HMGB2 [The Human Chemical-Genetic Interaction Map Project]

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======= HMGB2 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: HMGB2
  * **<color #00a2e8>Official Name</color>**: high mobility group box 2
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=3148|3148]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/P26583|P26583]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=HMGB2&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20HMGB2|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/163906|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  Multifunctional protein with various roles in different cellular compartments. May act in a redox sensitive manner. In the nucleus is an abundant chromatin-associated non-histone protein involved in transcription, chromatin remodeling and V(D)J recombination and probably other processes. Binds DNA with a preference to non-canonical DNA structures such as single-stranded DNA. Can bent DNA and enhance DNA flexibility by looping thus providing a mechanism to promote activities on various gene promoters by enhancing transcription factor binding and/or bringing distant regulatory sequences into close proximity (PubMed:7797075, PubMed:11909973, PubMed:19522541, PubMed:18413230, PubMed:19965638, PubMed:20123072). Involved in V(D)J recombination by acting as a cofactor of the RAG complex: acts by stimulating cleavage and RAG protein binding at the 23 bp spacer of conserved recombination signal sequences (RSS) (By similarity). Proposed to be involved in the innate immune response to nucleic acids by acting as a promiscuous immunogenic DNA/RNA sensor which cooperates with subsequent discriminative sensing by specific pattern recognition receptors (By similarity). In the extracellular compartment acts as a chemokine. Promotes proliferation and migration of endothelial cells implicating AGER/RAGE (PubMed:19811285). Has antimicrobial activity in gastrointestinal epithelial tissues (PubMed:23877675). Involved in inflammatory response to antigenic stimulus coupled with proinflammatory activity (By similarity). Involved in modulation of neurogenesis probably by regulation of neural stem proliferation (By similarity). Involved in articular cartilage surface maintenance implicating LEF1 and the Wnt/beta-catenin pathway (By similarity). {ECO:0000250|UniProtKB:P09429, ECO:0000250|UniProtKB:P30681, ECO:0000269|PubMed:11909973, ECO:0000269|PubMed:18413230, ECO:0000269|PubMed:19522541, ECO:0000269|PubMed:19811285, ECO:0000269|PubMed:19965638, ECO:0000269|PubMed:23877675, ECO:0000269|PubMed:7797075, ECO:0000305|PubMed:20123072}.

<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'>
|HMG box|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|non-sequence-specific DNA binding, bending|
|supercoiled DNA binding|
|positive regulation of megakaryocyte differentiation|
|positive regulation of nuclease activity|
|DNA topological change|
|DNA ligation involved in DNA repair|
|RAGE receptor binding|
|DNA ligation|
|four-way junction DNA binding|
|apoptotic DNA fragmentation|
|V(D)J recombination|
|DNA binding, bending|
|regulation of nuclease activity|
|spermatid nucleus differentiation|
|inflammatory response to antigenic stimulus|
|enhancer sequence-specific DNA binding|
|DNA catabolic process, endonucleolytic|
|apoptotic nuclear changes|
|condensed chromosome|
|cellular component disassembly involved in execution phase of apoptosis|
|DNA catabolic process|
|positive regulation of erythrocyte differentiation|
|positive regulation of interferon-beta production|
|somatic cell DNA recombination|
|somatic diversification of immune receptors via germline recombination within a single locus|
|chemoattractant activity|
|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors|
|regulation of erythrocyte differentiation|
|positive chemotaxis|
|regulation of interferon-beta production|
|somatic diversification of immune receptors|
|execution phase of apoptosis|
|regulation of megakaryocyte differentiation|
|positive regulation of DNA binding|
|damaged DNA binding|
|regulation of extrinsic apoptotic signaling pathway via death domain receptors|
|drug binding|
