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Comprehensive Identification and Annotation of Cell Type-Specific and Ubiquitous CTCF-Binding Sites in the Human Genome

https://doi.org/10.1371/journal.pone.0041374

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Delineation of DNA replication time zones by fluorescence in situ hybridization.

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CCCTC-binding factor: to loop or to bridge

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Modular structure of a chicken lysozyme silencer: Involvement of an unusual thyroid hormone receptor binding site

inferredcites →https://doi.org/10.1016/j.biolcel.2004.06.004openalex-snapshot

Boundary elements and nuclear organization

inferredcites →https://doi.org/10.1016/j.cell.2005.01.001openalex-snapshot

Genomic Maps and Comparative Analysis of Histone Modifications in Human and Mouse

inferredcites →https://doi.org/10.1016/j.cell.2006.12.048openalex-snapshot

Analysis of the Vertebrate Insulator Protein CTCF-Binding Sites in the Human Genome

inferredcites →https://doi.org/10.1016/j.cell.2007.05.009openalex-snapshot

High-Resolution Profiling of Histone Methylations in the Human Genome

inferredcites →https://doi.org/10.1016/j.cell.2007.05.042openalex-snapshot

A Chromatin Landmark and Transcription Initiation at Most Promoters in Human Cells

inferredcites →https://doi.org/10.1016/j.cell.2007.12.014openalex-snapshot

High-Resolution Mapping and Characterization of Open Chromatin across the Genome

inferredcites →https://doi.org/10.1016/j.cell.2008.02.022openalex-snapshot

Dynamic Regulation of Nucleosome Positioning in the Human Genome

inferredcites →https://doi.org/10.1016/j.cell.2009.06.001openalex-snapshot

CTCF: Master Weaver of the Genome

inferredcites →https://doi.org/10.1016/j.devcel.2004.10.018openalex-snapshot

Boundaries between Chromosomal Domains of X Inactivation and Escape Bind CTCF and Lack CpG Methylation during Early Development

inferredcites →https://doi.org/10.1016/j.devcel.2008.08.015openalex-snapshot

Polycomb Group Proteins Ezh2 and Rnf2 Direct Genomic Contraction and Imprinted Repression in Early Mouse Embryos

inferredcites →https://doi.org/10.1016/j.molcel.2007.09.024openalex-snapshot

Coordinated Control of dCTCF and gypsy Chromatin Insulators in Drosophila

inferredcites →https://doi.org/10.1016/j.molcel.2008.08.017openalex-snapshot

Chromatin Insulators: Regulatory Mechanisms and Epigenetic Inheritance

inferredcites →https://doi.org/10.1016/j.ydbio.2008.12.039openalex-snapshot

Genome wide ChIP-chip analyses reveal important roles for CTCF in Drosophila genome organization

inferredcites →https://doi.org/10.1016/s0006-3495(86)83637-2openalex-snapshot

Chromatin fibers are left-handed double helices with diameter and mass per unit length that depend on linker length

inferredcites →https://doi.org/10.1016/s0092-8674(00)81967-4openalex-snapshot

The Protein CTCF Is Required for the Enhancer Blocking Activity of Vertebrate Insulators

inferredcites →https://doi.org/10.1016/s0168-9525(01)02366-6openalex-snapshot

CTCF is a uniquely versatile transcription regulator linked to epigenetics and disease

inferredcites →https://doi.org/10.1016/s0955-0674(03)00039-5openalex-snapshot

Genomic insulators: connecting properties to mechanism

inferredcites →https://doi.org/10.1016/s0960-9822(00)00489-9openalex-snapshot

Maternal-specific footprints at putative CTCF sites in the H19 imprinting control region give evidence for insulator function

inferredcites →https://doi.org/10.1016/s0960-9822(00)00597-2openalex-snapshot

Functional association of CTCF with the insulator upstream of the H19 gene is parent of origin-specific and methylation-sensitive

inferredcites →https://doi.org/10.1016/s0960-9822(03)00162-3openalex-snapshot

Molecular Links between X-Inactivation and Autosomal Imprinting: X-Inactivation as a Driving Force for the Evolution of Imprinting?

inferredcites →https://doi.org/10.1016/s1097-2765(00)00101-5openalex-snapshot

A Chromatin Insulator Determines the Nuclear Localization of DNA

inferredcites →https://doi.org/10.1038/35013100openalex-snapshot

Methylation of a CTCF-dependent boundary controls imprinted expression of the Igf2 gene

inferredcites →https://doi.org/10.1038/35013106openalex-snapshot

CTCF mediates methylation-sensitive enhancer-blocking activity at the H19/Igf2 locus

