Atlas of Genetics and Cytogenetics in Oncology and Haematology


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LHX1 (LIM homeobox 1)

Identity

Alias_symbol (synonym)LIM-1
LIM1
Other alias
HGNC (Hugo) LHX1
LocusID (NCBI) 3975
Atlas_Id 43146
Location 17q12  [Link to chromosome band 17q12]
Location_base_pair Starts at 36937475 and ends at 36944615 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
SAMD8 (10q22.2) / LHX1 (17q12)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  Lung: Translocations in Squamous Cell Carcinoma


External links

Nomenclature
HGNC (Hugo)LHX1   6593
Cards
Entrez_Gene (NCBI)LHX1  3975  LIM homeobox 1
AliasesLIM-1; LIM1
GeneCards (Weizmann)LHX1
Ensembl hg19 (Hinxton)ENSG00000273706 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000273706 [Gene_View]  chr17:36937475-36944615 [Contig_View]  LHX1 [Vega]
ICGC DataPortalENSG00000273706
TCGA cBioPortalLHX1
AceView (NCBI)LHX1
Genatlas (Paris)LHX1
WikiGenes3975
SOURCE (Princeton)LHX1
Genetics Home Reference (NIH)LHX1
Genomic and cartography
GoldenPath hg38 (UCSC)LHX1  -     chr17:36937475-36944615 +  17q12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LHX1  -     17q12   [Description]    (hg19-Feb_2009)
EnsemblLHX1 - 17q12 [CytoView hg19]  LHX1 - 17q12 [CytoView hg38]
Mapping of homologs : NCBILHX1 [Mapview hg19]  LHX1 [Mapview hg38]
OMIM601999   
Gene and transcription
Genbank (Entrez)AK298253 AK308646 BC020470 BC036856 BC101674
RefSeq transcript (Entrez)NM_005568
RefSeq genomic (Entrez)NC_000017 NC_018928 NT_187614
Consensus coding sequences : CCDS (NCBI)LHX1
Cluster EST : UnigeneHs.443727 [ NCBI ]
CGAP (NCI)Hs.443727
Alternative Splicing GalleryENSG00000273706
Gene ExpressionLHX1 [ NCBI-GEO ]   LHX1 [ EBI - ARRAY_EXPRESS ]   LHX1 [ SEEK ]   LHX1 [ MEM ]
Gene Expression Viewer (FireBrowse)LHX1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3975
GTEX Portal (Tissue expression)LHX1
Protein : pattern, domain, 3D structure
UniProt/SwissProtP48742   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP48742  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP48742
Splice isoforms : SwissVarP48742
PhosPhoSitePlusP48742
Domaine pattern : Prosite (Expaxy)HOMEOBOX_1 (PS00027)    HOMEOBOX_2 (PS50071)    LIM_DOMAIN_1 (PS00478)    LIM_DOMAIN_2 (PS50023)   
Domains : Interpro (EBI)Homeobox-like    Homeobox_CS    Homeobox_dom    Znf_LIM   
Domain families : Pfam (Sanger)Homeobox (PF00046)    LIM (PF00412)   
Domain families : Pfam (NCBI)pfam00046    pfam00412   
Domain families : Smart (EMBL)HOX (SM00389)  LIM (SM00132)  
Conserved Domain (NCBI)LHX1
DMDM Disease mutations3975
Blocks (Seattle)LHX1
SuperfamilyP48742
Human Protein AtlasENSG00000273706
Peptide AtlasP48742
HPRD09067
IPIIPI00550117   IPI00909436   
Protein Interaction databases
DIP (DOE-UCLA)P48742
IntAct (EBI)P48742
FunCoupENSG00000273706
BioGRIDLHX1
STRING (EMBL)LHX1
ZODIACLHX1
Ontologies - Pathways
QuickGOP48742
Ontology : AmiGOurogenital system development  ureteric bud development  branching involved in ureteric bud morphogenesis  gastrulation with mouth forming second  ectoderm formation  endoderm formation  kidney development  transcription factor activity, sequence-specific DNA binding  transcription corepressor activity  nucleus  transcription from RNA polymerase II promoter  cell-cell signaling  pattern specification process  nervous system development  motor neuron axon guidance  zinc ion binding  anatomical structure morphogenesis  post-embryonic development  embryonic pattern specification  animal organ morphogenesis  anterior/posterior axis specification  anterior/posterior pattern specification  dorsal/ventral pattern formation  regulation of gene expression  retina layer formation  ventral spinal cord development  spinal cord association neuron differentiation  telencephalon development  cerebellum development  cerebellar Purkinje cell differentiation  forebrain regionalization  cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation  somite rostral/caudal axis specification  metanephric part of ureteric bud development  oviduct epithelium development  uterine epithelium development  nephric duct elongation  horizontal cell localization  positive regulation of embryonic development  protein complex  sequence-specific DNA binding  cellular response to fibroblast growth factor stimulus  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  anatomical structure formation involved in morphogenesis  embryonic viscerocranium morphogenesis  pronephros development  embryonic retina morphogenesis in camera-type eye  uterus development  oviduct development  cervix development  vagina development  head development  epithelium development  paramesonephric duct development  comma-shaped body morphogenesis  S-shaped body morphogenesis  renal vesicle morphogenesis  mesonephric duct development  nephric duct morphogenesis  metanephric glomerulus development  metanephric comma-shaped body morphogenesis  metanephric renal vesicle morphogenesis  metanephric S-shaped body morphogenesis  primitive streak formation  positive regulation of branching involved in ureteric bud morphogenesis  lateral motor column neuron migration  positive regulation of gastrulation  positive regulation of anterior head development  positive regulation of nephron tubule epithelial cell differentiation  
