HMGA1 [The Human Chemical-Genetic Interaction Map Project]

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======= HMGA1 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: HMGA1
  * **<color #00a2e8>Official Name</color>**: high mobility group AT-hook 1
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=3159|3159]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/P17096|P17096]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=HMGA1&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20HMGA1|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/600701|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene encodes a chromatin-associated protein involved in the regulation of gene transcription, integration of retroviruses into chromosomes, and the metastatic progression of cancer cells. The encoded protein preferentially binds to the minor groove of AT-rich regions in double-stranded DNA. Multiple transcript variants encoding different isoforms have been found for this gene. Pseudogenes of this gene have been identified on multiple chromosomes. [provided by RefSeq, Jan 2016]. 
  * **<color #00a2e8>UniProt Summary</color>**:  HMG-I/Y bind preferentially to the minor groove of A+T rich regions in double-stranded DNA. It is suggested that these proteins could function in nucleosome phasing and in the 3'-end processing of mRNA transcripts. They are also involved in the transcription regulation of genes containing, or in close proximity to A+T-rich regions.

<button type='default' 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'>
No Pfam Domain information is available for this gene.
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|structural constituent of chromatin|
|oncogene-induced cell senescence|
|senescence-associated heterochromatin focus|
|senescence-associated heterochromatin focus assembly|
|establishment of integrated proviral latency|
|heterochromatin assembly|
|establishment of viral latency|
|AT DNA binding|
|viral latency|
|peroxisome proliferator activated receptor binding|
|DNA-(apurinic or apyrimidinic site) endonuclease activity|
|positive regulation of cellular senescence|
|retinoic acid receptor binding|
|DNA unwinding involved in DNA replication|
|positive regulation of cell aging|
|heterochromatin organization|
|retinoid X receptor binding|
|nucleosome disassembly|
|chromatin disassembly|
|negative regulation of chromatin silencing|
|protein-DNA complex disassembly|
|enhancer sequence-specific DNA binding|
|cellular senescence|
|negative regulation of gene silencing|
|regulation of chromatin silencing|
|base-excision repair|
|regulation of cellular senescence|
|regulation of cell aging|
|negative regulation of chromatin organization|
|positive regulation of gene expression, epigenetic|
|cell aging|
|nuclear receptor transcription coactivator activity|
|RNA polymerase II transcription factor complex|
|DNA duplex unwinding|
|DNA geometric change|
|DNA-dependent DNA replication|
|regulation of gene silencing|
|chromatin assembly|
|negative regulation of chromosome organization|
|chromatin assembly or disassembly|
|nucleosome organization|
|chromatin remodeling|
|DNA packaging|
|regulation of chromatin organization|
|transcription factor complex|
|DNA replication|
|regulation of gene expression, epigenetic|
|protein-containing complex disassembly|
|protein-DNA complex subunit organization|
|nuclear transport|
|aging|
|response to virus|
|transcription coactivator activity|
|DNA conformation change|
|transcription factor binding|
|enzyme binding|
|regulation of chromosome organization|
|negative regulation of organelle organization|
|chromatin binding|
|cellular component disassembly|
|focal adhesion|
|DNA repair|
|negative regulation of cell population proliferation|
|chromatin organization|
|viral process|
|negative regulation of cellular component organization|
|regulation of cellular response to stress|
|DNA metabolic process|
|cellular response to DNA damage stimulus|
|symbiotic process|
|interspecies interaction between organisms|
|chromosome organization|
|negative regulation of transcription, DNA-templated|
|positive regulation of transcription by RNA polymerase II|
|negative regulation of nucleic acid-templated transcription|
|negative regulation of RNA biosynthetic process|
|regulation of organelle organization|
|response to other organism|
|response to external biotic stimulus|
|response to biotic stimulus|
|negative regulation of RNA metabolic process|
|positive regulation of developmental process|
|negative regulation of cellular macromolecule biosynthetic process|
|negative regulation of nucleobase-containing compound metabolic process|
|DNA binding|
|negative regulation of macromolecule biosynthetic process|
|regulation of response to stress|
|negative regulation of cellular biosynthetic process|
|intracellular transport|
|positive regulation of transcription, DNA-templated|
|negative regulation of biosynthetic process|
|protein-containing complex assembly|
|DNA-binding transcription factor activity, RNA polymerase II-specific|
|regulation of cell population proliferation|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|cellular response to stress|
|cellular macromolecule biosynthetic process|
|negative regulation of gene expression|
|positive regulation of RNA metabolic process|
|macromolecule biosynthetic process|
|establishment of localization in cell|
|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|
|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:exp481|Ethambutol 25μM R08 exp481]]|-1.85|
|[[:results:exp81|Selumetinib 20μM R02 exp81]]|-1.71|
|[[:results:exp260|ABT-702 0.1μM R06 exp260]]|1.71|
|[[:results:exp365|I-BRD9 4μM R07 exp365]]|2.33|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:h:hars|HARS]]|0.409|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 11/726
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|1/28|
|blood|0/28|
|bone|0/25|
|breast|0/33|
|central nervous system|0/56|
|cervix|0/4|
|colorectal|1/17|
|esophagus|0/13|
|fibroblast|0/1|
|gastric|0/15|
|kidney|1/21|
|liver|0/20|
|lung|0/75|
|lymphocyte|0/14|
|ovary|0/26|
|pancreas|0/24|
|peripheral nervous system|2/16|
|plasma cell|0/15|
|prostate|0/1|
|skin|0/24|
|soft tissue|0/7|
|thyroid|0/2|
|upper aerodigestive|0/22|
|urinary tract|1/29|
|uterus|0/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 5808
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 8.36 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='HMGA1 Expression in NALM6 Cells: 8.36'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>