inferredcites →https://doi.org/10.1038/emboj.2009.34openalex-snapshot

Active promoters and insulators are marked by the centrosomal protein 190

inferredcites →https://doi.org/10.1038/nature05874openalex-snapshot

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

inferredcites →https://doi.org/10.1038/nature05915openalex-snapshot

The complex language of chromatin regulation during transcription

inferredcites →https://doi.org/10.1038/nature06008openalex-snapshot

Genome-wide maps of chromatin state in pluripotent and lineage-committed cells

inferredcites →https://doi.org/10.1038/nature07107openalex-snapshot

Genome-scale DNA methylation maps of pluripotent and differentiated cells

inferredcites →https://doi.org/10.1038/nature07829openalex-snapshot

Histone modifications at human enhancers reflect global cell-type-specific gene expression

inferredcites →https://doi.org/10.1038/nature09906openalex-snapshot

Mapping and analysis of chromatin state dynamics in nine human cell types

inferredcites →https://doi.org/10.1038/nbt.1662openalex-snapshot

Discovery and characterization of chromatin states for systematic annotation of the human genome

inferredcites →https://doi.org/10.1038/ng.2007.5openalex-snapshot

Evidence that homologous X-chromosome pairing requires transcription and Ctcf protein

inferredcites →https://doi.org/10.1038/ng.857openalex-snapshot

CTCF-mediated functional chromatin interactome in pluripotent cells

inferredcites →https://doi.org/10.1038/ng1966openalex-snapshot

Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome

inferredcites →https://doi.org/10.1038/ng570openalex-snapshot

CTCF-binding sites flank CTG/CAG repeats and form a methylation-sensitive insulator at the DM1 locus

inferredcites →https://doi.org/10.1038/nmeth.1226openalex-snapshot

Mapping and quantifying mammalian transcriptomes by RNA-Seq

inferredcites →https://doi.org/10.1038/nrg1925openalex-snapshot

Insulators: exploiting transcriptional and epigenetic mechanisms

inferredcites →https://doi.org/10.1038/nrg2522openalex-snapshot

Nucleosome positioning and gene regulation: advances through genomics

inferredcites →https://doi.org/10.1038/nrg2765openalex-snapshot

Insulators and promoters: closer than we think

inferredcites →https://doi.org/10.1073/pnas.0701811104openalex-snapshot

Systematic discovery of regulatory motifs in conserved regions of the human genome, including thousands of CTCF insulator sites

inferredcites →https://doi.org/10.1073/pnas.0912402107openalex-snapshot

Sequencing newly replicated DNA reveals widespread plasticity in human replication timing

inferredcites →https://doi.org/10.1074/jbc.272.52.33353openalex-snapshot

The Zinc Finger Protein CTCF Binds to the APBβ Domain of the Amyloid β-Protein Precursor Promoter

inferredcites →https://doi.org/10.1074/jbc.m109748200openalex-snapshot

A Region to the N-terminal Side of the CTCF Zinc Finger Domain Is Essential for Activating Transcription from the Amyloid Precursor Protein Promoter

inferredcites →https://doi.org/10.1084/jem.20080066openalex-snapshot

The role of CTCF in regulating nuclear organization

inferredcites →https://doi.org/10.1093/bfgp/elp032openalex-snapshot

Chromatin insulators: lessons from the fly

inferredcites →https://doi.org/10.1093/bioinformatics/14.1.48openalex-snapshot

Combining evidence using p-values: application to sequence homology searches.

inferredcites →https://doi.org/10.1093/bioinformatics/19.2.185openalex-snapshot

A comparison of normalization methods for high density oligonucleotide array data based on variance and bias

inferredcites →https://doi.org/10.1093/bioinformatics/bth078openalex-snapshot

Open source clustering software

inferredcites →https://doi.org/10.1093/bioinformatics/btm096openalex-snapshot

Unsupervised segmentation of continuous genomic data

inferredcites →https://doi.org/10.1093/bioinformatics/btq033openalex-snapshot

BEDTools: a flexible suite of utilities for comparing genomic features

inferredcites →https://doi.org/10.1093/bioinformatics/btq049openalex-snapshot

Assigning roles to DNA regulatory motifs using comparative genomics

inferredcites →https://doi.org/10.1093/emboj/20.21.6150openalex-snapshot

Developmental regulation of DNA replication timing at the human β globin locus

inferredcites →https://doi.org/10.1093/emboj/cdg147openalex-snapshot

Thyroid hormone‐regulated enhancer blocking: cooperation of CTCF and thyroid hormone receptor

inferredcites →https://doi.org/10.1093/nar/gkj143openalex-snapshot

TRANSFAC(R) and its module TRANSCompel(R): transcriptional gene regulation in eukaryotes

inferredcites →https://doi.org/10.1093/nar/gkn374openalex-snapshot

Associating transcription factor-binding site motifs with target GO terms and target genes

inferredcites →https://doi.org/10.1093/nar/gkn488openalex-snapshot

Genome-wide identification ofin vivoprotein-DNA binding sites from ChIP-Seq data

inferredcites →https://doi.org/10.1093/nar/gkp950openalex-snapshot

JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles

inferredcites →https://doi.org/10.1093/nar/gkq1017openalex-snapshot

ENCODE whole-genome data in the UCSC genome browser (2011 update)

