LDB1 [The Human Chemical-Genetic Interaction Map Project]

This page is read only. You can view the source, but not change it. Ask your administrator if you think this is wrong.
======= LDB1 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: LDB1
  * **<color #00a2e8>Official Name</color>**: LIM domain binding 1
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=8861|8861]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/Q86U70|Q86U70]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=LDB1&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20LDB1|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/603451|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  Binds to the LIM domain of a wide variety of LIM domain- containing transcription factors. May regulate the transcriptional activity of LIM-containing proteins by determining specific partner interactions. Plays a role in the development of interneurons and motor neurons in cooperation with LHX3 and ISL1. Acts synergistically with LHX1/LIM1 in axis formation and activation of gene expression. Acts with LMO2 in the regulation of red blood cell development, maintaining erythroid precursors in an immature state (By similarity). {ECO:0000250|UniProtKB:P70662}.

<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'>
|LIM bind|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|histone H3-K4 acetylation|
|positive regulation of hemoglobin biosynthetic process|
|regulation of hemoglobin biosynthetic process|
|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery|
|LIM domain binding|
|negative regulation of erythrocyte differentiation|
|cerebellar Purkinje cell differentiation|
|mesendoderm development|
|beta-catenin-TCF complex|
|cerebellar Purkinje cell layer formation|
|cerebellar Purkinje cell layer morphogenesis|
|cell differentiation in hindbrain|
|cerebellar cortex formation|
|enhancer sequence-specific DNA binding|
|cerebellar Purkinje cell layer development|
|epithelial structure maintenance|
|gastrulation with mouth forming second|
|cerebellar cortex morphogenesis|
|cerebellum morphogenesis|
|hindbrain morphogenesis|
|cell leading edge|
|regulation of erythrocyte differentiation|
|cerebellar cortex development|
|histone H3 acetylation|
|regulation of DNA-templated transcription, elongation|
|anterior/posterior axis specification|
|RNA polymerase II activating transcription factor binding|
|protein self-association|
|regulation of cell-substrate junction assembly|
|regulation of focal adhesion assembly|
|somatic stem cell population maintenance|
|regulation of adherens junction organization|
|hair follicle development|
|regulation of hematopoietic stem cell differentiation|
|endoderm development|
|skin epidermis development|
|hair cycle process|
|molting cycle process|
|negative regulation of myeloid cell differentiation|
|axis specification|
|regulation of hematopoietic progenitor cell differentiation|
|regulation of cell junction assembly|
|molting cycle|
|hair cycle|
|cerebellum development|
|metencephalon development|
|histone acetylation|
|regulation of cell-matrix adhesion|
|regulation of stem cell differentiation|
|internal peptidyl-lysine acetylation|
|peptidyl-lysine acetylation|
|internal protein amino acid acetylation|
|mesoderm development|
|stem cell population maintenance|
|maintenance of cell number|
|negative regulation of hemopoiesis|
|protein acetylation|
|hindbrain development|
|gastrulation|
|central nervous system neuron differentiation|
|protein acylation|
|tissue homeostasis|
|transcription factor complex|
|regulation of cell-substrate adhesion|
|anterior/posterior pattern specification|
|regulation of myeloid cell differentiation|
|nuclear chromatin|
|transcription corepressor activity|
|peptidyl-lysine modification|
|multicellular organismal homeostasis|
|regionalization|
|anatomical structure homeostasis|
|enzyme binding|
|Wnt signaling pathway|
|cell-cell signaling by wnt|
|histone modification|
|covalent chromatin modification|
|skin development|
|chromatin binding|
|positive regulation of cell adhesion|
|epidermis development|
|cell surface receptor signaling pathway involved in cell-cell signaling|
|pattern specification process|
|negative regulation of immune system process|
|regulation of hemopoiesis|
|transcription by RNA polymerase II|
|embryonic morphogenesis|
|protein-containing complex|
|transcription, DNA-templated|
|nucleic acid-templated transcription|
