CTCF [The Human Chemical-Genetic Interaction Map Project]

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======= CTCF =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: CTCF
  * **<color #00a2e8>Official Name</color>**: CCCTC-binding factor
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=10664|10664]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/P49711|P49711]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=CTCF&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20CTCF|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/604167|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene is a member of the BORIS + CTCF gene family and encodes a transcriptional regulator protein with 11 highly conserved zinc finger (ZF) domains. This nuclear protein is able to use different combinations of the ZF domains to bind different DNA target sequences and proteins. Depending upon the context of the site, the protein can bind a histone acetyltransferase (HAT)-containing complex and function as a transcriptional activator or bind a histone deacetylase (HDAC)-containing complex and function as a transcriptional repressor. If the protein is bound to a transcriptional insulator element, it can block communication between enhancers and upstream promoters, thereby regulating imprinted expression. Mutations in this gene have been associated with invasive breast cancers, prostate cancers, and Wilms' tumors. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2010]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Chromatin binding factor that binds to DNA sequence specific sites. Involved in transcriptional regulation by binding to chromatin insulators and preventing interaction between promoter and nearby enhancers and silencers. Acts as transcriptional repressor binding to promoters of vertebrate MYC gene and BAG1 gene. Also binds to the PLK and PIM1 promoters. Acts as a transcriptional activator of APP. Regulates APOA1/C3/A4/A5 gene cluster and controls MHC class II gene expression. Plays an essential role in oocyte and preimplantation embryo development by activating or repressing transcription. Seems to act as tumor suppressor. Plays a critical role in the epigenetic regulation. Participates in the allele-specific gene expression at the imprinted IGF2/H19 gene locus. On the maternal allele, binding within the H19 imprinting control region (ICR) mediates maternally inherited higher-order chromatin conformation to restrict enhancer access to IGF2. Plays a critical role in gene silencing over considerable distances in the genome. Preferentially interacts with unmethylated DNA, preventing spreading of CpG methylation and maintaining methylation-free zones. Inversely, binding to target sites is prevented by CpG methylation. Plays a important role in chromatin remodeling. Can dimerize when it is bound to different DNA sequences, mediating long-range chromatin looping. Mediates interchromosomal association between IGF2/H19 and WSB1/NF1 and may direct distant DNA segments to a common transcription factory. Causes local loss of histone acetylation and gain of histone methylation in the beta-globin locus, without affecting transcription. When bound to chromatin, it provides an anchor point for nucleosomes positioning. Seems to be essential for homologous X-chromosome pairing. May participate with Tsix in establishing a regulatable epigenetic switch for X chromosome inactivation. May play a role in preventing the propagation of stable methylation at the escape genes from X- inactivation. Involved in sister chromatid cohesion. Associates with both centromeres and chromosomal arms during metaphase and required for cohesin localization to CTCF sites. Regulates asynchronous replication of IGF2/H19. Plays a role in the recruitment of CENPE to the pericentromeric/centromeric regions of the chromosome during mitosis (PubMed:26321640). {ECO:0000269|PubMed:11743158, ECO:0000269|PubMed:16815976, ECO:0000269|PubMed:17827499, ECO:0000269|PubMed:18347100, ECO:0000269|PubMed:18413740, ECO:0000269|PubMed:18550811, ECO:0000269|PubMed:18654629, ECO:0000269|PubMed:19322193, ECO:0000269|PubMed:26321640, ECO:0000269|PubMed:8649389, ECO:0000269|PubMed:9591631}.

<button type='default' size='sm' modal='Pfam_Domains'>Pfam Domains</button>
<button type='primary' size='sm' modal='GO_terms'>GO Terms</button>