inferredcites →https://doi.org/10.1093/nar/gkq963openalex-snapshot

The UCSC Genome Browser database: update 2011

inferredcites →https://doi.org/10.1093/nar/gkq992openalex-snapshot

UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein-DNA interactions

inferredcites →https://doi.org/10.1093/nar/gkr443openalex-snapshot

Genome-wide analysis of the relationships between DNaseI HS, histone modifications and gene expression reveals distinct modes of chromatin domains

inferredcites →https://doi.org/10.1101/gad.1798209openalex-snapshot

Three subclasses of a Drosophila insulator show distinct and cell type-specific genomic distributions

inferredcites →https://doi.org/10.1101/gad.381706openalex-snapshot

Genome-wide mapping of Polycomb target genes unravels their roles in cell fate transitions

inferredcites →https://doi.org/10.1101/gad.822101openalex-snapshot

Functionally distinct, sequence-specific replicator and origin elements are required for Drosophila chorion gene amplification

inferredcites →https://doi.org/10.1101/gad.954702openalex-snapshot

Insulators: many functions, many mechanisms

inferredcites →https://doi.org/10.1101/gr.082800.108openalex-snapshot

Global analysis of the insulator binding protein CTCF in chromatin barrier regions reveals demarcation of active and repressive domains

inferredcites →https://doi.org/10.1101/gr.092759.109openalex-snapshot

Circos: An information aesthetic for comparative genomics

inferredcites →https://doi.org/10.1101/sqb.2004.69.245openalex-snapshot

Chromatin Boundaries and Chromatin Domains

inferredcites →https://doi.org/10.1107/s0907444900011847openalex-snapshot

Asymmetries in the nucleosome core particle at 2.5 Å resolution

inferredcites →https://doi.org/10.1126/science.1090934openalex-snapshot

Transgenic RNAi Reveals Essential Function for CTCF in H19 Gene Imprinting

inferredcites →https://doi.org/10.1126/science.1112014openalex-snapshot

The Transcriptional Landscape of the Mammalian Genome

inferredcites →https://doi.org/10.1126/science.1123191openalex-snapshot

CTCF Mediates Interchromosomal Colocalization Between Igf2/H19 and Wsb1/Nf1

inferredcites →https://doi.org/10.1126/science.1181369openalex-snapshot

Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome

inferredcites →https://doi.org/10.1128/mcb.01748-08openalex-snapshot

Genome-Wide Mapping of Boundary Element-Associated Factor (BEAF) Binding Sites in Drosophila melanogaster Links BEAF to Transcription

inferredcites →https://doi.org/10.1128/mcb.13.12.7612openalex-snapshot

CTCF, a Conserved Nuclear Factor Required for Optimal Transcriptional Activity of the Chicken c- myc Gene, Is an 11-Zn-Finger Protein Differentially Expressed in Multiple Forms

inferredcites →https://doi.org/10.1128/mcb.16.6.2802openalex-snapshot

An Exceptionally Conserved Transcriptional Repressor, CTCF, Employs Different Combinations of Zinc Fingers To Bind Diverged Promoter Sequences of Avian and Mammalian c- myc Oncogenes

inferredcites →https://doi.org/10.1128/mcb.17.4.2202openalex-snapshot

A Transcriptional Insulator Element, the su(Hw) Binding Site, Protects a Chromosomal DNA Replication Origin from Position Effects

inferredcites →https://doi.org/10.1128/mcb.23.24.8946-8952.2003openalex-snapshot

Human β-Globin Locus Control Region HS5Contains CTCF- and Developmental Stage-Dependent Enhancer-BlockingActivity in ErythroidCells

inferredcites →https://doi.org/10.1128/mcb.23.24.9338-9348.2003openalex-snapshot

The c- myc Insulator Element and Matrix Attachment Regions Definethe c- myc ChromosomalDomain

inferredcites →https://doi.org/10.1146/annurev.genet.35.102401.090349openalex-snapshot

Chromatin Insulators and Boundaries: Effects on Transcription and Nuclear Organization

inferredcites →https://doi.org/10.1146/annurev.genet.39.073003.113546openalex-snapshot

Chromatin Insulators

inferredcites →https://doi.org/10.1186/gb-2003-4-10-r70openalex-snapshot

Identifying biological themes within lists of genes with EASE

inferredcites →https://doi.org/10.1186/gb-2007-8-2-r24openalex-snapshot

Quantifying similarity between motifs

inferredcites →https://doi.org/10.1186/gb-2009-10-3-r25openalex-snapshot

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

inferredcites →https://doi.org/10.1242/jcs.039990openalex-snapshot

CTCF and its protein partners: divide and rule?

