chromatin organization
Predicting chromatin organization using histone marks
... We define hubs and show that they mark critical regula- tory regions essential in human development and dis- ease. Histone marks are highly effective in predicting hubs and TAD boundaries. H3K4me1 is the most in- ...
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Analyzing the 3D chromatin organization coordinating with gene expression regulation in B-cell lymphoma
... satisfactory chromatin organization structures by finding very simi- lar chromatin compartment domains between pro-B cell and lymphoma using heterogeneous data ...
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Adenovirus 5 E1A Interacts with E4orf3 To Regulate Viral Chromatin Organization
... Analysis of viral fitness showed significant reduction in the expression of viral genes during infection with mutant Ad5.Δ13-15, particularly E1, E2, and E3 transcriptional units (Fig. 5A). This was caused, at least in ...
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Barrier-to-Autointegration Factor (BAF) involvement in prelamin A-related chromatin organization changes
... several chromatin modifying proteins have been identified among BAF binding partners [8], [9], [19], it is conceivable that the effects on chromatin organization caused by prelamin A could ...
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Restriction of Retrotransposon Mobilization in Schizosaccharomyces pombe by Transcriptional Silencing and Higher-Order Chromatin Organization
... subnuclear organization of Tf2s in the control of their ...this organization genome function is be- coming increasingly apparent (Nunez et ...of organization as they are clustered into bodies that ...
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Defective DNA repair and chromatin organization in patients with quiescent systemic lupus erythematosus
... efficiency. Chromatin at the N-ras locus was more condensed in SLE than controls, while treatment with the histone deacetylase inhibitor vorinostat resulted in hyperacetylation of histone H4, chromatin ...
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Migration through a small pore disrupts inactive chromatin organization in neutrophil-like cells
... and chromatin remodeling pro- teins including yes-associated protein (YAP)/ transcription coactivator with PDZ binding domain (TAZ) [29] and the chromatin modifier histone deacety- lase 3 (HDAC3) ...force, ...
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Insights into Dynamic Mitotic Chromatin Organization Through the NIMA Kinase Suppressor SonC, a Chromatin-Associated Protein Involved in the DNA Damage Response
... In A. nidulans, the nucleolus resides in one-half of the nucleus that does not contain much chromatin decorated with H1 (Ukil et al. 2009), suggesting that the SonC pro- jection is potentially associated with the ...
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Glucocorticoid receptor and nuclear factor kappa b affect three dimensional chromatin organization
... the chromatin state and three-dimensional (3D) organization, we first performed chromatin immunoprecipitation followed by deep sequencing (ChIP-seq) for GR, P300, epigenetic marks (H3K27ac, H3K4me3, ...
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A Non-Canonical Role for Choline Acetyltransferase in Chromatin Organization and the Response to Beta-Amyloid
... of organization of chromatin is the ability to have state-dependent dynamic regulation of chromatin ...the chromatin loops created by chromatin organizers and results in locus-specific ...
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Genetic and physical interactions between yeast RGR1 and SIN4 in chromatin organization and transcriptional regulation.
... In contrast to these results indicat- ing that SIN4 functions as a negative transcriptional regulator, sin4 mutants are defective for the transcrip- tional activation of a numb[r] ...
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Higher-Order Chromatin Organization in Hematopoietic Transcription
... and chromatin states in the ...induced chromatin looping. To manipulate chromatin loop formation, we employed artificial zinc fingers (ZF) to tether Ldb1 to the &beta-globin promoter in GATA1 ...
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Chromatin organization changes during the establishment and maintenance of the postmitotic state
... What is the function of heterochromatin clustering? When we delay or bypass cell cycle exit, we visibly disrupt heterochromatin clustering. We find that this leads to very mild effects on the expression of only a small ...
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Genomes in space and time : insights into the functional three dimensional organization of prokaryotic and eukaryotic genomes in response to environmental stimuli and cell cycle progression : a thesis presented in partial fulfilment of the requirements for the degree of Doctorate in Philosophy in Genetics at Massey University, Albany, New Zealand
... The organization of eukaryotic and presumably also bacterial genomes has been proposed to manifest through three hierarchical levels of organization: 1) The organization of chromatin - a DNA ...
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Loop Structures and Barrier Elements from D melanogaster 87А7 Heat Shock Locus
... loop chromatin organization can logically explain some experimental ...of chromatin locus 87A7 results, chromosomal binding sites with the nuc- lear envelope, short complementary ...
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Genome-Wide Chromatin Structure Changes During Adipogenesis and Myogenesis
... high-throughput chromatin conformation capture (Hi-C) technology enables us to explore the spatial architecture of genomes, which is increasingly considered an important regulator of gene ...(3D) chromatin ...
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Diverse architectural properties of Sso10a proteins: Evidence for a role in chromatin compaction and organization
... Sso10a proteins are small DNA-binding proteins expressed by the crenarchaeal model organism Sulfolobus solfataricus. Based on the structure of Sso10a1, which contains a winged helix-turn-helix motif, it is believed that ...
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Estrogen induced chromatin decondensation and nuclear re organization linked to regional epigenetic regulation in breast cancer
... higher-order chromatin organization is more generally linked to the coordinate dysregulation of genomic regions in breast cancer and whether this is associated with tumor subtype, we have identified re- ...
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The chicken erythrocyte epigenome
... the organization and function of a vertebrate genome ...chromosomal organization of genes, the human genome is closer to the chicken than to ...functional organization of the chicken polychromatic ...
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Unusual chromatin status and organization of the inactive X chromosome in murine trophoblast giant cells
... In the embryo proper, XCI is believed to be extremely stable due to multiple epigenetic marks that include chromatin modifications and DNA methylation (Csankovszki et al., 2001), as well as nuclear ...
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