|regulation of stem cell proliferation|
|positive regulation of type I interferon production|
|cell|
|defense response to Gram-negative bacterium|
|positive regulation of myeloid cell differentiation|
|defense response to Gram-positive bacterium|
|positive regulation of endothelial cell proliferation|
|negative regulation of extrinsic apoptotic signaling pathway|
|double-stranded DNA binding|
|single-stranded DNA binding|
|nucleosome assembly|
|DNA geometric change|
|regulation of DNA binding|
|regulation of type I interferon production|
|regulation of endothelial cell proliferation|
|nucleus organization|
|male gonad development|
|chromatin assembly|
|development of primary male sexual characteristics|
|spermatid development|
|regulation of extrinsic apoptotic signaling pathway|
|chromatin assembly or disassembly|
|male sex differentiation|
|nucleosome organization|
|spermatid differentiation|
|chromatin remodeling|
|DNA packaging|
|positive regulation of binding|
|cellular response to lipopolysaccharide|
|positive regulation of hemopoiesis|
|positive regulation of epithelial cell proliferation|
|cellular response to molecule of bacterial origin|
|protein-DNA complex assembly|
|gonad development|
|cell chemotaxis|
|cellular response to biotic stimulus|
|development of primary sexual characteristics|
|transcription regulatory region DNA binding|
|DNA recombination|
|negative regulation of apoptotic signaling pathway|
|regulation of myeloid cell differentiation|
|nuclear chromatin|
|protein-DNA complex subunit organization|
|protein domain specific binding|
|germ cell development|
|sex differentiation|
|transcription coactivator activity|
|DNA conformation change|
|nucleic acid phosphodiester bond hydrolysis|
|response to lipopolysaccharide|
|response to molecule of bacterial origin|
|response to steroid hormone|
|defense response to bacterium|
|transcription factor binding|
|regulation of epithelial cell proliferation|
|positive regulation of innate immune response|
|cellular process involved in reproduction in multicellular organism|
|positive regulation of response to biotic stimulus|
|nucleobase-containing compound catabolic process|
|regulation of binding|
|regulation of apoptotic signaling pathway|
|cellular component disassembly|
|reproductive structure development|
|reproductive system development|
|heterocycle catabolic process|
|cellular nitrogen compound catabolic process|
|aromatic compound catabolic process|
|positive regulation of cytokine production|
|regulation of hemopoiesis|
|regulation of innate immune response|
|positive regulation of defense response|
|organic cyclic compound catabolic process|
|inflammatory response|
|positive regulation of multi-organism process|
|DNA repair|
|cellular response to lipid|
|regulation of response to biotic stimulus|
|spermatogenesis|
|chemotaxis|
|taxis|
|male gamete generation|
|protein-containing complex|
|positive regulation of response to external stimulus|
|immune system development|
|developmental process involved in reproduction|
|response to bacterium|
|gamete generation|
|regulation of cytokine production|
|perinuclear region of cytoplasm|
|chromatin organization|
|DNA metabolic process|
|regulation of defense response|
|innate immune response|
|positive regulation of hydrolase activity|
|regulation of multi-organism process|
|cellular response to DNA damage stimulus|
|regulation of neurogenesis|
|multicellular organismal reproductive process|
|sexual reproduction|
|cellular protein-containing complex assembly|
|multicellular organism reproduction|
|response to lipid|
|nucleolus|
|positive regulation of immune response|
|negative regulation of apoptotic process|
|negative regulation of programmed cell death|
|cellular macromolecule catabolic process|
|response to hormone|
|positive regulation of cell population proliferation|
|response to organic cyclic compound|
|apoptotic process|
|regulation of nervous system development|
|regulation of cell development|
|defense response to other organism|
|cell migration|
|positive regulation of cell differentiation|
|negative regulation of cell death|
|multi-organism reproductive process|
|response to drug|
|macromolecule catabolic process|
|programmed cell death|