inferredcites →https://doi.org/10.1371/journal.pbio.1001046openalex-snapshot

A User's Guide to the Encyclopedia of DNA Elements (ENCODE)

inferredcites →https://doi.org/10.1371/journal.pgen.0030112openalex-snapshot

CTCF Genomic Binding Sites in Drosophila and the Organisation of the Bithorax Complex

inferredcites →https://doi.org/10.1371/journal.pgen.0030136openalex-snapshot

Identification and Characterization of Cell Type–Specific and Ubiquitous Chromatin Regulatory Structures in the Human Genome

inferredcites →https://doi.org/10.1371/journal.pgen.1000138openalex-snapshot

The Insulator Binding Protein CTCF Positions 20 Nucleosomes around Its Binding Sites across the Human Genome

inferredcites →https://doi.org/10.1371/journal.pgen.1000814openalex-snapshot

A Comprehensive Map of Insulator Elements for the Drosophila Genome

inferredcites →https://doi.org/10.1371/journal.pone.0006109openalex-snapshot

Targeted Deletion of Multiple CTCF-Binding Elements in the Human C-MYC Gene Reveals a Requirement for CTCF in C-MYC Expression

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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The CCCTC‐binding factor (CTCF)–forkhead box protein M1 axis regulates tumour growth and metastasis in hepatocellular carcinoma

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Machine and Deep Learning Methods for Predicting 3D Genome Organization

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Grabbing the genome by the NADs

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Three-dimensional organization and dynamics of the genome

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Involvement of CCCTC-binding factor in epigenetic regulation of cancer

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Architectural proteins for the formation and maintenance of the 3D genome

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Atypical Modes of CTCF Binding Facilitate Tissue-Specific and Neuronal Activity-Dependent Gene Expression States

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Alzheimer’s disease related genes during primate evolution

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Chromatin dynamics and genome organization in development and disease

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Vitamin D-dependent chromatin association of CTCF in human monocytes

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CTCF negatively regulates HOXA10 expression in breast cancer cells

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Multiscale 3D Genome Rewiring during Mouse Neural Development

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Distinct Trends of DNA Methylation Patterning in the Innate and Adaptive Immune Systems

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Fragment dispersity index analysis of cfDNA fragments reveals chromatin accessibility and enables early cancer detection

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CTCF: A misguided jack-of-all-trades in cancer cells

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Benefiting from the intrinsic role of epigenetics to predict patterns of CTCF binding

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Regulation of the three-dimensional chromatin organization by transposable elements in pig spleen

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The role of chromatin insulators in nuclear architecture and genome function

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CTCF and CTCFL in cancer

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TET-Catalyzed 5-Carboxylcytosine Promotes CTCF Binding to Suboptimal Sequences Genome-Wide

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Metabolic regulation of CTCF expression and chromatin association dictates starvation response in mice and flies

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Many facades of CTCF unified by its coding for three-dimensional genome architecture

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DNA cytosine hydroxymethylation levels are distinct among non-overlapping classes of peripheral blood leukocytes

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CTCF-Induced Circular DNA Complexes Observed by Atomic Force Microscopy

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Machine learning approaches infer vitamin D signaling: Critical impact of vitamin D receptor binding within topologically associated domains

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The genetic and regulatory architecture of ERBB3-type 1 diabetes susceptibility locus

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Chromatin Insulators: Linking Genome Organization to Cellular Function

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Locus-Specific Targeting to the X Chromosome Revealed by the RNA Interactome of CTCF

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CTCF Binding Polarity Determines Chromatin Looping

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Structural Basis for the Versatile and Methylation-Dependent Binding of CTCF to DNA

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Detecting and interpreting DNA methylation marks

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The 3D Genome in Transcriptional Regulation and Pluripotency

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The Birth of the 3D Genome during Early Embryonic Development

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In silico discovery of repetitive elements as key sequence determinants of 3D genome folding

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Binding domain mutations provide insight into CTCF’s relationship with chromatin and its contribution to gene regulation

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CTCF as a multifunctional protein in genome regulation and gene expression

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Evidence for the in vivo safety of insulated foamy viral vectors

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Organization and function of the 3D genome

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CTCF: an architectural protein bridging genome topology and function

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Regulation of disease-associated gene expression in the 3D genome

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Exploiting genetic variation to uncover rules of transcription factor binding and chromatin accessibility

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Constitutively bound CTCF sites maintain 3D chromatin architecture and long-range epigenetically regulated domains

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Widespread contribution of transposable elements to the rewiring of mammalian 3D genomes

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Multi-feature clustering of CTCF binding creates robustness for loop extrusion blocking and Topologically Associating Domain boundaries

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Regulation of CTCF loop formation during pancreatic cell differentiation

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The PTM profiling of CTCF reveals the regulation of 3D chromatin structure by O-GlcNAcylation

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Simultaneous profiling of chromatin-associated RNA at targeted DNA loci and RNA-RNA Interactions through TaDRIM-seq

