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Preservation of Chromatin Organization after Acute Loss of CTCF in Mouse Embryonic Stem Cells
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/0471143030.cb2009s64openalex-snapshot
Rapid Depletion of Budding Yeast Proteins via the Fusion of an Auxin‐Inducible Degron (AID)
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.2008.01.011openalex-snapshot
Cohesins Functionally Associate with CTCF on Mammalian Chromosome Arms
inferredcites →https://doi.org/10.1016/j.cell.2011.11.058openalex-snapshot
Waves of Retrotransposon Expansion Remodel Genome Organization and CTCF Binding in Multiple Mammalian Lineages
inferredcites →https://doi.org/10.1016/j.cell.2013.02.029openalex-snapshot
CTCF and Cohesin: Linking Gene Regulatory Elements with Their Targets
inferredcites →https://doi.org/10.1016/j.cell.2013.04.053openalex-snapshot
Architectural Protein Subclasses Shape 3D Organization of Genomes during Lineage Commitment
inferredcites →https://doi.org/10.1016/j.cell.2014.11.021openalex-snapshot
A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
inferredcites →https://doi.org/10.1016/j.cell.2015.04.004openalex-snapshot
Disruptions of Topological Chromatin Domains Cause Pathogenic Rewiring of Gene-Enhancer Interactions
inferredcites →https://doi.org/10.1016/j.cell.2015.07.038openalex-snapshot
CRISPR Inversion of CTCF Sites Alters Genome Topology and Enhancer/Promoter Function
inferredcites →https://doi.org/10.1016/j.cell.2015.11.024openalex-snapshot
CTCF-Mediated Human 3D Genome Architecture Reveals Chromatin Topology for Transcription
inferredcites →https://doi.org/10.1016/j.cell.2016.02.007openalex-snapshot
The 3D Genome as Moderator of Chromosomal Communication
inferredcites →https://doi.org/10.1016/j.cell.2016.10.024openalex-snapshot
Insulated Neighborhoods: Structural and Functional Units of Mammalian Gene Control
inferredcites →https://doi.org/10.1016/j.celrep.2015.02.004openalex-snapshot
Comparative Hi-C Reveals that CTCF Underlies Evolution of Chromosomal Domain Architecture
inferredcites →https://doi.org/10.1016/j.celrep.2016.04.085openalex-snapshot
Formation of Chromosomal Domains by Loop Extrusion
inferredcites →https://doi.org/10.1016/j.celrep.2016.10.061openalex-snapshot
A Compendium of Chromatin Contact Maps Reveals Spatially Active Regions in the Human Genome
inferredcites →https://doi.org/10.1016/j.cels.2015.07.012openalex-snapshot
Juicebox Provides a Visualization System for Hi-C Contact Maps with Unlimited Zoom
inferredcites →https://doi.org/10.1016/j.devcel.2016.10.015openalex-snapshot
The Shh Topological Domain Facilitates the Action of Remote Enhancers by Reducing the Effects of Genomic Distances
inferredcites →https://doi.org/10.1016/j.gde.2014.03.014openalex-snapshot
The architecture of gene expression: integrating dispersed cis-regulatory modules into coherent regulatory domains
inferredcites →https://doi.org/10.1016/j.gde.2016.12.005openalex-snapshot
Genome–nuclear lamina interactions: from cell populations to single cells
inferredcites →https://doi.org/10.1016/j.molcel.2010.03.016openalex-snapshot
Molecular Maps of the Reorganization of Genome-Nuclear Lamina Interactions during Differentiation
inferredcites →https://doi.org/10.1016/j.molcel.2010.05.004openalex-snapshot
Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities
inferredcites →https://doi.org/10.1016/j.molcel.2014.12.006openalex-snapshot
Locus-Specific Targeting to the X Chromosome Revealed by the RNA Interactome of CTCF
inferredcites →https://doi.org/10.1016/j.molcel.2015.09.023openalex-snapshot
CTCF Binding Polarity Determines Chromatin Looping
inferredcites →https://doi.org/10.1016/j.molcel.2016.05.018openalex-snapshot
Chromatin Domains: The Unit of Chromosome Organization
inferredcites →https://doi.org/10.1016/j.stem.2016.01.007openalex-snapshot
Cell-of-Origin-Specific 3D Genome Structure Acquired during Somatic Cell Reprogramming
