NELFA [The Human Chemical-Genetic Interaction Map Project]

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======= NELFA =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: NELFA
  * **<color #00a2e8>Official Name</color>**: negative elongation factor complex member A
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=7469|7469]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q9H3P2|Q9H3P2]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=NELFA&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20NELFA|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/606026|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**:  This gene is expressed ubiquitously with higher levels in fetal than in adult tissues. It encodes a protein sharing 93% sequence identity with the mouse protein. Wolf-Hirschhorn syndrome (WHS) is a malformation syndrome associated with a hemizygous deletion of the distal short arm of chromosome 4. This gene is mapped to the 165 kb WHS critical region, and may play a role in the phenotype of the WHS or Pitt-Rogers-Danks syndrome. The encoded protein is found to be capable of reacting with HLA-A2-restricted and tumor-specific cytotoxic T lymphocytes, suggesting a target for use in specific immunotherapy for a large number of cancer patients. This protein has also been shown to be a member of the NELF (negative elongation factor) protein complex that participates in the regulation of RNA polymerase II transcription elongation. [provided by RefSeq, Jul 2008]. 
  * **<color #00a2e8>UniProt Summary</color>**:  Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex and causes transcriptional pausing, is counteracted by the P-TEFb kinase complex. The NELF complex is involved in HIV-1 latency possibly involving recruitment of PCF11 to paused RNA polymerase II. In vitro, the NELFA:NELFCD subcomplex binds to ssDNA and ssRNA in a sequence- and structure-dependent manner. Probably required to interact with the RNA polymerase II complex. {ECO:0000269|PubMed:10199401, ECO:0000269|PubMed:12563561, ECO:0000269|PubMed:12612062, ECO:0000305}.

<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'>
|NELF complex|
|negative regulation of transcription elongation from RNA polymerase II promoter|
|negative regulation of DNA-templated transcription, elongation|
|regulation of transcription elongation from RNA polymerase II promoter|
|positive regulation of viral transcription|
|regulation of DNA-templated transcription, elongation|
|regulation of viral transcription|
|transcription elongation from RNA polymerase II promoter|
|DNA-templated transcription, elongation|
|positive regulation of viral process|
|regulation of viral process|
|regulation of symbiosis, encompassing mutualism through parasitism|
|nuclear body|
|transcription by RNA polymerase II|
|positive regulation of multi-organism process|
|transcription, DNA-templated|
|nucleic acid-templated transcription|
|RNA biosynthetic process|
|regulation of multi-organism process|
|negative regulation of transcription by RNA polymerase II|
|nucleobase-containing compound biosynthetic process|
|heterocycle biosynthetic process|
|aromatic compound biosynthetic process|
|negative regulation of transcription, DNA-templated|
|negative regulation of nucleic acid-templated transcription|
|negative regulation of RNA biosynthetic process|
|organic cyclic compound biosynthetic process|
|negative regulation of RNA metabolic process|
|negative regulation of cellular macromolecule biosynthetic process|
|negative regulation of nucleobase-containing compound metabolic process|
|negative regulation of macromolecule biosynthetic process|
|negative regulation of cellular biosynthetic process|
|negative regulation of biosynthetic process|
|cellular nitrogen compound biosynthetic process|
|RNA metabolic process|
|cellular macromolecule biosynthetic process|
|negative regulation of gene expression|
|macromolecule biosynthetic process|
|gene expression|
</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:exp354|Diepoxybutane 3μM R07 exp354]]|-2.74|
|[[:results:exp135|MS023 7μM R03 exp135]]|-2.46|
|[[:results:exp357|Dorsomorphin 5μM R07 exp357]]|-2.32|
|[[:results:exp28|Pimelic-diphenylamide-106 5μM R00 exp28]]|-2.3|
|[[:results:exp414|Tozasertib 0.1μM R07 exp414]]|-2.03|
|[[:results:exp45|Docetaxel 0.002μM R01 exp45]]|-2.02|
|[[:results:exp46|HMS-I1 1μM R01 exp46]]|-2.02|
|[[:results:exp539|42°C R08 exp539]]|-1.86|
|[[:results:exp329|Hydroxyurea 100μM R07 exp329]]|-1.84|
|[[:results:exp59|UMK57 1μM R01 exp59]]|-1.83|
|[[:results:exp435|JQ1 0.8μM R08 exp435]]|-1.78|
|[[:results:exp199|Etoposide 0.3μM R05 exp199]]|-1.74|
|[[:results:exp256|HMS-I1 10μM R06 exp256]]|-1.74|
|[[:results:exp26|Oligomycin-A 20μM R00 exp26]]|-1.72|
|[[:results:exp535|Trimetrexate 0.03μM R08 exp535]]|2.5|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:n:nelfb|NELFB]]|0.508|
|[[:human genes:n:nelfe|NELFE]]|0.487|
|[[:human genes:b:brd2|BRD2]]|0.481|
|[[:human genes:n:nelfcd|NELFCD]]|0.475|
|[[:human genes:n:narfl|NARFL]]|0.45|
|[[:human genes:r:rpl8|RPL8]]|0.433|
|[[:human genes:p:psmb4|PSMB4]]|0.428|
|[[:human genes:p:prim1|PRIM1]]|0.425|
|[[:human genes:c:chmp4b|CHMP4B]]|0.417|
|[[:human genes:p:pds5b|PDS5B]]|0.416|
|[[:human genes:u:utp3|UTP3]]|0.412|
|[[:human genes:p:psma6|PSMA6]]|0.412|
|[[:human genes:d:ddx3x|DDX3X]]|0.411|
|[[:human genes:i:ippk|IPPK]]|0.408|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 313/726
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|8/28|
|blood|10/28|
|bone|11/25|
|breast|17/33|
|central nervous system|29/56|
|cervix|1/4|
|colorectal|5/17|
|esophagus|5/13|
|fibroblast|0/1|
|gastric|5/15|
|kidney|8/21|
|liver|13/20|
|lung|28/75|
|lymphocyte|10/14|
|ovary|12/26|
|pancreas|9/24|
|peripheral nervous system|7/16|
|plasma cell|6/15|
|prostate|1/1|
|skin|10/24|
|soft tissue|3/7|
|thyroid|1/2|
|upper aerodigestive|11/22|
|urinary tract|11/29|
|uterus|2/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 1561
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 5.67 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='NELFA Expression in NALM6 Cells: 5.67'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>