Ontology : EGO-EBIurogenital system development  ureteric bud development  branching involved in ureteric bud morphogenesis  gastrulation with mouth forming second  ectoderm formation  endoderm formation  kidney development  transcription factor activity, sequence-specific DNA binding  transcription corepressor activity  nucleus  transcription from RNA polymerase II promoter  cell-cell signaling  pattern specification process  nervous system development  motor neuron axon guidance  zinc ion binding  anatomical structure morphogenesis  post-embryonic development  embryonic pattern specification  animal organ morphogenesis  anterior/posterior axis specification  anterior/posterior pattern specification  dorsal/ventral pattern formation  regulation of gene expression  retina layer formation  ventral spinal cord development  spinal cord association neuron differentiation  telencephalon development  cerebellum development  cerebellar Purkinje cell differentiation  forebrain regionalization  cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation  somite rostral/caudal axis specification  metanephric part of ureteric bud development  oviduct epithelium development  uterine epithelium development  nephric duct elongation  horizontal cell localization  positive regulation of embryonic development  protein complex  sequence-specific DNA binding  cellular response to fibroblast growth factor stimulus  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  anatomical structure formation involved in morphogenesis  embryonic viscerocranium morphogenesis  pronephros development  embryonic retina morphogenesis in camera-type eye  uterus development  oviduct development  cervix development  vagina development  head development  epithelium development  paramesonephric duct development  comma-shaped body morphogenesis  S-shaped body morphogenesis  renal vesicle morphogenesis  mesonephric duct development  nephric duct morphogenesis  metanephric glomerulus development  metanephric comma-shaped body morphogenesis  metanephric renal vesicle morphogenesis  metanephric S-shaped body morphogenesis  primitive streak formation  positive regulation of branching involved in ureteric bud morphogenesis  lateral motor column neuron migration  positive regulation of gastrulation  positive regulation of anterior head development  positive regulation of nephron tubule epithelial cell differentiation  
NDEx NetworkLHX1
Atlas of Cancer Signalling NetworkLHX1
Wikipedia pathwaysLHX1
Orthology - Evolution
OrthoDB3975
GeneTree (enSembl)ENSG00000273706
Phylogenetic Trees/Animal Genes : TreeFamLHX1
HOVERGENP48742
HOGENOMP48742
Homologs : HomoloGeneLHX1
Homology/Alignments : Family Browser (UCSC)LHX1
Gene fusions - Rearrangements
Fusion : MitelmanSAMD8/LHX1 [10q22.2/17q12]  [t(10;17)(q22;q12)]  
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLHX1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LHX1
dbVarLHX1
ClinVarLHX1
1000_GenomesLHX1 
Exome Variant ServerLHX1
ExAC (Exome Aggregation Consortium)LHX1 (select the gene name)
Genetic variants : HAPMAP3975
Genomic Variants (DGV)LHX1 [DGVbeta]
DECIPHERLHX1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLHX1 
Mutations
ICGC Data PortalLHX1 
TCGA Data PortalLHX1 
Broad Tumor PortalLHX1
OASIS PortalLHX1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLHX1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLHX1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch LHX1
DgiDB (Drug Gene Interaction Database)LHX1
DoCM (Curated mutations)LHX1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LHX1 (select a term)
intoGenLHX1
Cancer3DLHX1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601999   
Orphanet19866   
MedgenLHX1
Genetic Testing Registry LHX1
NextProtP48742 [Medical]
TSGene3975
GENETestsLHX1
Huge Navigator LHX1 [HugePedia]
snp3D : Map Gene to Disease3975
BioCentury BCIQLHX1
ClinGenLHX1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3975
Chemical/Pharm GKB GenePA30364
Clinical trialLHX1
Miscellaneous
canSAR (ICR)LHX1 (select the gene name)
Probes
Litterature
PubMed25 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLHX1
EVEXLHX1
GoPubMedLHX1
iHOPLHX1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Fri May 19 12:22:27 CEST 2017

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