YBX1 [The Human Chemical-Genetic Interaction Map Project]

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======= YBX1 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: YBX1
  * **<color #00a2e8>Official Name</color>**: Y-box binding protein 1
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=4904|4904]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/P67809|P67809]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=YBX1&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20YBX1|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/154030|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  Mediates pre-mRNA alternative splicing regulation. Binds to splice sites in pre-mRNA and regulates splice site selection. Binds and stabilizes cytoplasmic mRNA. Contributes to the regulation of translation by modulating the interaction between the mRNA and eukaryotic initiation factors (By similarity). Regulates the transcription of numerous genes. Its transcriptional activity on the multidrug resistance gene MDR1 is enhanced in presence of the APEX1 acetylated form at 'Lys-6' and 'Lys-7'. Binds to promoters that contain a Y-box (5'-CTGATTGGCCAA-3'), such as MDR1 and HLA class II genes. Promotes separation of DNA strands that contain mismatches or are modified by cisplatin. Has endonucleolytic activity and can introduce nicks or breaks into double-stranded DNA (in vitro). May play a role in DNA repair. Component of the CRD-mediated complex that promotes MYC mRNA stability. Binds preferentially to the 5'-[CU]CUGCG-3' motif in vitro. {ECO:0000250, ECO:0000269|PubMed:10817758, ECO:0000269|PubMed:11698476, ECO:0000269|PubMed:12604611, ECO:0000269|PubMed:14718551, ECO:0000269|PubMed:18335541, ECO:0000269|PubMed:18809583, ECO:0000269|PubMed:19029303, ECO:0000269|PubMed:19483673}.

<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'>
|CSD|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|CRD-mediated mRNA stabilization|
|CRD-mediated mRNA stability complex|
|histone pre-mRNA 3end processing complex|
|protein localization to cytoplasmic stress granule|
|U12-type spliceosomal complex|
|GTPase binding|
|mRNA stabilization|
|RNA stabilization|
|negative regulation of mRNA catabolic process|
|negative regulation of RNA catabolic process|
|cytoplasmic stress granule|
|negative regulation of mRNA metabolic process|
|positive regulation of cell division|
|double-stranded DNA binding|
|single-stranded DNA binding|
|Notch signaling pathway|
|ribonucleoprotein complex|
|regulation of cell division|
|regulation of mRNA stability|
|regulation of RNA stability|
|regulation of mRNA catabolic process|
|nuclear membrane|
|negative regulation of cellular catabolic process|
|RNA splicing, via transesterification reactions with bulged adenosine as nucleophile|
|mRNA splicing, via spliceosome|
|RNA splicing, via transesterification reactions|
|negative regulation of catabolic process|
|regulation of mRNA metabolic process|
|RNA splicing|
|DNA-binding transcription activator activity, RNA polymerase II-specific|
|mRNA processing|
|transcription by RNA polymerase II|
|RNA polymerase II proximal promoter sequence-specific DNA binding|
|posttranscriptional regulation of gene expression|
|transcription, DNA-templated|
|nucleic acid-templated transcription|
|RNA biosynthetic process|
|DNA-binding transcription factor activity|
|intracellular membrane-bounded organelle|
|mRNA metabolic process|
|protein localization to organelle|
|regulation of cellular catabolic process|
|RNA processing|
|regulation of catabolic process|
|nucleobase-containing compound biosynthetic process|
|heterocycle biosynthetic process|
|aromatic compound biosynthetic process|
|positive regulation of transcription by RNA polymerase II|
|organic cyclic compound biosynthetic process|
|negative regulation of RNA metabolic process|
|RNA binding|
|negative regulation of nucleobase-containing compound metabolic process|
|DNA binding|
|positive regulation of transcription, DNA-templated|
|DNA-binding transcription factor activity, RNA polymerase II-specific|
|cellular protein localization|
|cellular macromolecule localization|
|cellular nitrogen compound biosynthetic process|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|RNA metabolic process|
|cellular macromolecule biosynthetic process|
|positive regulation of RNA metabolic process|
|macromolecule biosynthetic process|
|positive regulation of nucleobase-containing compound metabolic process|
|positive regulation of macromolecule biosynthetic process|
|extracellular region|
|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='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:exp416|Tubacin 1.6μM R07 exp416]]|-3.14|
|[[:results:exp434|Vemurafenib 6.6μM R08 exp434]]|-2.65|
|[[:results:exp89|Vemurafenib 6.6μM R02 exp89]]|-2.39|
|[[:results:exp504|MK2206 4μM R08 exp504]]|-2.27|
|[[:results:exp234|Ethanol 0.01 R05 exp234]]|-2.15|
|[[:results:exp407|Thapsigargin 0.005μM R07 exp407]]|-2.11|
|[[:results:exp216|Erlotinib 10μM R05 exp216]]|-1.94|
|[[:results:exp374|Latrunculin-B 10μM R07 exp374]]|-1.92|
|[[:results:exp360|Genistein 15μM R07 exp360]]|-1.87|
|[[:results:exp67|BVD-523 15μM R02 exp67]]|-1.86|
|[[:results:exp474|CR131-b 0.005μM R08 exp474]]|-1.85|
|[[:results:exp30|Rapamycin 10μM R00 exp30]]|-1.85|
|[[:results:exp485|GSK626616 14μM R08 exp485]]|-1.8|
|[[:results:exp357|Dorsomorphin 5μM R07 exp357]]|-1.79|
|[[:results:exp365|I-BRD9 4μM R07 exp365]]|-1.78|
|[[:results:exp35|TRAIL 5ng/ml R00 exp35]]|-1.75|
|[[:results:exp534|Trientine 500μM R08 exp534]]|-1.71|
|[[:results:exp11|CCCP 1μM R00 exp11]]|1.84|
|[[:results:exp501|Methotrexate 0.01μM R08 exp501]]|2.04|
|[[:results:exp335|Aminopterin 0.005μM R07 exp335]]|3.09|
|[[:results:exp6|Bortezomib 0.005μM R00 exp6]]|3.15|
</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: 152/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|1/1|
|909776.0|0/1|
|bile duct|4/28|
|blood|8/28|
|bone|10/26|
|breast|11/33|
|central nervous system|14/56|
|cervix|0/4|
|colorectal|4/17|
|esophagus|0/13|
|fibroblast|1/1|
|gastric|1/16|
|kidney|2/21|
|liver|4/20|
|lung|17/75|
|lymphocyte|2/16|
|ovary|3/26|
|pancreas|3/24|
|peripheral nervous system|5/16|
|plasma cell|8/15|
|prostate|1/1|
|skin|9/24|
|soft tissue|2/9|
|thyroid|0/2|
|upper aerodigestive|3/22|
|urinary tract|2/29|
|uterus|1/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 2156
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 9.43 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='YBX1 Expression in NALM6 Cells: 9.43'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>