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Interplay between CTCF-binding and CTCF-lacking regulatory elements in generating an architectural stripe at the Igh locus

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Intertwining roles of R-loops and G-quadruplexes in DNA repair, transcription and genome organization

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Integrative analysis of the 3D genome and epigenome in mouse embryonic tissues

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An integrative analysis of TFBS-clustered regions reveals new transcriptional regulation models on the accessible chromatin landscape

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Ctcf is required for renin expression and maintenance of the structural integrity of the kidney

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CTCF regulates global chromatin accessibility and transcription during rod photoreceptor development

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Ctcf haploinsufficiency mediates intron retention in a tissue-specific manner

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Crossed wires: 3D genome misfolding in human disease

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Chromatin stability generated by stochastic binding and unbinding of cross-linkers at looping sites revealed by Markov models

inferred← citeshttps://doi.org/10.1088/1478-3975/ac5dcaopenalex-snapshot

Prediction and comparative analysis of CTCF binding sites based on a first principle approach

inferred← citeshttps://doi.org/10.1089/hum.2015.110openalex-snapshot

Insulated Foamy Viral Vectors

inferred← citeshttps://doi.org/10.1093/bioadv/vbac097openalex-snapshot

CTCF: an R/bioconductor data package of human and mouse CTCF binding sites

inferred← citeshttps://doi.org/10.1093/bioadv/vbaf268openalex-snapshot

Gaining insights into Alzheimer’s disease by predicting chromatin spatial organization

inferred← citeshttps://doi.org/10.1093/g3journal/jkaf270openalex-snapshot

Optimized ChIP-exo for mammalian cells and patterned sequencing flow cells

inferred← citeshttps://doi.org/10.1093/hmg/ddv198openalex-snapshot

Tissue-specific epigenetics in gene neighborhoods: myogenic transcription factor genes

inferred← citeshttps://doi.org/10.1093/nar/gkaa705openalex-snapshot

Systematic screening of CTCF binding partners identifies that BHLHE40 regulates CTCF genome-wide distribution and long-range chromatin interactions

inferred← citeshttps://doi.org/10.1093/nar/gkab520openalex-snapshot

CTCF as a regulator of alternative splicing: new tricks for an old player

inferred← citeshttps://doi.org/10.1093/nar/gkae530openalex-snapshot

Machine learning enables pan-cancer identification of mutational hotspots at persistent CTCF binding sites

inferred← citeshttps://doi.org/10.1093/nar/gkaf587openalex-snapshot

CTCF binding landscape is shaped by the epigenetic state of the N-terminal nucleosome in relation to CTCF motif orientation

inferred← citeshttps://doi.org/10.1093/nar/gku648openalex-snapshot

Architectural proteins CTCF and cohesin have distinct roles in modulating the higher order structure and expression of the CFTR locus

inferred← citeshttps://doi.org/10.1093/nar/gku780openalex-snapshot

A dynamic CTCF chromatin binding landscape promotes DNA hydroxymethylation and transcriptional induction of adipocyte differentiation

inferred← citeshttps://doi.org/10.1093/nar/gku937openalex-snapshot

CTCF induces histone variant incorporation, erases the H3K27me3 histone mark and opens chromatin

inferred← citeshttps://doi.org/10.1093/nar/gkw249openalex-snapshot

Defining the multivalent functions of CTCF from chromatin state and three-dimensional chromatin interactions

inferred← citeshttps://doi.org/10.1093/nar/gkz908openalex-snapshot

CTCF-dependent chromatin boundaries formed by asymmetric nucleosome arrays with decreased linker length

inferred← citeshttps://doi.org/10.1093/nargab/lqaa031openalex-snapshot

Identification and analysis of consensus RNA motifs binding to the genome regulator CTCF

inferred← citeshttps://doi.org/10.1101/2022.07.15.500259openalex-snapshot

Cell Type Specific DNA Signatures of Transcription Factor Binding

inferred← citeshttps://doi.org/10.1101/2025.05.12.653382openalex-snapshot

UV laser crosslinking uncovers novel DNA-binding pattern of CTCF

inferred← citeshttps://doi.org/10.1101/gad.236869.113openalex-snapshot

CTCF regulates the human p53 gene through direct interaction with its natural antisense transcript, Wrap53

inferred← citeshttps://doi.org/10.1101/gad.248526.114openalex-snapshot

A Sox2 distal enhancer cluster regulates embryonic stem cell differentiation potential

inferred← citeshttps://doi.org/10.1101/gr.278408.123openalex-snapshot

The chromatin tapestry as a framework for neurodevelopment

inferred← citeshttps://doi.org/10.1111/acel.12890openalex-snapshot

Cell‐free DNA as a biomarker of aging

inferred← citeshttps://doi.org/10.1111/cmi.13274openalex-snapshot

The CCCTC ‐binding factor CTCF represses hepatitis B virus enhancer I and regulates viral transcription