inferredcites →https://doi.org/10.1016/j.tig.2015.09.004openalex-snapshot
Genetic Tailors: CTCF and Cohesin Shape the Genome During Evolution
inferredcites →https://doi.org/10.1016/j.tig.2016.05.004openalex-snapshot
On TADs and LADs: Spatial Control Over Gene Expression
inferredcites →https://doi.org/10.1038/cr.2013.122openalex-snapshot
Multiplexed activation of endogenous genes by CRISPR-on, an RNA-guided transcriptional activator system
inferredcites →https://doi.org/10.1038/emboj.2008.1openalex-snapshot
Cohesins localize with CTCF at the KSHV latency control region and at cellular c‐myc and H19/Igf2 insulators
inferredcites →https://doi.org/10.1038/emboj.2008.214openalex-snapshot
CTCF regulates cell cycle progression of αβ T cells in the thymus
inferredcites →https://doi.org/10.1038/emboj.2013.237openalex-snapshot
Cohesin‐mediated interactions organize chromosomal domain architecture
inferredcites →https://doi.org/10.1038/nature06634openalex-snapshot
Cohesin mediates transcriptional insulation by CCCTC-binding factor
inferredcites →https://doi.org/10.1038/nature06947openalex-snapshot
Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions
inferredcites →https://doi.org/10.1038/nature08079openalex-snapshot
Cohesins form chromosomal cis-interactions at the developmentally regulated IFNG locus
inferredcites →https://doi.org/10.1038/nature11049openalex-snapshot
Spatial partitioning of the regulatory landscape of the X-inactivation centre
inferredcites →https://doi.org/10.1038/nature11082openalex-snapshot
Topological domains in mammalian genomes identified by analysis of chromatin interactions
inferredcites →https://doi.org/10.1038/nature11243openalex-snapshot
A map of the cis-regulatory sequences in the mouse genome
inferredcites →https://doi.org/10.1038/nature14450openalex-snapshot
Condensin-driven remodelling of X chromosome topology during dosage compensation
inferredcites →https://doi.org/10.1038/nature19800openalex-snapshot
Formation of new chromatin domains determines pathogenicity of genomic duplications
inferredcites →https://doi.org/10.1038/ncomms6560openalex-snapshot
Microhomology-mediated end-joining-dependent integration of donor DNA in cells and animals using TALENs and CRISPR/Cas9
inferredcites →https://doi.org/10.1038/ncomms7186openalex-snapshot
ZNF143 provides sequence specificity to secure chromatin interactions at gene promoters
inferredcites →https://doi.org/10.1038/nmeth.1391openalex-snapshot
High-resolution identification of balanced and complex chromosomal rearrangements by 4C technology
inferredcites →https://doi.org/10.1038/nmeth.1401openalex-snapshot
An auxin-based degron system for the rapid depletion of proteins in nonplant cells
inferredcites →https://doi.org/10.1038/nmeth.2173openalex-snapshot
Robust 4C-seq data analysis to screen for regulatory DNA interactions
inferredcites →https://doi.org/10.1038/nmeth.3047openalex-snapshot
Improved vectors and genome-wide libraries for CRISPR screening
inferredcites →https://doi.org/10.1038/nprot.2012.016openalex-snapshot
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
inferredcites →https://doi.org/10.1038/nrg3663openalex-snapshot
CTCF: an architectural protein bridging genome topology and function
inferredcites →https://doi.org/10.1038/srep05400openalex-snapshot
Multiplex genome engineering in human cells using all-in-one CRISPR/Cas9 vector system
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.1216880109openalex-snapshot
Inducible, reversible system for the rapid and complete degradation of proteins in mammalian cells
inferredcites →https://doi.org/10.1073/pnas.1317788111openalex-snapshot
Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells
inferredcites →https://doi.org/10.1073/pnas.1518552112openalex-snapshot
Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes
inferredcites →https://doi.org/10.1093/bioinformatics/btp120openalex-snapshot
TopHat: discovering splice junctions with RNA-Seq
