======= SMARCB1 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: SMARCB1
  * **<color #00a2e8>Official Name</color>**: SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=6598|6598]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q12824|Q12824]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=SMARCB1&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20SMARCB1|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/601607|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  The protein encoded by this gene is part of a complex that relieves repressive chromatin structures, allowing the transcriptional machinery to access its targets more effectively. The encoded nuclear protein may also bind to and enhance the DNA joining activity of HIV-1 integrase. This gene has been found to be a tumor suppressor, and mutations in it have been associated with malignant rhabdoid tumors. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Dec 2015]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Core component of the BAF (hSWI/SNF) complex. This ATP- dependent chromatin-remodeling complex plays important roles in cell proliferation and differentiation, in cellular antiviral activities and inhibition of tumor formation. The BAF complex is able to create a stable, altered form of chromatin that constrains fewer negative supercoils than normal. This change in supercoiling would be due to the conversion of up to one-half of the nucleosomes on polynucleosomal arrays into asymmetric structures, termed altosomes, each composed of 2 histones octamers. Stimulates in vitro the remodeling activity of SMARCA4/BRG1/BAF190A. Involved in activation of CSF1 promoter. Belongs to the neural progenitors- specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a postmitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to postmitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth (By similarity). Plays a key role in cell-cycle control and causes cell cycle arrest in G0/G1. {ECO:0000250|UniProtKB:Q9Z0H3, ECO:0000269|PubMed:10078207, ECO:0000269|PubMed:12226744, ECO:0000269|PubMed:14604992, ECO:0000269|PubMed:16267391, ECO:0000269|PubMed:16314535, ECO:0000269|PubMed:9448295}.

<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'>
|SNF5|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|single stranded viral RNA replication via double stranded DNA intermediate|
|negative regulation of histone H3-K9 dimethylation|
|brahma complex|
|positive regulation of glucose mediated signaling pathway|
|regulation of glucose mediated signaling pathway|
|regulation of histone H3-K9 dimethylation|
|negative regulation of histone H3-K9 trimethylation|
|positive regulation of histone H4 acetylation|
|regulation of histone H4-K16 acetylation|
|RNA polymerase I CORE element sequence-specific DNA binding|
|positive regulation of histone H3-K9 acetylation|
|RNA polymerase I preinitiation complex assembly|
|Tat protein binding|
|positive regulation of transcription of nucleolar large rRNA by RNA polymerase I|
|negative regulation of histone H3-K9 methylation|
|regulation of histone H3-K9 trimethylation|
|npBAF complex|
|viral RNA genome replication|
|regulation of transcription of nucleolar large rRNA by RNA polymerase I|
|regulation of histone H4 acetylation|
|regulation of histone H3-K9 acetylation|
|nBAF complex|
|positive regulation by host of viral transcription|
|DNA integration|
|nucleosome disassembly|
|SWI/SNF complex|
|chromatin disassembly|
|negative regulation of histone methylation|
|protein-DNA complex disassembly|
|positive regulation of transcription by RNA polymerase I|
|regulation of histone H3-K9 methylation|
|viral genome replication|
|transcription preinitiation complex assembly|
|positive regulation of histone acetylation|
|regulation of transcription by RNA polymerase I|
|positive regulation of peptidyl-lysine acetylation|
|transcription initiation from RNA polymerase I promoter|
|transcription by RNA polymerase I|
|negative regulation of histone modification|
|positive regulation of protein acetylation|
|positive regulation of viral transcription|
|nucleosomal DNA binding|
|regulation of histone acetylation|
|negative regulation of chromatin organization|
|regulation of peptidyl-lysine acetylation|
|regulation of viral transcription|
|regulation of histone methylation|
|p53 binding|
|modification by host of symbiont morphology or physiology|
|regulation of protein acetylation|
|ATP-dependent chromatin remodeling|
