CHD5 [The Human Chemical-Genetic Interaction Map Project]

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======= CHD5 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: CHD5
  * **<color #00a2e8>Official Name</color>**: chromodomain helicase DNA binding protein 5
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=26038|26038]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q8TDI0|Q8TDI0]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=CHD5&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20CHD5|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/610771|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  Chromatin-remodeling protein that binds DNA through histones and regulates gene transcription. May specifically recognize and bind trimethylated 'Lys-27' (H3K27me3) and non- methylated 'Lys-4' of histone H3. Plays a role in the development of the nervous system by activating the expression of genes promoting neuron terminal differentiation. In parallel, it may also positively regulate the trimethylation of histone H3 at 'Lys- 27' thereby specifically repressing genes that promote the differentiation into non-neuronal cell lineages. Tumor suppressor, it regulates the expression of genes involved in cell proliferation and differentiation. Downstream activated genes may include CDKN2A that positively regulates the p53/TP53 pathway, which in turn, prevents cell proliferation. In spermatogenesis, it probably regulates histone hyperacetylation and the replacement of histones by transition proteins in chromatin, a crucial step in the condensation of spermatid chromatin and the production of functional spermatozoa. {ECO:0000269|PubMed:23948251}.

<button type='primary' 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'>
|CHDNT|
|Chromo|
|PHD|
|DUF1086|
|DUF1087|
|CHDCT2|
|SNF2 N|
|Helicase C|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|H3K27me3 modified histone binding|
|histone H3-K27 trimethylation|
|spermatogenesis, exchange of chromosomal proteins|
|histone H3-K27 methylation|
|sperm chromatin condensation|
|NuRD complex|
|regulation of transcription involved in cell fate commitment|
|spermatid nucleus differentiation|
|positive regulation of signal transduction by p53 class mediator|
|cerebral cortex neuron differentiation|
|heterochromatin|
|histone exchange|
|histone H4 acetylation|
|DNA helicase activity|
|histone lysine methylation|
|ATP-dependent chromatin remodeling|
|peptidyl-lysine methylation|
|histone methylation|
|DNA duplex unwinding|
|histone acetylation|
|internal peptidyl-lysine acetylation|
|DNA geometric change|
|peptidyl-lysine acetylation|
|internal protein amino acid acetylation|
|nucleus organization|
|protein alkylation|
|protein methylation|
|protein acetylation|
|spermatid development|
|nucleosome organization|
|spermatid differentiation|
|chromatin remodeling|
|DNA packaging|
|central nervous system neuron differentiation|
|regulation of signal transduction by p53 class mediator|
|protein acylation|
|protein-DNA complex subunit organization|
|cell fate commitment|
|macromolecule methylation|
|germ cell development|
|DNA conformation change|
|methylation|
|peptidyl-lysine modification|
|cellular process involved in reproduction in multicellular organism|
|histone modification|
|covalent chromatin modification|
|forebrain development|
|nuclear speck|
|spermatogenesis|
|male gamete generation|
|developmental process involved in reproduction|
|negative regulation of cell population proliferation|
|gamete generation|
|chromatin organization|
|brain development|
|head development|
|multicellular organismal reproductive process|
|sexual reproduction|
|multicellular organism reproduction|
|peptidyl-amino acid modification|
|central nervous system development|
|multi-organism reproductive process|
|neuron differentiation|
|positive regulation of intracellular signal transduction|
|chromosome organization|
|reproductive process|
|reproduction|
|DNA binding|
|ATP binding|
|generation of neurons|
|regulation of cell population proliferation|
|neurogenesis|
|cell development|
|positive regulation of signal transduction|
|positive regulation of cell communication|
|positive regulation of signaling|
|regulation of intracellular signal transduction|
|protein-containing complex subunit organization|
|membrane|
</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:exp146|Quinacrine 2.5μM R03 exp146]]|-2.14|
|[[:results:exp191|Hypoxia 5%O2 R04 exp191]]|-2.03|
|[[:results:exp50|Nicotinamide 2000μM R01 exp50]]|-1.96|
|[[:results:exp85|UM0129480 7μM R02 exp85]]|-1.79|
|[[:results:exp446|4-Nitroquinoline-1-oxide 0.5μM R08 exp446]]|-1.78|
|[[:results:exp169|BH1 1μM R04 exp169]]|-1.71|
|[[:results:exp443|SNS-032 15μM R08 exp443]]|1.72|
</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: 0/726
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|0/28|
|blood|0/28|
|bone|0/25|
|breast|0/33|
|central nervous system|0/56|
|cervix|0/4|
|colorectal|0/17|
|esophagus|0/13|
|fibroblast|0/1|
|gastric|0/15|
|kidney|0/21|
|liver|0/20|
|lung|0/75|
|lymphocyte|0/14|
|ovary|0/26|
|pancreas|0/24|
|peripheral nervous system|0/16|
|plasma cell|0/15|
|prostate|0/1|
|skin|0/24|
|soft tissue|0/7|
|thyroid|0/2|
|upper aerodigestive|0/22|
|urinary tract|0/29|
|uterus|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 13359
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 2.64 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='CHD5 Expression in NALM6 Cells: 2.64'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>