Featured Publications
CTCF maintains regulatory homeostasis of cancer pathways
Aitken S, Ibarra-Soria X, Kentepozidou E, Flicek P, Feig C, Marioni J, Odom D. CTCF maintains regulatory homeostasis of cancer pathways. Genome Biology 2018, 19: 106. PMID: 30086769, PMCID: PMC6081938, DOI: 10.1186/s13059-018-1484-3.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBreast NeoplasmsCCCTC-Binding FactorCell LineChromatinDNA, NeoplasmEnhancer Elements, GeneticFemaleFibroblastsGene Expression Regulation, NeoplasticGenomeHemizygoteHomeostasisHumansLiver Neoplasms, ExperimentalMiceMice, Inbred C57BLMice, TransgenicProtein BindingSignal TransductionUterine NeoplasmsConceptsTranscriptional regulationIntra-TAD interactionsSteady-state gene expressionCancer-related pathwaysMammalian genomesCTCF occupancyGenome functionChromatin loopsEvolutionary conservationChromatin structureGenomic dysregulationRegulatory domainHemizygous cellsEpigenomic profilingCTCFCTCF expressionMammalian cellsExpressed genesAffinity binding eventsTranscriptional alterationsGene expressionMouse lineagesCancer pathwaysMouse model systemHuman cancers
2020
Clustered CTCF binding is an evolutionary mechanism to maintain topologically associating domains
Kentepozidou E, Aitken S, Feig C, Stefflova K, Ibarra-Soria X, Odom D, Roller M, Flicek P. Clustered CTCF binding is an evolutionary mechanism to maintain topologically associating domains. Genome Biology 2020, 21: 5. PMID: 31910870, PMCID: PMC6945661, DOI: 10.1186/s13059-019-1894-x.Peer-Reviewed Original ResearchConceptsTopologically associating domains boundariesTopologically associating domainsCTCF sitesCTCF bindingConservation of topologically associating domainsGenome-wide binding profilesHigher-order chromatin structureCTCF binding patternsCTCF ChIP-seqGene transcription start siteHigher-order genome structureCTCF binding sitesNatural genetic variationTranscription start siteSpecies-specific sitesCohesin stabilizationTAD boundariesChIP-seqGenomic structureStart siteChromatin structureTranscriptional regulationCTCFAssociation domainGenetic variation