LITAF [The Human Chemical-Genetic Interaction Map Project]

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======= LITAF =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: LITAF
  * **<color #00a2e8>Official Name</color>**: lipopolysaccharide induced TNF factor
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=9516|9516]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q99732|Q99732]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=LITAF&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20LITAF|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/603795|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  Lipopolysaccharide is a potent stimulator of monocytes and macrophages, causing secretion of tumor necrosis factor-alpha (TNF-alpha) and other inflammatory mediators. This gene encodes lipopolysaccharide-induced TNF-alpha factor, which is a DNA-binding protein and can mediate the TNF-alpha expression by direct binding to the promoter region of the TNF-alpha gene. The transcription of this gene is induced by tumor suppressor p53 and has been implicated in the p53-induced apoptotic pathway. Mutations in this gene cause Charcot-Marie-Tooth disease type 1C (CMT1C) and may be involved in the carcinogenesis of extramammary Paget's disease (EMPD). Multiple alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Dec 2014]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Plays a role in endosomal protein trafficking and in targeting proteins for lysosomal degradation (PubMed:23166352). Plays a role in targeting endocytosed EGFR and ERGG3 for lysosomal degradation, and thereby helps downregulate downstream signaling cascades (PubMed:23166352). Helps recruit the ESCRT complex components TSG101, HGS and STAM to cytoplasmic membranes (PubMed:23166352). Probably plays a role in regulating protein degradation via its interaction with NEDD4 (PubMed:15776429). May also contribute to the regulation of gene expression in the nucleus (PubMed:10200294, PubMed:15793005). Binds DNA (in vitro) and may play a synergistic role with STAT6 in the nucleus in regulating the expression of various cytokines (PubMed:15793005). May regulate the expression of numerous cytokines, such as TNF, CCL2, CCL5, CXCL1, IL1A and IL10 (PubMed:10200294, PubMed:15793005). {ECO:0000269|PubMed:15793005, ECO:0000269|PubMed:23166352, ECO:0000303|PubMed:15776429, ECO:0000305|PubMed:10200294}.

<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'>
|zf-LITAF-like|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|cytoplasmic side of late endosome membrane|
|cytoplasmic side of early endosome membrane|
|cytoplasmic side of lysosomal membrane|
|negative regulation of NIK/NF-kappaB signaling|
|WW domain binding|
|cytoplasmic side of plasma membrane|
|regulation of NIK/NF-kappaB signaling|
|positive regulation of I-kappaB kinase/NF-kappaB signaling|
|cellular response to lipopolysaccharide|
|cellular response to molecule of bacterial origin|
|cellular response to biotic stimulus|
|regulation of I-kappaB kinase/NF-kappaB signaling|
|aging|
|lysosomal membrane|
|response to lipopolysaccharide|
|response to molecule of bacterial origin|
|DNA-binding transcription activator activity, RNA polymerase II-specific|
|RNA polymerase II proximal promoter sequence-specific DNA binding|
|negative regulation of intracellular signal transduction|
|cellular response to lipid|
|Golgi membrane|
|intracellular membrane-bounded organelle|
|response to bacterium|
|regulation of cytokine production|
|zinc ion binding|
|response to lipid|
|Golgi apparatus|
|positive regulation of intracellular signal transduction|
|cellular response to oxygen-containing compound|
|positive regulation of transcription by RNA polymerase II|
|negative regulation of signal transduction|
|response to other organism|
|response to external biotic stimulus|
|response to biotic stimulus|
|negative regulation of cell communication|
|negative regulation of signaling|
|positive regulation of transcription, DNA-templated|
|response to oxygen-containing compound|
|negative regulation of response to stimulus|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|positive regulation of signal transduction|
|positive regulation of RNA metabolic process|
|positive regulation of cell communication|
|positive regulation of signaling|
|regulation of intracellular signal transduction|
|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='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:exp392|PT-1 25μM R07 exp392]]|-2.05|
|[[:results:exp153|SGC2096 2.6μM R03 exp153]]|-1.99|
|[[:results:exp406|Thalidomide 20μM R07 exp406]]|-1.78|
|[[:results:exp530|Thioridazine 5μM R08 exp530]]|-1.72|
</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>**: 16106
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 4.8 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='LITAF Expression in NALM6 Cells: 4.8'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>