inferred← citeshttps://doi.org/10.1111/febs.16580openalex-snapshot

BRD4 and MYC : power couple in transcription and disease

inferred← citeshttps://doi.org/10.1111/gbb.12701openalex-snapshot

Loss of the neuronal genome organizer and transcription factor CTCF induces neuronal death and reactive gliosis in the anterior cingulate cortex

inferred← citeshttps://doi.org/10.1111/jnc.14601openalex-snapshot

Epigenetic cues modulating the generation of cell‐type diversity in the cerebral cortex

inferred← citeshttps://doi.org/10.1128/jvi.00097-15openalex-snapshot

CCCTC-Binding Factor Recruitment to the Early Region of the Human Papillomavirus 18 Genome Regulates Viral Oncogene Expression

inferred← citeshttps://doi.org/10.1128/mcb.00456-15openalex-snapshot

Functional Requirements for Fab-7 Boundary Activity in the Bithorax Complex

inferred← citeshttps://doi.org/10.1128/mcb.01061-14openalex-snapshot

A Variably Occupied CTCF Binding Site in the Ultrabithorax Gene in the Drosophila Bithorax Complex

inferred← citeshttps://doi.org/10.1146/annurev-genom-122220-093818openalex-snapshot

Transcriptional Regulation by (Super)Enhancers: From Discovery to Mechanisms

inferred← citeshttps://doi.org/10.1146/annurev-pathmechdis-051222-014420openalex-snapshot

Role of Chromatin Looping Factors in Leukemia

inferred← citeshttps://doi.org/10.1152/physrev.00005.2024openalex-snapshot

Frontiers in the physiology of male pattern androgenetic alopecia: beyond the androgen horizon

inferred← citeshttps://doi.org/10.1155/2014/471836openalex-snapshot

Advances in Human Biology: Combining Genetics and Molecular Biophysics to Pave the Way for Personalized Diagnostics and Medicine

inferred← citeshttps://doi.org/10.1182/blood.2020005780openalex-snapshot

Dynamic CTCF binding directly mediates interactions among cis-regulatory elements essential for hematopoiesis

inferred← citeshttps://doi.org/10.1186/1471-2164-14-553openalex-snapshot

Characterization of constitutive CTCF/cohesin loci: a possible role in establishing topological domains in mammalian genomes

inferred← citeshttps://doi.org/10.1186/gb-2013-14-12-r148openalex-snapshot

Co-binding by YY1 identifies the transcriptionally active, highly conserved set of CTCF-bound regions in primate genomes

inferred← citeshttps://doi.org/10.1186/s11658-025-00796-6openalex-snapshot

Runx2 downregulates Lpl expression through super-silencer formation to alter lipid metabolism in Zhu Schwann cells after nerve injury

inferred← citeshttps://doi.org/10.1186/s12859-026-06389-0openalex-snapshot

DREAM-Stellar: parallel and space efficient exact local alignment

inferred← citeshttps://doi.org/10.1186/s12864-016-3077-4openalex-snapshot

Genome-wide identification and characterisation of HOT regions in the human genome

inferred← citeshttps://doi.org/10.1186/s12864-024-10859-1openalex-snapshot

Identifying transcription factors with cell-type specific DNA binding signatures

inferred← citeshttps://doi.org/10.1186/s12915-020-00863-8openalex-snapshot

Functional signatures of evolutionarily young CTCF binding sites

inferred← citeshttps://doi.org/10.1186/s12977-019-0507-9openalex-snapshot

HTLV-1 CTCF-binding site is dispensable for in vitro immortalization and persistent infection in vivo

inferred← citeshttps://doi.org/10.1186/s13059-019-1894-xopenalex-snapshot

Clustered CTCF binding is an evolutionary mechanism to maintain topologically associating domains

inferred← citeshttps://doi.org/10.1186/s13059-024-03175-0openalex-snapshot

BORIS/CTCFL epigenetically reprograms clustered CTCF binding sites into alternative transcriptional start sites

inferred← citeshttps://doi.org/10.1186/s13072-024-00534-wopenalex-snapshot

The N-terminal dimerization domains of human and Drosophila CTCF have similar functionality

inferred← citeshttps://doi.org/10.1186/s13148-020-00869-7openalex-snapshot

CTCF loss mediates unique DNA hypermethylation landscapes in human cancers

inferred← citeshttps://doi.org/10.1186/s13578-022-00883-7openalex-snapshot

Induced hepatic stem cells maintain self-renewal through the high expression of Myc coregulated by TET1 and CTCF

inferred← citeshttps://doi.org/10.1186/s40104-021-00577-zopenalex-snapshot

The landscape of chromatin accessibility in skeletal muscle during embryonic development in pigs

