Cellular epigenetics · target hub

CTCF

CTCF (CTCF)

CTCF is a DNA methylation / remodeling on the Epigenetics research axis. Validate with UniProt and literature. Indexed under "Topology & structural proteins" for antibodies and assay guidance.

Back to pathway overviewSearch: CTCFUniProt (Q9Y243)

Research notes

  • Combine with module neighbors to test non-redundant roles of CTCF.
  • Pair phospho/phenotypic readouts with stimulation and inhibitor controls.
  • Validate antibody clone and compartment; include KD/KO controls.

On the pathway hub (sections)

Genetic lesions & expression context (quick reference)

Type / exampleDomain / context (brief)
Expression contextTissue/cell-type–dependent expression
Rare variantsSporadic variants—require validation
Pathway couplingCo-occurs with neighboring nodes

Naming and prevalence vary—annotate clinically with authoritative databases.

Assay readouts for CTCF

  • 5mC/5hmC global or locus-specific (dot blot, pyroseq).
  • DNMT/TET activity and expression.
  • Bisulfite sequencing validation.
  • Passive dilution vs active demethylation kinetics.

CTCF experimental notes

Examples below reflect common literature and public resources (e.g., CCLE, DepMap)—validate genotypes, expression, and passage in your own stocks before committing assays.

[1] Cell lines commonly used for CTCF studies (examples)

  • Tool lines: HeLa, MCF-7, HCT116, HEK293T—screen by CTCF expression (CCLE/DepMap).
  • Combine with neighbors (RAD21, SMC1A, SMC3, STAG1) via KD/pharmacology.
  • Overexpression/rescue in HEK293T supports mechanism and IP.
  • Isogenic/CRISPR models separate dependency from bypass.

[2] Cell samples for CTCF Western blot

  • Whole-cell lysates; phosphatase inhibitors for phospho blots.
  • Optimize stimulation time courses per ligand/stress.
  • Controls: KD/KO or inhibitors.
  • BCA normalization; subcellular fractionation when needed.

[3] Tissue samples for CTCF Western blot

  • Matched tumor/adjacent frozen tissues.
  • Mouse models—mind species cross-reactivity.
  • Primary cells/PDCs when approved.
  • FFPE needs specialized extraction; frozen preferred for phospho.

[4] Cell samples for CTCF immunoprecipitation

  • Tagged overexpression: HEK293T FLAG/HA-CTCF.
  • Endogenous IP: high-expression lines.
  • Stimulation enriches interactions.
  • Controls: isotype IgG, empty vector, KO.

Human tissues and primary cells require ethics/IRB approval; tumors are heterogeneous—record histotype, site, and preservation conditions.

Bypass & related pathways

Models & genetics note

Overexpression vs endogenous CTCF can differ in dosage, splicing, and compartmentation.

Quick search presets

CTCFCTCF antibodyepigenetics antibody

CTCF-related antibodies (keyword-biased)

Adds CTCF keyword bias atop the 表观遗传学研究 antibody pool—if sparse, use presets above or global search.

Neighboring targets (same hub)

RAD21SMC1ASMC3STAG1STAG2YEATS2YEATS4

External databases & resources

FAQ

This content supports research reagents and pathway education—not medical advice. Annotate mutations, drug indications, and protocols with authoritative databases, datasheets, and institutional oversight.

Last reviewed: 2026-05-18

Related on this site

See the cellular epigenetics hub for neighboring targets—cross-check PI3K, MAPK, and transmembrane transport pages as needed.

Cellular epigenetics·PI3K/Akt/mTOR·MAPK/ERK·Receptor tyrosine kinase·Transmembrane transport