|cellular response to oxygen-containing compound|
|chromosome organization|
|cell motility|
|localization of cell|
|cell death|
|regulation of response to external stimulus|
|positive regulation of immune system process|
|regulation of immune response|
|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|
|negative regulation of signal transduction|
|regulation of hydrolase activity|
|response to other organism|
|response to external biotic stimulus|
|locomotion|
|response to biotic stimulus|
|negative regulation of RNA metabolic process|
|defense response|
|negative regulation of cell communication|
|negative regulation of signaling|
|positive regulation of developmental process|
|negative regulation of cellular macromolecule biosynthetic process|
|RNA binding|
|reproductive process|
|reproduction|
|positive regulation of catalytic activity|
|negative regulation of nucleobase-containing compound metabolic process|
|DNA binding|
|negative regulation of macromolecule biosynthetic process|
|response to endogenous stimulus|
|regulation of response to stress|
|negative regulation of cellular biosynthetic process|
|generation of neurons|
|positive regulation of transcription, DNA-templated|
|regulation of apoptotic process|
|negative regulation of biosynthetic process|
|movement of cell or subcellular component|
|response to oxygen-containing compound|
|protein-containing complex assembly|
|regulation of programmed cell death|
|extracellular space|
|regulation of cell population proliferation|
|negative regulation of response to stimulus|
|neurogenesis|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|cell development|
|regulation of immune system process|
|regulation of cell death|
|cellular response to stress|
|negative regulation of gene expression|
|positive regulation of RNA metabolic process|
|positive regulation of multicellular organismal process|
|organic substance catabolic process|
|positive regulation of molecular function|
|cellular catabolic process|
|regulation of cell differentiation|
|protein-containing complex subunit organization|
|immune response|
|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:exp434|Vemurafenib 6.6μM R08 exp434]]|-3.2|
|[[:results:exp499|LY2090314 0.003μM R08 exp499]]|-2.22|
|[[:results:exp310|2-Methoxyestradiol 0.55μM R07 exp310]]|-2.09|
|[[:results:exp89|Vemurafenib 6.6μM R02 exp89]]|-2.03|
|[[:results:exp314|Dimethyloxaloylglycine 11μM R07 exp314]]|-1.94|
|[[:results:exp512|Olaparib 4μM R08 exp512]]|-1.91|
|[[:results:exp311|2-Methoxyestradiol 0.55 to 0.75μM  on day4 R07 exp311]]|-1.89|
|[[:results:exp234|Ethanol 0.01 R05 exp234]]|-1.75|
|[[:results:exp357|Dorsomorphin 5μM R07 exp357]]|-1.73|
|[[:results:exp22|MLN-4924 2μM R00 exp22]]|1.72|
|[[:results:exp363|GSK-J4 1-1.25μM to day4 R07 exp363]]|1.75|
|[[:results:exp95|BI-2536 0.0042μM R03 exp95]]|1.76|
|[[:results:exp4|Actinomycin-D 0.01μM R00 exp4]]|1.77|
|[[:results:exp264|Arsenate 40μM R06 exp264]]|1.78|
|[[:results:exp125|GSK461364A 0.005μM R03 exp125]]|1.84|
|[[:results:exp282|Fluvastatin 2.2μM R06 exp282]]|1.85|
|[[:results:exp16|DABN 2μM R00 exp16]]|1.91|
|[[:results:exp152|SGC2043 10μM R03 exp152]]|1.93|
|[[:results:exp126|GSK461364A 0.1μM R03 exp126]]|1.97|
|[[:results:exp24|Nocodazole 0.2μM R00 exp24]]|2.22|
|[[:results:exp146|Quinacrine 2.5μM R03 exp146]]|2.3|
|[[:results:exp93|DABN racemic mixture R03 exp93]]|2.43|
|[[:results:exp34|Rotenone 20μM R00 exp34]]|2.97|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:h:hars|HARS]]|0.532|
|[[:human genes:s:srp72|SRP72]]|0.458|
|[[:human genes:e:eif4e|EIF4E]]|0.457|
|[[:human genes:r:rnmt|RNMT]]|0.449|
|[[:human genes:k:kcmf1|KCMF1]]|0.441|
|[[:human genes:z:znf608|ZNF608]]|0.437|
|[[:human genes:s:shoc2|SHOC2]]|0.437|
|[[:human genes:m:mars|MARS]]|0.432|
|[[:human genes:p:polr3c|POLR3C]]|0.422|
|[[:human genes:c:csnk2b|CSNK2B]]|0.405|
|[[:human genes:f:fli1|FLI1]]|0.404|
|[[:human genes:m:mad2l1|MAD2L1]]|0.403|
</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>**: 9183
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 9.16 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='HMGB2 Expression in NALM6 Cells: 9.16'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>