chromatin is a highly compartmentalized structure, the temporo-spatial regulations of chromatin-associated factors are crucial for their collective functions in shaping the epigenome. (childrensnational.org)
Landscape1
  • A comprehensive landscape of chromatin states for multiple mammalian tissues is essential for elucidating the molecular mechanism underlying regulatory variants on complex traits. (biomedcentral.com)
Fluorescence1
  • In addition, we utilized fluorescence in situ hybridization to detect the chromatin pan-centromeric signals within the MN. (cdc.gov)
Interestingly1
  • Our results confirmed the overexpression of miR-151-5p and, interestingly, its role in the targeting of SMARCA5, a chromatin remodeler. (oncotarget.com)
Structure3
Vivo1
  • While structural and biochemical studies have shown that the acidic patch controls chromatin factor binding and activity, few studies have elucidated its functions in vivo . (biorxiv.org)
Methods3
  • Methods to extract soluble chromatin from FFPE samples have been developed 3 . (abcam.com)
  • We have also developed new methods to measure the location of open chromatin sites much more rapidly and sensitively than previously possible. (ca.gov)
  • MATERIALS AND METHODS: A systemic search of gene expression profiles of multiple tissues in NSCLC was carried out to determine the expression intensities of traditional fibroblast biomarkers and CAF-secreted protumorigenic cytokines. (cdc.gov)
Fundamental2
  • Dr. Yu's research group aims to answer the fundamental question: How can chromatin-associated molecules be targeted to stop aggressive cancers? (childrensnational.org)
  • We ask fundamental questions in chromatin biology and seek to understand how these multifaceted regulations are dysregulated in human cancers. (childrensnational.org)
Regions4
  • In the repressed state, the PRC-binding regions are in close proximity, while the intervening chromatin harbouring ARF loops out. (biomedcentral.com)
  • We developed an expectation-maximization algorithm to assign promoters and enhancers to each other based on Hi-C interactions and jointly cluster their feature regions into paired chromatin state trajectories. (biomedcentral.com)
  • Mammalian H3.1 and H3.2 are deposited by the heterotrimeric chromatin assembly complex 1 (CAF1), whereas H3.3 is deposited at transcriptionally active regions by the Histone Regulator A (HIRA) complex [ 15 , 16 ]. (biomedcentral.com)
  • In Drosophila phosphorylation of histone H3S10 in euchromatic chromatin regions by the JIL-1 tandem kinase has been implicated in counteracting heterochromatization and gene silencing. (silverchair.com)
Promoter2
  • Changes in chromatin states over multiple time points ("chromatin state trajectories") have previously been analyzed at promoter and enhancers separately. (biomedcentral.com)
  • We present TimelessFlex, a framework for investigating chromatin state trajectories at promoters and enhancers and at promoter-enhancer pairs based on Hi-C information. (biomedcentral.com)