inferredcites →https://doi.org/10.1093/bioinformatics/btp616openalex-snapshot
edgeR : a Bioconductor package for differential expression analysis of digital gene expression data
inferredcites →https://doi.org/10.1093/bioinformatics/bts570openalex-snapshot
HiCNorm: removing biases in Hi-C data via Poisson regression
inferredcites →https://doi.org/10.1093/bioinformatics/btu638openalex-snapshot
HTSeq—a Python framework to work with high-throughput sequencing data
inferredcites →https://doi.org/10.1093/nar/gkt910openalex-snapshot
CTCF binding site sequence differences are associated with unique regulatory and functional trends during embryonic stem cell differentiation
inferredcites →https://doi.org/10.1093/nar/gkv1002openalex-snapshot
dbSUPER: a database of super-enhancers in mouse and human genome
inferredcites →https://doi.org/10.1093/nar/gkw257openalex-snapshot
deepTools2: a next generation web server for deep-sequencing data analysis
inferredcites →https://doi.org/10.1101/gad.1059603openalex-snapshot
Asynchronous replication timing of imprinted loci is independent of DNA methylation, but consistent with differential subnuclear localization
inferredcites →https://doi.org/10.1101/gad.1967810openalex-snapshot
Mediation of CTCF transcriptional insulation by DEAD-box RNA-binding protein p68 and steroid receptor RNA activator SRA
inferredcites →https://doi.org/10.1101/gad.236869.113openalex-snapshot
CTCF regulates the human p53 gene through direct interaction with its natural antisense transcript, Wrap53
inferredcites →https://doi.org/10.1101/gad.248526.114openalex-snapshot
A Sox2 distal enhancer cluster regulates embryonic stem cell differentiation potential
inferredcites →https://doi.org/10.1101/gad.277863.116openalex-snapshot
CTCF: making the right connections
inferredcites →https://doi.org/10.1101/gad.281964.116openalex-snapshot
The second decade of 3C technologies: detailed insights into nuclear organization
inferredcites →https://doi.org/10.1101/gad.288324.116openalex-snapshot
CTCF-mediated topological boundaries during development foster appropriate gene regulation
inferredcites →https://doi.org/10.1101/gr.141028.112openalex-snapshot
Constitutive nuclear lamina–genome interactions are highly conserved and associated with A/T-rich sequence
inferredcites →https://doi.org/10.1101/gr.161620.113openalex-snapshot
Cohesin-based chromatin interactions enable regulated gene expression within preexisting architectural compartments
inferredcites →https://doi.org/10.1101/gr.163519.113openalex-snapshot
Functional and topological characteristics of mammalian regulatory domains
inferredcites →https://doi.org/10.1101/gr.176586.114openalex-snapshot
Genome-wide map of regulatory interactions in the human genome
inferredcites →https://doi.org/10.1101/gr.183699.114openalex-snapshot
Topologically associating domains and their long-range contacts are established during early G1 coincident with the establishment of the replication-timing program
inferredcites →https://doi.org/10.1101/sqb.2010.75.014openalex-snapshot
Role of the Nuclear Lamina in Genome Organization and Gene Expression
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/10.1126/science.1234167openalex-snapshot
A Switch Between Topological Domains Underlies HoxD Genes Collinearity in Mouse Limbs
inferredcites →https://doi.org/10.1126/science.1236083openalex-snapshot
Organization of the Mitotic Chromosome
inferredcites →https://doi.org/10.1126/science.1262088openalex-snapshot
CTCF establishes discrete functional chromatin domains at the Hox clusters during differentiation
inferredcites →https://doi.org/10.1128/mcb.05093-11openalex-snapshot
Specific Sites in the C Terminus of CTCF Interact with the SA2 Subunit of the Cohesin Complex and Are Required for Cohesin-Dependent Insulation Activity
inferredcites →https://doi.org/10.1186/1756-8935-5-8openalex-snapshot