|interaction with symbiont|
|positive regulation of histone modification|
|RNA polymerase II distal enhancer sequence-specific DNA binding|
|positive regulation of chromatin organization|
|positive regulation of viral process|
|modification of morphology or physiology of other organism involved in symbiotic interaction|
|fibrillar center|
|negative regulation of chromosome organization|
|regulation of histone modification|
|chromatin assembly or disassembly|
|modification of morphology or physiology of other organism|
|nucleosome organization|
|chromatin remodeling|
|positive regulation of chromosome organization|
|regulation of chromatin organization|
|protein-DNA complex assembly|
|viral life cycle|
|regulation of viral process|
|DNA-templated transcription, initiation|
|regulation of symbiosis, encompassing mutualism through parasitism|
|nuclear chromatin|
|protein-containing complex disassembly|
|protein-DNA complex subunit organization|
|positive regulation of DNA-binding transcription factor activity|
|transcription coactivator activity|
|regulation of chromosome organization|
|negative regulation of organelle organization|
|cellular component disassembly|
|regulation of DNA-binding transcription factor activity|
|RNA polymerase II proximal promoter sequence-specific DNA binding|
|positive regulation of multi-organism process|
|negative regulation of protein modification process|
|protein-containing complex|
|positive regulation of organelle organization|
|transcription, DNA-templated|
|nucleic acid-templated transcription|
|RNA biosynthetic process|
|intracellular membrane-bounded organelle|
|chromatin organization|
|viral process|
|negative regulation of cellular component organization|
|DNA metabolic process|
|regulation of multi-organism process|
|symbiotic process|
|interspecies interaction between organisms|
|cellular protein-containing complex assembly|
|nucleolus|
|negative regulation of cellular protein metabolic process|
|chromosome organization|
|nucleobase-containing compound biosynthetic process|
|negative regulation of protein metabolic process|
|heterocycle biosynthetic process|
|aromatic compound biosynthetic process|
|positive regulation of cellular component organization|
|positive regulation of transcription by RNA polymerase II|
|positive regulation of protein modification process|
|regulation of organelle organization|
|organic cyclic compound biosynthetic process|
|cell cycle|
|DNA binding|
|positive regulation of transcription, DNA-templated|
|protein-containing complex assembly|
|positive regulation of cellular protein metabolic process|
|cellular nitrogen compound biosynthetic process|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|positive regulation of signal transduction|
|RNA metabolic process|
|positive regulation of protein metabolic process|
|cellular macromolecule biosynthetic process|
|positive regulation of RNA metabolic process|
|macromolecule biosynthetic process|
|positive regulation of molecular function|
|positive regulation of cell communication|
|positive regulation of signaling|
|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|
|gene expression|
|positive regulation of biosynthetic process|
</modal>
\\

 === CRISPR Data ===
<button type='primary' size='small' modal='Compound_Hit'>Compound Hit</button>
<button type='primary' 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:exp35|TRAIL 5ng/ml R00 exp35]]|1.73|
|[[:results:exp365|I-BRD9 4μM R07 exp365]]|1.96|
|[[:results:exp36|TRAIL 50ng/ml R00 exp36]]|2.19|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:s:smarcc1|SMARCC1]]|0.425|
|[[:human genes:a:arid1a|ARID1A]]|0.413|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 483/726
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|18/28|
|blood|24/28|
|bone|12/25|
|breast|26/33|
|central nervous system|41/56|
|cervix|1/4|
|colorectal|8/17|
|esophagus|9/13|
|fibroblast|1/1|
|gastric|10/15|
|kidney|6/21|
|liver|10/20|
|lung|57/75|
|lymphocyte|13/14|
|ovary|14/26|
|pancreas|18/24|
|peripheral nervous system|12/16|
|plasma cell|12/15|
|prostate|1/1|
|skin|19/24|
|soft tissue|3/7|
|thyroid|1/2|
|upper aerodigestive|13/22|
|urinary tract|24/29|
|uterus|3/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 657
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 6.89 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='SMARCB1 Expression in NALM6 Cells: 6.89'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>