<modal id='Pfam_Domains' size='lg' title='Pfam Domains'>
No Pfam Domain information is available for this gene.
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|chromatin insulator sequence binding|
|regulation of molecular function, epigenetic|
|regulation of centromeric sister chromatid cohesion|
|maintenance of DNA methylation|
|protein localization to chromosome, centromeric region|
|nucleosome positioning|
|regulation of gene expression by genetic imprinting|
|regulation of sister chromatid cohesion|
|genetic imprinting|
|condensed chromosome|
|DNA alkylation|
|DNA methylation|
|chromosome, centromeric region|
|regulation of histone acetylation|
|regulation of peptidyl-lysine acetylation|
|protein localization to chromosome|
|regulation of histone methylation|
|DNA methylation or demethylation|
|regulation of protein acetylation|
|regulation of sister chromatid segregation|
|DNA modification|
|regulation of chromosome segregation|
|chromatin assembly|
|regulation of histone modification|
|chromatin assembly or disassembly|
|nucleosome organization|
|DNA packaging|
|regulation of chromatin organization|
|transcription regulatory region DNA binding|
|regulation of gene expression, epigenetic|
|transcription corepressor activity|
|protein-DNA complex subunit organization|
|DNA-binding transcription repressor activity, RNA polymerase II-specific|
|macromolecule methylation|
|chromosome segregation|
|DNA conformation change|
|methylation|
|regulation of chromosome organization|
|sequence-specific DNA binding|
|DNA-binding transcription activator activity, RNA polymerase II-specific|
|RNA polymerase II proximal promoter sequence-specific DNA binding|
|negative regulation of cell population proliferation|
|DNA-binding transcription factor activity|
|chromatin organization|
|protein localization to organelle|
|DNA metabolic process|
|regulation of cell cycle process|
|zinc ion binding|
|nucleolus|
|negative regulation of transcription by RNA polymerase II|
|chromosome organization|
|regulation of cell cycle|
|negative regulation of transcription, DNA-templated|
|positive regulation of transcription by RNA polymerase II|
|negative regulation of nucleic acid-templated transcription|
|negative regulation of RNA biosynthetic process|
|regulation of organelle organization|
|negative regulation of RNA metabolic process|
|negative regulation of cellular macromolecule biosynthetic process|
|negative regulation of nucleobase-containing compound metabolic process|
|negative regulation of macromolecule biosynthetic process|
|negative regulation of cellular biosynthetic process|
|positive regulation of transcription, DNA-templated|
|negative regulation of biosynthetic process|
|DNA-binding transcription factor activity, RNA polymerase II-specific|
|cellular protein localization|
|cellular macromolecule localization|
|regulation of cell population proliferation|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|negative regulation of gene expression|
|positive regulation of RNA metabolic process|
|regulation of protein modification process|
|protein-containing complex subunit organization|
|positive regulation of nucleobase-containing compound metabolic process|
|positive regulation of macromolecule biosynthetic process|
|positive regulation of cellular biosynthetic process|
|positive regulation of gene expression|
|positive regulation of biosynthetic process|
</modal>
\\

 === CRISPR Data ===
<button type='primary' size='small' modal='Compound_Hit'>Compound Hit</button>
<button type='default' size='small' modal='Most_Correlated_Genes'>Most Correlated Genes in Chemogenomics</button>
<button type='primary' size='small' modal='Essential_Avana'>Tissues where Essential in the Avana Dataset (DepMap 20Q1)</button>

<modal id='Compound_Hit' size='lg' title='Compound Hit'>
^Screen^Score^
|[[:results:exp282|Fluvastatin 2.2μM R06 exp282]]|-2.67|
|[[:results:exp352|Dexamethasone 0.006 to 0.015μM on day4 R07 exp352]]|-2.27|
|[[:results:exp329|Hydroxyurea 100μM R07 exp329]]|-2.15|
|[[:results:exp351|Dexamethasone 0.006μM R07 exp351]]|-2.11|
|[[:results:exp36|TRAIL 50ng/ml R00 exp36]]|-2.01|
|[[:results:exp35|TRAIL 5ng/ml R00 exp35]]|-1.9|
|[[:results:exp498|Lead acetate 2000μM R08 exp498 no dilution day6]]|-1.87|
|[[:results:exp365|I-BRD9 4μM R07 exp365]]|-1.86|
|[[:results:exp436|Dynasore 7μM R08 exp436]]|-1.76|
|[[:results:exp21|MLN-4924 0.2μM R00 exp21]]|-1.74|
|[[:results:exp175|3-Bromopyruvate 7μM R04 exp175]]|-1.72|
|[[:results:exp500|LY2090314 0.003μM R08 exp500 no dilution day6]]|1.7|
|[[:results:exp363|GSK-J4 1-1.25μM to day4 R07 exp363]]|1.72|
|[[:results:exp93|DABN racemic mixture R03 exp93]]|2.08|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
No correlation found to any other genes in chemogenomics.
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 724/726
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|1/1|
|909776.0|1/1|
|bile duct|28/28|
|blood|28/28|
|bone|25/25|
|breast|33/33|
|central nervous system|56/56|
|cervix|4/4|
|colorectal|17/17|
|esophagus|13/13|
|fibroblast|1/1|
|gastric|15/15|
|kidney|21/21|
|liver|20/20|
|lung|75/75|
|lymphocyte|13/14|
|ovary|26/26|
|pancreas|24/24|
|peripheral nervous system|16/16|
|plasma cell|15/15|
|prostate|1/1|
|skin|24/24|
|soft tissue|7/7|
|thyroid|2/2|
|upper aerodigestive|22/22|
|urinary tract|29/29|
|uterus|5/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 2525
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 7.42 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='CTCF Expression in NALM6 Cells: 7.42'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>