inferred← citeshttps://doi.org/10.1242/dev.137729openalex-snapshot

Developing in 3D: the role of CTCF in cell differentiation

inferred← citeshttps://doi.org/10.12688/f1000research.10792.1openalex-snapshot

When TADs go bad: chromatin structure and nuclear organisation in human disease

inferred← citeshttps://doi.org/10.1371/journal.pbio.2005752openalex-snapshot

Disruption of CTCF-YY1–dependent looping of the human papillomavirus genome activates differentiation-induced viral oncogene transcription

inferred← citeshttps://doi.org/10.1371/journal.pcbi.1003771openalex-snapshot

Tracing the Evolution of Lineage-Specific Transcription Factor Binding Sites in a Birth-Death Framework

inferred← citeshttps://doi.org/10.1371/journal.pcbi.1010392openalex-snapshot

Characterizing the variation in chromosome structure ensembles in the context of the nuclear microenvironment

inferred← citeshttps://doi.org/10.1371/journal.pgen.1003649openalex-snapshot

Integrative Modeling of eQTLs and Cis-Regulatory Elements Suggests Mechanisms Underlying Cell Type Specificity of eQTLs

inferred← citeshttps://doi.org/10.1371/journal.pgen.1005940openalex-snapshot

The Chromatin Remodelling Enzymes SNF2H and SNF2L Position Nucleosomes adjacent to CTCF and Other Transcription Factors

inferred← citeshttps://doi.org/10.1371/journal.pone.0169225openalex-snapshot

The Glucocorticoid Receptor Regulates the ANGPTL4 Gene in a CTCF-Mediated Chromatin Context in Human Hepatic Cells

inferred← citeshttps://doi.org/10.1371/journal.pone.0293347openalex-snapshot

Abdominal surgery induces long-lasting changes in expression and binding of CTCF with impact on Major Histocompatibility Complex II transcription in circulating human monocytes

inferred← citeshttps://doi.org/10.1371/journal.ppat.1012506openalex-snapshot

Repression of CADM1 transcription by HPV type 18 is mediated by three-dimensional rearrangement of promoter-enhancer interactions

inferred← citeshttps://doi.org/10.15252/embr.202255146openalex-snapshot

CTCF shapes chromatin structure and gene expression in health and disease

inferred← citeshttps://doi.org/10.1534/genetics.116.195586openalex-snapshot

Different Evolutionary Strategies To Conserve Chromatin Boundary Function in the Bithorax Complex

inferred← citeshttps://doi.org/10.21203/rs.3.rs-4670379/v1openalex-snapshot

Brain and cancer associated binding domain mutations provide insight into CTCF’s relationship with chromatin and its ability to act as a chromatin organizer

inferred← citeshttps://doi.org/10.32607/actanaturae.11206openalex-snapshot

CTCF As an Example of DNA-Binding Transcription Factors Containing Clusters of C2H2-Type Zinc Fingers

inferred← citeshttps://doi.org/10.33540/2055openalex-snapshot

Germ cell tumor treatment resistance and liquid biopsy-based microRNA biomarkers

inferred← citeshttps://doi.org/10.3389/fcell.2022.1068347openalex-snapshot

Nuclear envelope, chromatin organizers, histones, and DNA: The many achilles heels exploited across cancers

inferred← citeshttps://doi.org/10.3389/fgene.2020.00780openalex-snapshot

The Interplay Between Replacement and Retention of Histones in the Sperm Genome

inferred← citeshttps://doi.org/10.3389/fphy.2016.00013openalex-snapshot

The Electronic Behavior of Zinc-Finger Protein Binding Sites in the Context of the DNA Extended Ladder Model

inferred← citeshttps://doi.org/10.3390/biology10040272openalex-snapshot

At the Crossroad of Gene Regulation and Genome Organization: Potential Roles for ATP-Dependent Chromatin Remodelers in the Regulation of CTCF-Mediated 3D Architecture

inferred← citeshttps://doi.org/10.3390/biom12091177openalex-snapshot

Butyrate Induces Modifications of the CTCF-Binding Landscape in Cattle Cells

inferred← citeshttps://doi.org/10.3390/ht7040030openalex-snapshot

Molecular Lesions of Insulator CTCF and Its Paralogue CTCFL (BORIS) in Cancer: An Analysis from Published Genomic Studies

inferred← citeshttps://doi.org/10.3390/ijms22105377openalex-snapshot

Mechanisms of TP53 Pathway Inactivation in Embryonic and Somatic Cells—Relevance for Understanding (Germ Cell) Tumorigenesis

inferred← citeshttps://doi.org/10.3390/ijms23169070openalex-snapshot

Differentially CTCF-Binding Sites in Cattle Rumen Tissue during Weaning

inferred← citeshttps://doi.org/10.3390/ijms232415810openalex-snapshot

Analysis of Chromatin Openness in Testicle Tissue of Yak and Cattle-Yak

inferred← citeshttps://doi.org/10.3390/ph18030305openalex-snapshot

The Regulatory Role of CTCF in IL6 Gene Transcription Assessed in Breast Cancer Cell Lines

