Research graph
References from DeCTCF: Decoding CTCF binding sequences by leveraging predicted epigenomic features. Local targets link to admitted publications; unresolved targets remain external evidence.
Transcription factors: from enhancer binding to developmental control
10.1038/nrg3207 · 2012 · External reference
The Human Transcription Factors
10.1016/j.cell.2018.01.029 · 2018 · External reference
Involvement of CCCTC-binding factor in epigenetic regulation of cancer
10.1007/s11033-023-08879-3 · 2023 · External reference
CTCF: master weaver of the genome
10.1016/j.cell.2009.06.001 · 2009 · External reference
CTCF: the protein, the binding partners, the binding sites and their chromatin loops
10.1098/rstb.2012.0369 · 2013 · External reference
The protein CTCF is required for the enhancer blocking activity of vertebrate insulators
10.1016/s0092-8674(00)81967-4 · 1999 · External reference
Chromatin insulators: linking genome organization to cellular function
10.1016/j.molcel.2013.04.018 · 2013 · External reference
CTCF functions as an insulator for somatic genes and a chromatin remodeler for pluripotency genes during reprogramming
10.1016/j.celrep.2022.110626 · 2022 · External reference
CTCF-Mediated Chromatin Loops between Promoter and Gene Body Regulate Alternative Splicing across Individuals
10.1016/j.cels.2017.10.018 · 2017 · External reference
CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing
10.1038/nature10442 · 2011 · External reference
CTCF as a multifunctional protein in genome regulation and gene expression
2015 · External reference
Beyond genomic weaving: molecular roles for CTCF outside cohesin loop extrusion
10.1016/j.gde.2024.102298 · 2025 · External reference
CTCF mediates chromatin looping via N-terminal domain-dependent cohesin retention
10.1073/pnas.1911708117 · 2020 · External reference
Tissue-specific CTCF-cohesin-mediated chromatin architecture delimits enhancer interactions and function in vivo
10.1038/ncb3573 · 2017 · External reference
Regulation of 3D chromatin organization by CTCF
10.1016/j.gde.2020.10.005 · 2021 · External reference
CTCF and Its Partners: Shaper of 3D Genome during Development
10.3390/genes13081383 · 2022 · External reference
Topological domains in mammalian genomes identified by analysis of chromatin interactions
10.1038/nature11082 · 2012 · External reference
Exploring the changing landscape of cell-to-cell variation after CTCF knockdown via single cell RNA-seq
10.1186/s12864-019-6379-5 · 2019 · External reference
Single-cell multi-omics analysis reveals dysfunctional Wnt signaling of spermatogonia in non-obstructive azoospermia
10.3389/fendo.2023.1138386 · 2023 · External reference
Spermiogenesis alterations in the absence of CTCF revealed by single cell RNA sequencing
10.3389/fcell.2023.1119514 · 2023 · External reference
Unraveling Heterogeneity in Transcriptome and Its Regulation Through Single-Cell Multi-Omics Technologies
10.3389/fgene.2020.00662 · 2020 · External reference
ClusterMatch aligns single-cell RNA-sequencing data at the multi-scale cluster level via stable matching
2024 · External reference
DNA architectural protein CTCF facilitates subset-specific chromatin interactions to limit the formation of memory CD8+ T cells
10.1016/j.immuni.2023.03.017 · 2023 · External reference
Cancer-specific CTCF binding facilitates oncogenic transcriptional dysregulation
10.1186/s13059-020-02152-7 · 2020 · External reference
Developing in 3D: the role of CTCF in cell differentiation
2018 · External reference
CTCF regulates cell cycle progression of alphabeta T cells in the thymus
10.1038/emboj.2008.214 · 2008 · External reference
CTCF is dispensable for immune cell transdifferentiation but facilitates an acute inflammatory response
10.1038/s41588-020-0643-0 · 2020 · External reference
CTCF, Cohesin, and Chromatin in Human Cancer
10.5808/gi.2017.15.4.114 · 2017 · External reference
MYC reshapes CTCF-mediated chromatin architecture in prostate cancer
10.1038/s41467-023-37544-3 · 2023 · External reference
Epigenomic analysis of Alzheimer’s disease brains reveals diminished CTCF binding on genes involved in synaptic organization
10.1016/j.nbd.2023.106192 · 2023 · External reference
A Brief Review on Deep Learning Applications in Genomic Studies
10.3389/fsysb.2022.877717 · 2022 · External reference
