KDM5B [The Human Chemical-Genetic Interaction Map Project]

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======= KDM5B =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: KDM5B
  * **<color #00a2e8>Official Name</color>**: lysine demethylase 5B
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=10765|10765]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q9UGL1|Q9UGL1]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=KDM5B&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20KDM5B|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/605393|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes a lysine-specific histone demethylase that belongs to the jumonji/ARID domain-containing family of histone demethylases. The encoded protein is capable of demethylating tri-, di- and monomethylated lysine 4 of histone H3. This protein plays a role in the transcriptional repression or certain tumor suppressor genes and is upregulated in certain cancer cells. This protein may also play a role in genome stability and DNA repair. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Nov 2016]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Histone demethylase that demethylates 'Lys-4' of histone H3, thereby playing a central role in histone code (PubMed:24952722, PubMed:27214403, PubMed:28262558). Does not demethylate histone H3 'Lys-9' or H3 'Lys-27'. Demethylates trimethylated, dimethylated and monomethylated H3 'Lys-4'. Acts as a transcriptional corepressor for FOXG1B and PAX9. Favors the proliferation of breast cancer cells by repressing tumor suppressor genes such as BRCA1 and HOXA5 (PubMed:24952722). In contrast, may act as a tumor suppressor for melanoma. Represses the CLOCK-ARNTL/BMAL1 heterodimer-mediated transcriptional activation of the core clock component PER2 (By similarity). {ECO:0000250|UniProtKB:Q80Y84, ECO:0000269|PubMed:12657635, ECO:0000269|PubMed:16645588, ECO:0000269|PubMed:17320161, ECO:0000269|PubMed:17363312, ECO:0000269|PubMed:24952722, ECO:0000269|PubMed:26645689, ECO:0000269|PubMed:26741168, ECO:0000269|PubMed:27214403, ECO:0000269|PubMed:28262558}.

<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'>
|JmjN|
|JmjC|
|zf-C5HC2|
|ARID|
|PLU-1|
|PHD|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|regulation of estradiol secretion|
|mammary duct terminal end bud growth|
|histone demethylase activity (H3-dimethyl-K4 specific)|
|histone demethylase activity (H3-trimethyl-K4 specific)|
|histone demethylase activity (H3-K4 specific)|
|histone H3-K4 demethylation, trimethyl-H3-K4-specific|
|uterus morphogenesis|
|histone H3-K4 demethylation|
|positive regulation of mammary gland epithelial cell proliferation|
|response to fungicide|
|sequence-specific double-stranded DNA binding|
|histone demethylase activity|
|regulation of mammary gland epithelial cell proliferation|
|uterus development|
|branching involved in mammary gland duct morphogenesis|
|dioxygenase activity|
|lens fiber cell differentiation|
|histone lysine demethylation|
|histone demethylation|
|protein demethylation|
|mammary gland duct morphogenesis|
|protein dealkylation|
|histone methyltransferase complex|
|mammary gland morphogenesis|
|mammary gland epithelium development|
|demethylation|
|lens development in camera-type eye|
|post-embryonic development|
|response to leukemia inhibitory factor|
|cellular response to leukemia inhibitory factor|
|gland morphogenesis|
|regulation of lipid transport|
|cellular response to fibroblast growth factor stimulus|
|developmental growth involved in morphogenesis|
|response to fibroblast growth factor|
|mammary gland development|
|branching morphogenesis of an epithelial tube|
|histone binding|
|regulation of lipid localization|
|single fertilization|
|morphogenesis of a branching epithelium|
|chromatin remodeling|
|morphogenesis of a branching structure|
|fertilization|
|positive regulation of epithelial cell proliferation|
|transcription corepressor activity|
|regulation of hormone secretion|
|rhythmic process|
|response to antibiotic|
|epithelial tube morphogenesis|
|camera-type eye development|
|regulation of epithelial cell proliferation|
|eye development|
|visual system development|
|histone modification|
|sensory system development|
|covalent chromatin modification|
|developmental growth|
|growth|
|gland development|
|reproductive structure development|
|reproductive system development|
|morphogenesis of an epithelium|
|cellular response to growth factor stimulus|
|response to toxic substance|
|response to growth factor|
|regulation of hormone levels|
|sensory organ development|
|tissue morphogenesis|
|tube morphogenesis|
|developmental process involved in reproduction|
|DNA-binding transcription factor activity|
|epithelial cell differentiation|
|chromatin organization|
|regulation of secretion by cell|
|regulation of secretion|
|sexual reproduction|
|zinc ion binding|
|tube development|
|positive regulation of cell population proliferation|
|animal organ morphogenesis|
|oxidation-reduction process|
|multi-organism reproductive process|
|cellular response to cytokine stimulus|
|chromosome organization|
|response to cytokine|
|epithelium development|
|negative regulation of transcription, DNA-templated|
|cellular response to endogenous stimulus|
|negative regulation of nucleic acid-templated transcription|
|negative regulation of RNA biosynthetic process|
|negative regulation of RNA metabolic process|
|positive regulation of developmental process|
|negative regulation of cellular macromolecule biosynthetic process|
|reproductive process|
|reproduction|
|negative regulation of nucleobase-containing compound metabolic process|
|DNA binding|
|negative regulation of macromolecule biosynthetic process|
|response to endogenous stimulus|
|negative regulation of cellular biosynthetic process|
|negative regulation of biosynthetic process|
|DNA-binding transcription factor activity, RNA polymerase II-specific|
|regulation of cell population proliferation|
|negative regulation of gene expression|
|positive regulation of multicellular organismal process|
|tissue development|
|regulation of transport|
|positive regulation of gene expression|
</modal>
\\

 === CRISPR Data ===
<button type='default' 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'>
No hits were found.
</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>**: 7451
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 6.71 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='KDM5B Expression in NALM6 Cells: 6.71'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>