inferred← citeshttps://doi.org/10.3390/v7072791openalex-snapshot

Targeting CTCF to Control Virus Gene Expression: A Common Theme amongst Diverse DNA Viruses

inferred← citeshttps://doi.org/10.4049/jimmunol.1303205openalex-snapshot

B Cell Differentiation Is Associated with Reprogramming the CCCTC Binding Factor–Dependent Chromatin Architecture of the Murine MHC Class II Locus

inferred← citeshttps://doi.org/10.4267/2042/46051openalex-snapshot

CTCF (CCCTC-binding factor (zinc finger protein))

inferred← citeshttps://doi.org/10.6084/m9.figshare.14527707openalex-snapshot

Additional file 1 of The landscape of chromatin accessibility in skeletal muscle during embryonic development in pigs

inferred← citeshttps://doi.org/10.6084/m9.figshare.14527710openalex-snapshot

Additional file 2 of The landscape of chromatin accessibility in skeletal muscle during embryonic development in pigs

inferred← citeshttps://doi.org/10.6084/m9.figshare.14527713openalex-snapshot

Additional file 3 of The landscape of chromatin accessibility in skeletal muscle during embryonic development in pigs

inferred← citeshttps://doi.org/10.6084/m9.figshare.14527716openalex-snapshot

Additional file 4 of The landscape of chromatin accessibility in skeletal muscle during embryonic development in pigs

inferred← citeshttps://doi.org/10.6084/m9.figshare.14527719openalex-snapshot

Additional file 5 of The landscape of chromatin accessibility in skeletal muscle during embryonic development in pigs

inferred← citeshttps://doi.org/10.6084/m9.figshare.14527722openalex-snapshot

Additional file 6 of The landscape of chromatin accessibility in skeletal muscle during embryonic development in pigs

inferred← citeshttps://doi.org/10.6084/m9.figshare.20861103openalex-snapshot

Additional file 1 of Induced hepatic stem cells maintain self-renewal through the high expression of Myc coregulated by TET1 and CTCF

inferred← citeshttps://doi.org/10.6084/m9.figshare.26700008openalex-snapshot

Additional file 1 of The N-terminal dimerization domains of human and Drosophila CTCF have similar functionality

inferred← citeshttps://doi.org/10.6084/m9.figshare.26700011openalex-snapshot

Additional file 2 of The N-terminal dimerization domains of human and Drosophila CTCF have similar functionality

inferred← citeshttps://doi.org/10.6084/m9.figshare.26700014openalex-snapshot

Additional file 3 of The N-terminal dimerization domains of human and Drosophila CTCF have similar functionality

inferred← citeshttps://doi.org/10.6084/m9.figshare.26700017openalex-snapshot

Additional file 4 of The N-terminal dimerization domains of human and Drosophila CTCF have similar functionality

inferred← citeshttps://doi.org/10.64898/2026.01.29.702647openalex-snapshot

An H4K20me3-CTCF switch at stable TAD boundaries enforces reversible cell state transitions

inferred← citeshttps://doi.org/10.64898/2026.06.01.729143openalex-snapshot

CLASH (Chromatin Loop Across-sample Score Harmonizer) quantifies the relative contributions of genetic variation, methylation, and CTCF occupancy on chromatin loop strength across individuals

inferred← citeshttps://doi.org/10.70675/18c2cd65z799bz410ezb454z2ecf0d01ec1dopenalex-snapshot

SUMOylation and control of gene expression : involvement in Acute Myeloid Leukemia response to induction chemotherapy

inferred← citeshttps://doi.org/10.70675/3efa9215z51a5z4c60z89a8zcb82f128e3aaopenalex-snapshot

Dynamiques épigénétiques du macrosatellite D4Z4 par la protéine SMCHD1 dans deux pathologies rares : exploitation du modèle IPSCs

inferred← citeshttps://doi.org/10.70675/88d0128fzfaa1z423czbbe8z64062873c0a2openalex-snapshot

Etude des éléments cis-régulateurs dans les pathologies associées au gène CFTR

inferred← citeshttps://doi.org/10.70675/89769afeza443z495cz9933z31ab8621510eopenalex-snapshot

Effet de position télomérique : implications dans la régulation du génome et les maladies rares

inferred← citeshttps://doi.org/10.70675/96be3b9czbd0az4803za18ez9f92e5e10e5copenalex-snapshot

Régulation épigénétique du gène CFTR

inferred← citeshttps://doi.org/10.70675/abf007fbz8adcz4c68zb9faz5f550f134b2aopenalex-snapshot

DNA methylation changes CTCF binding and reorganizes 3D genome structure in breast cancer cells

inferred← citeshttps://doi.org/10.70675/d1cdadecz357fz464ez9577z45f95b5c05efopenalex-snapshot

Genome-wide analysis of ATP-dependent chromatin remodeling functions in embryonic stem cells

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