The male germ cell gene regulator CTCFL is functionally different from CTCF and binds CTCF-like consensus sites in a nucleosome composition-dependent manner
inferredcites →https://doi.org/10.1186/gb-2008-9-9-r137openalex-snapshot
Model-based Analysis of ChIP-Seq (MACS)
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/10.1186/s13059-016-1043-8openalex-snapshot
Topoisomerase II beta interacts with cohesin and CTCF at topological domain borders
inferredcites →https://doi.org/10.1371/journal.pgen.1000739openalex-snapshot
Cohesin Is Required for Higher-Order Chromatin Conformation at the Imprinted IGF2-H19 Locus
inferredcites →https://doi.org/10.1371/journal.pone.0114485openalex-snapshot
CRISPR Reveals a Distal Super-Enhancer Required for Sox2 Expression in Mouse Embryonic Stem Cells
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1002/gcc.22731openalex-snapshot
Higher order genomic organization and epigenetic control maintain cellular identity and prevent breast cancer
inferred← citeshttps://doi.org/10.1002/wsbm.1444openalex-snapshot
Models of polymer physics for the architecture of the cell nucleus
inferred← citeshttps://doi.org/10.1002/wsbm.1467openalex-snapshot
Functional genomic approaches to elucidate the role of enhancers during development
inferred← citeshttps://doi.org/10.1007/978-1-0716-2497-5_15openalex-snapshot
Acute Protein Depletion Strategies to Functionally Dissect the 3D Genome
inferred← citeshttps://doi.org/10.1007/978-1-4939-7714-7_15openalex-snapshot
Shaping Up the Embryo: The Role of Genome 3D Organization
inferred← citeshttps://doi.org/10.1007/978-3-031-06573-6_12openalex-snapshot
Epigenetic-Mediated Regulation of Gene Expression for Biological Control and Cancer: Cell and Tissue Structure, Function, and Phenotype
inferred← citeshttps://doi.org/10.1007/s10565-018-9428-yopenalex-snapshot
Three-dimensional organization and dynamics of the genome
inferred← citeshttps://doi.org/10.1016/b978-0-12-814513-5.00020-9openalex-snapshot
Computational Analysis of Epigenetic Modifications in Melanoma
inferred← citeshttps://doi.org/10.1016/j.cell.2018.07.047openalex-snapshot
Transcription Elongation Can Affect Genome 3D Structure
inferred← citeshttps://doi.org/10.1016/j.cell.2019.06.001openalex-snapshot
Pervasive Chromatin-RNA Binding Protein Interactions Enable RNA-Based Regulation of Transcription
inferred← citeshttps://doi.org/10.1016/j.celrep.2020.108315openalex-snapshot
G9a Plays Distinct Roles in Maintaining DNA Methylation, Retrotransposon Silencing, and Chromatin Looping
inferred← citeshttps://doi.org/10.1016/j.celrep.2022.110601openalex-snapshot
Polymer physics reveals a combinatorial code linking 3D chromatin architecture to 1D chromatin states
inferred← citeshttps://doi.org/10.1016/j.jgg.2020.06.008openalex-snapshot
Many facades of CTCF unified by its coding for three-dimensional genome architecture
inferred← citeshttps://doi.org/10.1016/j.molcel.2017.07.022openalex-snapshot
Evolutionarily Conserved Principles Predict 3D Chromatin Organization
inferred← citeshttps://doi.org/10.1016/j.molcel.2023.04.008openalex-snapshot
Loop stacking organizes genome folding from TADs to chromosomes
inferred← citeshttps://doi.org/10.1016/j.semcdb.2018.07.020openalex-snapshot
A tour of 3D genome with a focus on CTCF
inferred← citeshttps://doi.org/10.1038/s41422-020-00466-6openalex-snapshot
Homotypic clustering of L1 and B1/Alu repeats compartmentalizes the 3D genome
inferred← citeshttps://doi.org/10.1038/s41467-019-08949-wopenalex-snapshot
An alternative CTCF isoform antagonizes canonical CTCF occupancy and changes chromatin architecture to promote apoptosis
inferred← citeshttps://doi.org/10.1038/s41467-019-10725-9openalex-snapshot
Enhancer accessibility and CTCF occupancy underlie asymmetric TAD architecture and cell type specific genome topology
inferred← citeshttps://doi.org/10.1038/s41467-019-13753-7openalex-snapshot
Constitutively bound CTCF sites maintain 3D chromatin architecture and long-range epigenetically regulated domains
