VIPAS39 [The Human Chemical-Genetic Interaction Map Project]

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======= VIPAS39 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: VIPAS39
  * **<color #00a2e8>Official Name</color>**: VPS33B interacting protein, apical-basolateral polarity regulator, spe-39 homolog
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=63894|63894]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q9H9C1|Q9H9C1]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=VIPAS39&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20VIPAS39|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/613401|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes a protein involved in the sorting of lysosomal proteins. Mutations in this gene are associated with ARCS2 (arthrogryposis, renal dysfunction, and cholestasis-2). Alternative splicing results in multiple transcript variants.[provided by RefSeq, Jul 2010]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Proposed to be involved in endosomal maturation implicating in part VPS33B. In epithelial cells, the VPS33B:VIPAS39 complex may play a role in the apical RAB11A- dependent recycling pathway and in the maintenance of the apical- basolateral polarity (PubMed:20190753). May play a role in lysosomal trafficking, probably via association with the core HOPS complex in a discrete population of endosomes; the functions seems to be indepenedent of VPS33B (PubMed:19109425). May play a role in vesicular trafficking during spermatogenesis (By similarity). May be involved in direct or indirect transcriptional regulation of E- cadherin (By similarity). {ECO:0000250|UniProtKB:Q23288, ECO:0000269|PubMed:19109425, ECO:0000269|PubMed:20190753}.

<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'>
|Vps16 C|
|Golgin A5|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|peptidyl-lysine hydroxylation|
|HOPS complex|
|protein hydroxylation|
|autophagosome maturation|
|collagen fibril organization|
|endosome to lysosome transport|
|collagen metabolic process|
|lysosomal transport|
|recycling endosome|
|late endosome|
|vacuolar transport|
|macroautophagy|
|protein-containing complex disassembly|
|early endosome|
|autophagy|
|process utilizing autophagic mechanism|
|protein-containing complex binding|
|peptidyl-lysine modification|
|extracellular matrix organization|
|post-translational protein modification|
|extracellular structure organization|
|cellular component disassembly|
|supramolecular fiber organization|
|spermatogenesis|
|male gamete generation|
|gamete generation|
|multicellular organismal reproductive process|
|sexual reproduction|
|multicellular organism reproduction|
|peptidyl-amino acid modification|
|Golgi apparatus|
|intracellular protein transport|
|multi-organism reproductive process|
|reproductive process|
|reproduction|
|protein transport|
|intracellular transport|
|peptide transport|
|amide transport|
|cellular protein localization|
|cellular macromolecule localization|
|establishment of protein localization|
|cellular catabolic process|
|establishment of localization in cell|
|nitrogen compound transport|
|protein-containing complex subunit organization|
|vesicle-mediated transport|
</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]]|-1.96|
|[[:results:exp75|MK-1775 0.32μM R02 exp75]]|-1.79|
|[[:results:exp156|UNC2400 2μM R03 exp156]]|-1.7|
</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: 0/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|0/28|
|blood|0/28|
|bone|0/26|
|breast|0/33|
|central nervous system|0/56|
|cervix|0/4|
|colorectal|0/17|
|esophagus|0/13|
|fibroblast|0/1|
|gastric|0/16|
|kidney|0/21|
|liver|0/20|
|lung|0/75|
|lymphocyte|0/16|
|ovary|0/26|
|pancreas|0/24|
|peripheral nervous system|0/16|
|plasma cell|0/15|
|prostate|0/1|
|skin|0/24|
|soft tissue|0/9|
|thyroid|0/2|
|upper aerodigestive|0/22|
|urinary tract|0/29|
|uterus|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 14332
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 4.56 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='VIPAS39 Expression in NALM6 Cells: 4.56'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>