Sequence and chromatin determinants of transcription factor binding and the establishment of cell type-specific binding patterns
10.1016/j.bbagrm.2019.194443 · 2020 · External reference
Deep Learning for Genomics: A Concise Overview. arXiv
2018 · External reference
Cross-species regulatory sequence activity prediction
10.1371/journal.pcbi.1008050 · 2020 · External reference
Effective gene expression prediction from sequence by integrating long-range interactions
10.1038/s41592-021-01252-x · 2021 · External reference
HiC-GNN: A generalizable model for 3D chromosome reconstruction using graph convolutional neural networks
10.1016/j.csbj.2022.12.051 · 2023 · External reference
A sequence-based global map of regulatory activity for deciphering human genetics
10.1038/s41588-022-01102-2 · 2022 · External reference
A Systematic Approach to Identify Candidate Transcription Factors that Control Cell Identity
10.1016/j.stemcr.2015.09.016 · 2015 · External reference
A handcuff model for the cohesin complex
10.1083/jcb.200801157 · 2008 · External reference
CTCF and cohesin: linking gene regulatory elements with their targets
10.1016/j.cell.2013.02.029 · 2013 · External reference
Genetics and Epigenetics of the Multifunctional Protein CTCF
2008 · External reference
Multi-feature clustering of CTCF binding creates robustness for loop extrusion blocking and Topologically Associating Domain boundaries
10.1038/s41467-023-41265-y · 2023 · External reference
CTCF controls three-dimensional enhancer network underlying the inflammatory response of bone marrow-derived dendritic cells
10.1038/s41467-023-36948-5 · 2023 · External reference
The oncogenic transcription factor IRF4 is regulated by a novel CD30/NF-κB positive feedback loop in peripheral T-cell lymphoma
10.1182/blood-2014-05-578575 · 2015 · External reference
Nucleotide Transformer: building and evaluating robust foundation models for human genomics
10.1038/s41592-024-02523-z · 2025 · External reference
HiChIP: efficient and sensitive analysis of protein-directed genome architecture
10.1038/nmeth.3999 · 2016 · External reference
Mapping of long-range chromatin interactions by proximity ligation-assisted ChIP-seq
10.1038/cr.2016.137 · 2016 · External reference
CRISPR Inversion of CTCF Sites Alters Genome Topology and Enhancer/Promoter Function
10.1016/j.cell.2015.07.038 · 2015 · External reference
A CRISPR-Cas9 screen identifies essential CTCF anchor sites for estrogen receptor-driven breast cancer cell proliferation
10.1093/nar/gkz675 · 2019 · External reference
Progress in single-cell multimodal sequencing and multi-omics data integration
10.1007/s12551-023-01092-3 · 2023 · External reference
Single nucleus multi-omics identifies human cortical cell regulatory genome diversity
10.1016/j.xgen.2022.100107 · 2022 · External reference
Architectural protein subclasses shape 3D organization of genomes during lineage commitment
10.1016/j.cell.2013.04.053 · 2013 · External reference
Integrative modeling reveals the principles of multi-scale chromatin boundary formation in human nuclear organization
10.1186/s13059-015-0661-x · 2015 · External reference
monaLisa: an R/Bioconductor package for identifying regulatory motifs
10.1093/bioinformatics/btac102 · 2022 · External reference
JASPAR 2020: update of the open-access database of transcription factor binding profiles
2020 · External reference
ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization
10.1093/bioinformatics/btv145 · 2015 · External reference
Exploring Epigenomic Datasets by ChIPseeker
10.1002/cpz1.585 · 2022 · External reference
Expanded encyclopaedias of DNA elements in the human and mouse genomes
10.1038/s41586-020-2493-4 · 2020 · External reference
GREAT improves functional interpretation of cis-regulatory regions
10.1038/nbt.1630 · 2010 · External reference
bwtool: a tool for bigWig files
10.1093/bioinformatics/btu056 · 2014 · External reference
The STRING database in 2023: protein-protein association networks and functional enrichment analyses for any sequenced genome of interest
10.1093/nar/gkac1000 · 2023 · External reference
Topologically associating domain boundaries that are stable across diverse cell types are evolutionarily constrained and enriched for heritability
10.1016/j.ajhg.2021.01.001 · 2021 · External reference
