KDM4D [The Human Chemical-Genetic Interaction Map Project]

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======= KDM4D =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: KDM4D
  * **<color #00a2e8>Official Name</color>**: lysine demethylase 4D
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=55693|55693]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q6B0I6|Q6B0I6]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=KDM4D&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20KDM4D|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/609766|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  Histone demethylase that specifically demethylates 'Lys- 9' of histone H3, thereby playing a central role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27', H3 'Lys-36' nor H4 'Lys-20'. Demethylates both di- and trimethylated H3 'Lys- 9' residue, while it has no activity on monomethylated residues. Demethylation of Lys residue generates formaldehyde and succinate. {ECO:0000269|PubMed:16603238}.

<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'>
|JmjC|
|JmjN|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|negative regulation of histone H3-K9 trimethylation|
|negative regulation of histone H3-K9 methylation|
|regulation of histone H3-K9 trimethylation|
|positive regulation of chromatin binding|
|positive regulation of double-strand break repair via nonhomologous end joining|
|histone demethylase activity (H3-K9 specific)|
|pericentric heterochromatin|
|histone demethylase activity|
|histone H3-K9 demethylation|
|negative regulation of histone methylation|
|regulation of chromatin binding|
|regulation of histone H3-K9 methylation|
|dioxygenase activity|
|regulation of double-strand break repair via nonhomologous end joining|
|histone lysine demethylation|
|histone demethylation|
|positive regulation of double-strand break repair|
|protein demethylation|
|protein dealkylation|
|negative regulation of histone modification|
|histone methyltransferase complex|
|damaged DNA binding|
|site of double-strand break|
|negative regulation of chromatin organization|
|demethylation|
|regulation of histone methylation|
|positive regulation of DNA repair|
|cellular response to ionizing radiation|
|chromatin DNA binding|
|regulation of double-strand break repair|
|double-strand break repair via homologous recombination|
|recombinational repair|
|positive regulation of response to DNA damage stimulus|
|regulation of DNA repair|
|negative regulation of chromosome organization|
|blood microparticle|
|regulation of histone modification|
|response to ionizing radiation|
|chromatin remodeling|
|cellular response to radiation|
|positive regulation of binding|
|double-strand break repair|
|regulation of chromatin organization|
|positive regulation of DNA metabolic process|
|regulation of response to DNA damage stimulus|
|DNA recombination|
|cellular response to abiotic stimulus|
|cellular response to environmental stimulus|
|regulation of chromosome organization|
|regulation of DNA metabolic process|
|histone modification|
|negative regulation of organelle organization|
|covalent chromatin modification|
|regulation of binding|
|response to radiation|
|DNA repair|
|negative regulation of protein modification process|
|chromatin organization|
|negative regulation of cellular component organization|
|regulation of cellular response to stress|
|DNA metabolic process|
|cellular response to DNA damage stimulus|
|oxidation-reduction process|
|negative regulation of cellular protein metabolic process|
|chromosome organization|
|negative regulation of protein metabolic process|
|response to abiotic stimulus|
|regulation of organelle organization|
|regulation of protein phosphorylation|
|regulation of response to stress|
|regulation of phosphorylation|
|cellular response to stress|
|positive regulation of molecular function|
|regulation of phosphate metabolic process|
|regulation of phosphorus metabolic process|
|regulation of protein modification process|
|positive regulation of nucleobase-containing compound metabolic 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:exp218|A-395 10μM R05 exp218]]|1.83|
|[[:results:exp229|Dimethyloxaloylglycine 100μM R05 exp229]]|1.88|
|[[:results:exp185|L-BMAA 500 to 750μM on day4 R04 exp185]]|1.89|
|[[:results:exp295|Pyronaridine 1μM R06 exp295]]|2.09|
</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>**: 6656
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 1.37 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='KDM4D Expression in NALM6 Cells: 1.37'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>