|RNA biosynthetic process|
|regulation of cell adhesion|
|chromatin organization|
|negative regulation of cell differentiation|
|brain development|
|head development|
|regulation of cell migration|
|negative regulation of transcription by RNA polymerase II|
|regulation of kinase activity|
|protein homodimerization activity|
|peptidyl-amino acid modification|
|anatomical structure formation involved in morphogenesis|
|regulation of cell motility|
|negative regulation of developmental process|
|regulation of cellular component biogenesis|
|embryo development|
|regulation of transferase activity|
|central nervous system development|
|regulation of locomotion|
|regulation of cellular component movement|
|neuron differentiation|
|chromosome organization|
|nucleobase-containing compound biosynthetic process|
|epithelium development|
|cell-cell signaling|
|heterocycle biosynthetic process|
|aromatic compound biosynthetic process|
|negative regulation of transcription, DNA-templated|
|negative regulation of multicellular organismal process|
|positive regulation of transcription by RNA polymerase II|
|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|
|generation of neurons|
|positive regulation of transcription, DNA-templated|
|negative regulation of biosynthetic process|
|regulation of phosphorylation|
|neurogenesis|
|cellular nitrogen compound biosynthetic process|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|homeostatic process|
|regulation of immune system process|
|RNA metabolic process|
|positive regulation of protein metabolic process|
|cellular macromolecule biosynthetic process|
|negative regulation of gene expression|
|positive regulation of RNA metabolic process|
|tissue development|
|macromolecule biosynthetic process|
|regulation of phosphate metabolic process|
|regulation of phosphorus metabolic process|
|regulation of cell differentiation|
|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|
|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:exp351|Dexamethasone 0.006μM R07 exp351]]|-2.53|
|[[:results:exp103|Taxol 0.004μM R03 exp103]]|-2.42|
|[[:results:exp242|Radicicol 0.16μM R05 exp242]]|-2.33|
|[[:results:exp352|Dexamethasone 0.006 to 0.015μM on day4 R07 exp352]]|-2.14|
|[[:results:exp30|Rapamycin 10μM R00 exp30]]|-2.1|
|[[:results:exp229|Dimethyloxaloylglycine 100μM R05 exp229]]|-1.98|
|[[:results:exp237|NN-Diethyl-meta-toluamide 100μM R05 exp237]]|-1.79|
|[[:results:exp159|Docetaxel 0.001 to 0.002μM on day4 R04 exp159]]|-1.77|
|[[:results:exp294|Nutlin-3A 1.6μM R06 exp294]]|-1.74|
|[[:results:exp365|I-BRD9 4μM R07 exp365]]|-1.73|
|[[:results:exp375|Lenalidomide 20μM R07 exp375]]|-1.73|
|[[:results:exp512|Olaparib 4μM R08 exp512]]|1.78|
|[[:results:exp95|BI-2536 0.0042μM R03 exp95]]|1.81|
|[[:results:exp514|Phorbol-12-myristate-13-acetate 0.57μM R08 exp514]]|2.06|
|[[:results:exp499|LY2090314 0.003μM R08 exp499]]|2.43|
|[[:results:exp326|CCT251545 20μM R07 exp326]]|2.68|
|[[:results:exp500|LY2090314 0.003μM R08 exp500 no dilution day6]]|3.11|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:s:ssbp2|SSBP2]]|0.654|
|[[:human genes:l:lmo2|LMO2]]|0.628|
|[[:human genes:e:erg|ERG]]|0.559|
|[[:human genes:l:lef1|LEF1]]|0.516|
|[[:human genes:i:id3|ID3]]|0.504|
|[[:human genes:c:cbfb|CBFB]]|0.486|
|[[:human genes:l:lyl1|LYL1]]|0.483|
|[[:human genes:n:nsd1|NSD1]]|0.472|
|[[:human genes:m:maml1|MAML1]]|0.455|
|[[:human genes:d:dohh|DOHH]]|0.443|
|[[:human genes:b:brpf1|BRPF1]]|0.442|
|[[:human genes:b:bap1|BAP1]]|0.441|
|[[:human genes:a:ago2|AGO2]]|0.439|
|[[:human genes:c:ccdc101|CCDC101]]|0.438|
|[[:human genes:z:znf410|ZNF410]]|0.435|
|[[:human genes:r:runx1|RUNX1]]|0.432|
|[[:human genes:z:zmiz1|ZMIZ1]]|0.431|
|[[:human genes:f:fli1|FLI1]]|0.426|
|[[:human genes:z:zfx|ZFX]]|0.421|
|[[:human genes:x:xpo6|XPO6]]|0.421|
|[[:human genes:z:znf319|ZNF319]]|0.418|
|[[:human genes:e:eif1|EIF1]]|0.404|
|[[:human genes:m:mef2c|MEF2C]]|0.4|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 17/726
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|0/1|
|909776.0|0/1|
|bile duct|0/28|
|blood|8/28|
|bone|0/25|
|breast|3/33|
|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|3/16|
|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>**: 2181
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 6.27 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='LDB1 Expression in NALM6 Cells: 6.27'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>