inferred← citeshttps://doi.org/10.1038/s41576-018-0060-8openalex-snapshot
Organizational principles of 3D genome architecture
inferred← citeshttps://doi.org/10.1038/s41587-020-0643-8openalex-snapshot
Direct DNA crosslinking with CAP-C uncovers transcription-dependent chromatin organization at high resolution
inferred← citeshttps://doi.org/10.1038/s41592-019-0502-zopenalex-snapshot
Joint profiling of DNA methylation and chromatin architecture in single cells
inferred← citeshttps://doi.org/10.1038/s41592-020-0775-2openalex-snapshot
3D ATAC-PALM: super-resolution imaging of the accessible genome
inferred← citeshttps://doi.org/10.1042/bcj20180512openalex-snapshot
Large-scale chromatin organisation in interphase, mitosis and meiosis
inferred← citeshttps://doi.org/10.1101/096487openalex-snapshot
Chromatin domains are encoded and molded by isochores: Isochores encode chromatin domains and chromosome compartments
inferred← citeshttps://doi.org/10.1101/106344openalex-snapshot
Heterogeneous chromatin mobility derived from chromatin states is a determinant of genome organisation in S. cerevisiae
inferred← citeshttps://doi.org/10.1101/260323openalex-snapshot
The formation of chromatin domains: a new model
inferred← citeshttps://doi.org/10.1101/585281openalex-snapshot
Three-dimensional genome reorganization during mouse spermatogenesis
inferred← citeshttps://doi.org/10.1101/sqb.2017.82.033829openalex-snapshot
The Role of Bromodomain and Extraterminal Motif (BET) Proteins in Chromatin Structure
inferred← citeshttps://doi.org/10.1101/sqb.2017.82.034710openalex-snapshot
Emerging Evidence of Chromosome Folding by Loop Extrusion
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/s13072-017-0142-4openalex-snapshot
Activation of the alpha-globin gene expression correlates with dramatic upregulation of nearby non-globin genes and changes in local and large-scale chromatin spatial structure
inferred← citeshttps://doi.org/10.1186/s13072-020-00358-4openalex-snapshot
Interplay of pericentromeric genome organization and chromatin landscape regulates the expression of Drosophila melanogaster heterochromatic genes
inferred← citeshttps://doi.org/10.1242/dev.137729openalex-snapshot
Developing in 3D: the role of CTCF in cell differentiation
inferred← citeshttps://doi.org/10.13028/m2mx01openalex-snapshot
Three-dimensional Folding of Eukaryotic Genomes
inferred← citeshttps://doi.org/10.1371/journal.pgen.1009277openalex-snapshot
Dynamic regulation of CTCF stability and sub-nuclear localization in response to stress
inferred← citeshttps://doi.org/10.15252/embj.201798004openalex-snapshot
Topologically associating domains and chromatin loops depend on cohesin and are regulated by CTCF, WAPL, and PDS5 proteins
inferred← citeshttps://doi.org/10.15252/msb.20188214openalex-snapshot
Forces driving the three‐dimensional folding of eukaryotic genomes
inferred← citeshttps://doi.org/10.3410/f.733853187.793578923openalex-snapshot
Faculty Opinions recommendation of Transcription elongation can affect genome 3D structure.
inferred← citeshttps://doi.org/10.3410/f.734288427.793573571openalex-snapshot
Faculty Opinions recommendation of Organizational principles of 3D genome architecture.
inferred← citeshttps://doi.org/10.53846/goediss-8409openalex-snapshot
Dissecting the molecular mechanism and spatiotemporal dynamics controlling senescence entry
inferred← citeshttps://doi.org/10.70675/2ef58956zd619z4f59z94dbz6262d6448ed1openalex-snapshot
Nuclear organization and regulation of gene expression in mouse Embryonic Stem Cells by long non-coding RNAs
inferred← citeshttps://doi.org/10.70675/845e2ff4ze48bz4856z912fz85e14ba76f37openalex-snapshot
Characterizing the 3D organization of holocentric chromosomes in Bombyx mori
inferred← citeshttps://doi.org/10.70675/ad8a4539z2325z46aazbc1fza812d4b02626openalex-snapshot
Identification and characterization of Polycomb repressed gene-enhancer loops
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