CCCTC-Binding factor (CTCF)
The relationship between transcription initiation RNAs and CCCTC-binding factor (CTCF) localization
... conserved CCCTC-binding factor (CTCF) binding sites ...genome-wide. CTCF sites were parsed to (i) exclude any that mapped within 500 bp of a TSSs or overlapped repeat masker, ...
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A Chromatin Insulator-Like Element in the Herpes Simplex Virus Type 1 Latency-Associated Transcript Region Binds CCCTC-Binding Factor and Displays Enhancer-Blocking and Silencing Activities
... clustered CTCF (CCCTC-binding factor) motifs, (ii) CTCF motif clusters similar to those in HSV-1 are conserved in other alphaherpesviruses, (iii) CTCF binds to these motifs on ...
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CCCTC binding factor recruitment to the early region of the human papillomavirus type 18 genome regulates viral oncogene expression
... prevent CTCF binding has demonstrated that CTCF determines latency in these viruses by blocking epigenetic silencing of latency-associated promoter ele- ments and mediating long-range interactions ...
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CCCTC-Binding Factor Recruitment to the Early Region of the Human Papillomavirus 18 Genome Regulates Viral Oncogene Expression
... (21), CTCF binding to the E2 ORF could affect splicing of the early transcripts and viral oncoprotein ...⌬ CTCF organotypic raft ...⌬ CTCF HPV18 lines were fixed at day 14, and sections were ...
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CCCTC Binding Factor Acts as a Heterochromatin Barrier on Herpes Simplex Viral Latent Chromatin and Contributes to Poised Latent Infection
... a CTCF-specific antibody, and we quantified the immunoprecipitated DNA sequences by using quantitative PCR (qPCR) with primers specific to the LAT promoter, LAT intron, and ICP0 promoter ...putative ...
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Common genetic variation and novel loci associated with volumetric mammographic density
... gion binding CCCTC-binding factor (CTCF) in HMECs and MCF-7 cells, as well as GATA3 in MCF-7 ...cells. CTCF is a transcription factor that regulates a wide range of genes ...
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Reproducible inference of transcription factor footprints in ATAC seq and DNase seq datasets using protocol specific bias modeling
... scription factor footprinting, we first focused on CCCTC binding factor (CTCF), a factor with a well-known, high information content binding site with substantial ...
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Epigenetic Deregulation of the LMP1/LMP2 Locus of Epstein-Barr Virus by Mutation of a Single CTCF-Cohesin Binding Site
... The CCCTC-binding factor CTCF has been implicated in mediating long-distance DNA interactions and forming gene hubs important for gene regulation ...(24–28). CTCF is a nuclear ...
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HTLV 1 CTCF binding site is dispensable for in vitro immortalization and persistent infection in vivo
... understood. CCCTC‑binding factor (CTCF) is an 11‑zinc finger, sequence‑specific, DNA‑binding protein with thousands of binding sites throughout mammalian ...genomes. CTCF ...
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The lncRNA Firre anchors the inactive X chromosome to the nucleolus by binding CTCF and maintains H3K27me3 methylation
... protein CTCF (CCCTC binding factor). CTCF has been implicated in diverse functions through- out the genome, including control of transcription, pro- moter/enhancer interactions, ...
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Epstein-Barr Virus Rta-Mediated Accumulation of DNA Methylation Interferes with CTCF Binding in both Host and Viral Genomes
... of CCCTC-binding factor (CTCF), and (iii) having at least one Rta binding ...Rta binding accumulated CpG methylation and de- creased CTCF occupancy in the regulatory ...
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DNA methylation at the Igf2/H19 imprinting control region is associated with cerebellum mass in outbred mice
... methylation-sensitive CCCTC- binding factor (CTCF) binding-sites mediating the as- sembly of a chromatin insulator that blocks interactions between the Igf2 promoter and enhancers ...
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The PinkThing for analysing ChIP profiling data in their genomic context
... Transcription factor (TF) binding sites can be identified in vivo using the emerging technologies for ChIP profiling such as ChIP-on-chip and ...TF binding sites, which subsequently have to be ...
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CTCF and cellular heterogeneity
... for CTCF mediated promoter-enhancer ...intra-domain CTCF binding sites are frequently found in enhancer regions [12, 14, ...51]. CTCF binds and brings distal enhancers, via interaction with ...
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DNA fragments binding CTCF in vitro and in vivo are capable of blocking enhancer activity
... Two basic approaches have been proposed to identify many potential genomic insulators in one experiment. One approach is based on the ChIP-on-chip or ChIP-seq techniques with antibodies to known insulator-binding ...
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CTCF Binding to the First Intron of the Major Immediate Early (MIE) Gene of Human Cytomegalovirus (HCMV) Negatively Regulates MIE Gene Expression and HCMV Replication
... elevated CTCF levels on HCMV MIE gene expres- sion, we assayed the effects of overexpression of CTCF on the MIE gene locus in transient-transfection assays with plasmid ...of CTCF expression vector ...
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PARP1 Stabilizes CTCF Binding and Chromatin Structure To Maintain Epstein-Barr Virus Latency Type
... marks, CTCF, and DNase hypersensitivity sites, supporting the idea that CTCF PARyla- tion could preferentially associate with active chromatin marks in the EBV genome ...of CTCF as an active ...
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CTCF modulates allele specific sub TAD organization and imprinted gene activity at the mouse Dlk1 Dio3 and Igf2 H19 domains
... all). CTCF peaks in PR8 and AK2 ESCs were called if 4 con- secutive 50 bp bins had a minimum value of 20 in at least 1 cell type, followed by extension of 1 bin left and right (Additional file ...Differential ...
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The Insulator Protein CTCF Binding Sites in the orf73/LANA Promoter Region of Herpesvirus Saimiri Are Involved in Conferring Episomal Stability in Latently Infected Human T Cells
... in CTCF function with regard to the establishment of intrachromosomal loop formation ...consensus binding sequence with CTCF and colocalize with CTCF at many sites (32, 42, ...to CTCF ...
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Regulation of Epstein-Barr Virus Latency Type by the Chromatin Boundary Factor CTCF
... that CTCF, a chromatin boundary factor with well-established enhancer-blocking activity, binds to EBV sequences between the OriP and the RBP-J response elements of the C promoter (Cp) and regulates ...
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