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Browsing by Subject "Chromatin"
Now showing items 1-20 of 24
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A discrete chromatin loop in the mouse Tcra-Tcrd locus shapes the TCRδ and TCRα repertoires.
(Nat Immunol, 2015-10)The locus encoding the T cell antigen receptor (TCR) α-chain and δ-chain (Tcra-Tcrd) undergoes recombination of its variable-diversity-joining (V(D)J) segments in CD4(-)CD8(-) double-negative thymocytes and CD4(+)CD8(+) ... -
Chromatin accessibility mapping identifies mediators of basal transcription and retinoid-induced repression of OTX2 in medulloblastoma.
(PLoS One, 2014)Despite an emerging understanding of the genetic alterations giving rise to various tumors, the mechanisms whereby most oncogenes are overexpressed remain unclear. Here we have utilized an integrated approach of genomewide ... -
Chromatin Determinants of the Eukaryotic DNA Replication Program
(2011)The accurate and timely replication of eukaryotic DNA during S-phase is of critical importance for the cell and for the inheritance of genetic information. Missteps in the replication program can activate cell cycle checkpoints ... -
Chromatin Modulatory Proteins and Olfactory Receptor Signaling in the Refinement and Maintenance of Fruitless Expression in Olfactory Receptor Neurons.
(PLoS Biol, 2016-04)During development, sensory neurons must choose identities that allow them to detect specific signals and connect with appropriate target neurons. Ultimately, these sensory neurons will successfully integrate into appropriate ... -
Chromatin-based Reprogramming of Courtship Regulators With Social Experience
(2021)Organisms are presented with a wide variety of environmental stimuli and must interpret and respond to these cues in to perform a wide variety of behaviors, such as foraging, mating, fleeing, and fighting. The ability of ... -
Chromatin: bind at your own RSC.
(Curr Biol, 2011-03-22)Recent work has identified a novel RSC-nucleosome complex that both strongly phases flanking nucleosomes and presents regulatory sites for ready access. These results challenge several widely held views. -
Differential chromatin accessibility in peripheral blood mononuclear cells underlies COVID-19 disease severity prior to seroconversion.
(Scientific reports, 2022-07-09)SARS-CoV-2 infection triggers profound and variable immune responses in human hosts. Chromatin remodeling has been observed in individuals severely ill or convalescing with COVID-19, but chromatin remodeling early in disease ... -
Epstein-Barr virus infection phenocopies apoptosis regulation in germinal center B cells
(2019)The Epstein-Barr virus (EBV) is a ubiquitous human pathogen that infects more than >95% of the global adult population. In immunocompetent individuals, EBV infection is asymptomatic and takes place in the oral cavity, where ... -
Explicit DNase sequence bias modeling enables high-resolution transcription factor footprint detection.
(Nucleic Acids Res, 2014-10-29)DNaseI footprinting is an established assay for identifying transcription factor (TF)-DNA interactions with single base pair resolution. High-throughput DNase-seq assays have recently been used to detect in vivo DNase footprints ... -
Functional epialleles at an endogenous human centromere.
(Proc Natl Acad Sci U S A, 2012-08-21)Human centromeres are defined by megabases of homogenous alpha-satellite DNA arrays that are packaged into specialized chromatin marked by the centromeric histone variant, centromeric protein A (CENP-A). Although most human ... -
Genome-Wide Dynamics of Chromatin Maturation Following DNA Replication
(2018)All DNA-templated events, including replication and gene transcription, occur in the context of the local chromatin environment. The passage of the replication machinery results in disassembly of chromatin, which must be ... -
Genome-wide Footprinting Uncovers Epigenetic Regulatory Paradigms by Revealing the Chromatin Occupancy Landscape
(2015)<p>Eukaryotic genomes have extensive flexibility and plasticity to modify transcription and replication programs, yielding a myriad of differentiated cell types and survival mechanisms to adverse environmental conditions. ... -
Genome-wide identification of autosomal genes with allelic imbalance of chromatin state.
(PloS one, 2017-01)In mammals, monoallelic gene expression can result from X-chromosome inactivation, genomic imprinting, and random monoallelic expression (RMAE). Epigenetic regulation of RMAE is not fully understood. Here we analyze allelic ... -
Genomic and functional variation of human centromeres.
(Experimental cell research, 2020-04)Centromeres are central to chromosome segregation and genome stability, and thus their molecular foundations are important for understanding their function and the ways in which they go awry. Human centromeres typically ... -
Genomic size of CENP-A domain is proportional to total alpha satellite array size at human centromeres and expands in cancer cells.
(Chromosome Res, 2011-05)Human centromeres contain multi-megabase-sized arrays of alpha satellite DNA, a family of satellite DNA repeats based on a tandemly arranged 171 bp monomer. The centromere-specific histone protein CENP-A is assembled on ... -
Interactions of chromatin context, binding site sequence content, and sequence evolution in stress-induced p53 occupancy and transactivation.
(PLoS Genet, 2015-01)Cellular stresses activate the tumor suppressor p53 protein leading to selective binding to DNA response elements (REs) and gene transactivation from a large pool of potential p53 REs (p53REs). To elucidate how p53RE sequences ... -
Mcm10 and And-1/CTF4 recruit DNA polymerase alpha to chromatin for initiation of DNA replication.
(Genes Dev, 2007-09-15)The MCM2-7 helicase complex is loaded on DNA replication origins during the G1 phase of the cell cycle to license the origins for replication in S phase. How the initiator primase-polymerase complex, DNA polymerase alpha ... -
Mechanisms of specificity in neuronal activity-regulated gene transcription.
(2012)In the nervous system, activity-regulated gene transcription is one of the fundamental processes responsible for orchestrating proper brain development–a process that in humans takes over 20 years. Moreover, activity-dependent ... -
Postmitotic Dynamics in Chromatin Modification and Regulatory Topology Underlie Cerebellar Granule Maturation
(2023)Neurons are remarkably long-lived cells that are born early on in development and maintained over the lifespan of an organism. Their birth is followed by their iterative maturation into functional neurons that can participate ... -
Progesterone Signaling in Endometrial Epithelial Organoids.
(Cells, 2022-05)For pregnancy to be established, uterine cells respond to the ovarian hormones, estrogen, and progesterone, via their nuclear receptors, the estrogen receptor (ESR1) and progesterone receptor (PGR). ESR1 and PGR regulate ...
