LTA [The Human Chemical-Genetic Interaction Map Project]

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======= LTA =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: LTA
  * **<color #00a2e8>Official Name</color>**: lymphotoxin alpha
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=4049|4049]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/P01374|P01374]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=LTA&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20LTA|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/153440|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  The encoded protein, a member of the tumor necrosis factor family, is a cytokine produced by lymphocytes. The protein is highly inducible, secreted, and forms heterotrimers with lymphotoxin-beta which anchor lymphotoxin-alpha to the cell surface. This protein also mediates a large variety of inflammatory, immunostimulatory, and antiviral responses, is involved in the formation of secondary lymphoid organs during development and plays a role in apoptosis. Genetic variations in this gene are associated with susceptibility to leprosy type 4, myocardial infarction, non-Hodgkin's lymphoma, and psoriatic arthritis. Alternatively spliced transcript variants have been observed for this gene. [provided by RefSeq, Jul 2012]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Cytokine that in its homotrimeric form binds to TNFRSF1A/TNFR1, TNFRSF1B/TNFBR and TNFRSF14/HVEM. In its heterotrimeric form with LTB binds to TNFRSF3/LTBR. Lymphotoxin is produced by lymphocytes and cytotoxic for a wide range of tumor cells in vitro and in vivo.

<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'>
|TNF|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|positive regulation of chronic inflammatory response to antigenic stimulus|
|regulation of chronic inflammatory response to antigenic stimulus|
|positive regulation of chronic inflammatory response|
|positive regulation of humoral immune response mediated by circulating immunoglobulin|
|regulation of chronic inflammatory response|
|regulation of humoral immune response mediated by circulating immunoglobulin|
|positive regulation of inflammatory response to antigenic stimulus|
|positive regulation of glial cell proliferation|
|lymph node development|
|positive regulation of humoral immune response|
|regulation of inflammatory response to antigenic stimulus|
|negative regulation of fibroblast proliferation|
|regulation of glial cell proliferation|
|tumor necrosis factor receptor binding|
|positive regulation of immunoglobulin mediated immune response|
|positive regulation of B cell mediated immunity|
|regulation of immunoglobulin mediated immune response|
|regulation of B cell mediated immunity|
|positive regulation of interferon-gamma production|
|positive regulation of gliogenesis|
|regulation of fibroblast proliferation|
|defense response to Gram-positive bacterium|
|regulation of interferon-gamma production|
|positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains|
|positive regulation of adaptive immune response|
|positive regulation of lymphocyte mediated immunity|
|regulation of gliogenesis|
|tumor necrosis factor-mediated signaling pathway|
|positive regulation of leukocyte mediated immunity|
|regulation of humoral immune response|
|positive regulation of inflammatory response|
|regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains|
|regulation of lymphocyte mediated immunity|
|regulation of adaptive immune response|
|cytokine activity|
|regulation of leukocyte mediated immunity|
|response to nutrient|
|positive regulation of immune effector process|
|cellular response to tumor necrosis factor|
|response to tumor necrosis factor|
|response to lipopolysaccharide|
|response to molecule of bacterial origin|
|defense response to bacterium|
|signaling receptor binding|
|regulation of inflammatory response|
|response to hypoxia|
|humoral immune response|
|response to decreased oxygen levels|
|response to oxygen levels|
|positive regulation of cytokine production|
|regulation of immune effector process|
|positive regulation of neurogenesis|
|positive regulation of defense response|
|response to nutrient levels|
|response to extracellular stimulus|
|positive regulation of nervous system development|
|positive regulation of cell development|
|positive regulation of response to external stimulus|
|hematopoietic or lymphoid organ development|
|positive regulation of apoptotic process|
|immune system development|
|positive regulation of programmed cell death|
|cytokine-mediated signaling pathway|
|negative regulation of cell population proliferation|
|response to bacterium|
|regulation of cytokine production|
|positive regulation of cell death|
|regulation of defense response|
|regulation of neurogenesis|
|response to lipid|
|positive regulation of immune response|
|positive regulation of cell population proliferation|
|apoptotic process|
|regulation of nervous system development|
|regulation of cell development|
|defense response to other organism|
|positive regulation of cell differentiation|
|cellular response to cytokine stimulus|
|response to drug|
|programmed cell death|
|cell death|
|regulation of response to external stimulus|
|response to cytokine|
|cell-cell signaling|
|regulation of immune response|
|positive regulation of immune system process|
|response to abiotic stimulus|
|response to other organism|
|response to external biotic stimulus|
|response to biotic stimulus|
|defense response|
|positive regulation of developmental process|
|regulation of response to stress|
|generation of neurons|
|regulation of apoptotic process|
|response to oxygen-containing compound|
|regulation of programmed cell death|
|extracellular space|
|regulation of cell population proliferation|
|neurogenesis|
|regulation of immune system process|
|regulation of cell death|
|positive regulation of multicellular organismal process|
|regulation of cell differentiation|
|immune response|
</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:exp41|BI-2536 0.001μM R01 exp41]]|-1.86|
|[[:results:exp293|Myriocin 25μM R06 exp293]]|-1.78|
</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>**: 15292
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: -0.67 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='LTA Expression in NALM6 Cells: -0.67'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>