Details for: LHX6

Gene ID: 26468

Symbol: LHX6

Ensembl ID: ENSG00000106852

Description: LIM homeobox 6

Associated with

Cells (max top 100)

(Cell Significance Index and respective Thresholds are uniquely calculated using our advanced thresholding algorithms to reveal cell-specific gene markers)

  • Cell Name: hematopoietic oligopotent progenitor cell (CL0002032)
    Fold Change: 26.7304
    Cell Significance Index: -6.7800
  • Cell Name: ciliated cell of the bronchus (CL0002332)
    Fold Change: 5.9807
    Cell Significance Index: -5.7100
  • Cell Name: cortical interneuron (CL0008031)
    Fold Change: 1.8901
    Cell Significance Index: 45.3300
  • Cell Name: chandelier cell (CL4023083)
    Fold Change: 1.8416
    Cell Significance Index: 14.8700
  • Cell Name: CD14-low, CD16-positive monocyte (CL0002396)
    Fold Change: 1.1239
    Cell Significance Index: 27.2300
  • Cell Name: forebrain neuroblast (CL1000042)
    Fold Change: 0.9503
    Cell Significance Index: 58.4100
  • Cell Name: lung microvascular endothelial cell (CL2000016)
    Fold Change: 0.8887
    Cell Significance Index: 7.5200
  • Cell Name: GABAergic interneuron (CL0011005)
    Fold Change: 0.6889
    Cell Significance Index: 476.4800
  • Cell Name: hippocampal interneuron (CL1001569)
    Fold Change: 0.6022
    Cell Significance Index: 7.8100
  • Cell Name: endothelial cell of venule (CL1000414)
    Fold Change: 0.5845
    Cell Significance Index: 6.6400
  • Cell Name: lung endothelial cell (CL1001567)
    Fold Change: 0.5406
    Cell Significance Index: 28.1600
  • Cell Name: vascular lymphangioblast (CL0005022)
    Fold Change: 0.3625
    Cell Significance Index: 6.4100
  • Cell Name: cardiac endothelial cell (CL0010008)
    Fold Change: 0.2719
    Cell Significance Index: 3.9100
  • Cell Name: sst GABAergic cortical interneuron (CL4023017)
    Fold Change: 0.1816
    Cell Significance Index: 3.5900
  • Cell Name: chandelier pvalb GABAergic cortical interneuron (CL4023036)
    Fold Change: 0.1150
    Cell Significance Index: 2.4000
  • Cell Name: odontoblast (CL0000060)
    Fold Change: 0.0804
    Cell Significance Index: 10.3100
  • Cell Name: endothelial cell of hepatic sinusoid (CL1000398)
    Fold Change: 0.0210
    Cell Significance Index: 0.2000
  • Cell Name: lactocyte (CL0002325)
    Fold Change: 0.0170
    Cell Significance Index: 2.2000
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: 0.0165
    Cell Significance Index: 3.3100
  • Cell Name: medial ganglionic eminence derived interneuron (CL4023063)
    Fold Change: 0.0122
    Cell Significance Index: 0.1800
  • Cell Name: pvalb GABAergic cortical interneuron (CL4023018)
    Fold Change: -0.0005
    Cell Significance Index: -0.0100
  • Cell Name: obsolete caudal ganglionic eminence derived GABAergic cortical interneuron (CL4023070)
    Fold Change: -0.0030
    Cell Significance Index: -1.0600
  • Cell Name: pigmented epithelial cell (CL0000529)
    Fold Change: -0.0034
    Cell Significance Index: -6.4900
  • Cell Name: anterior lens cell (CL0002223)
    Fold Change: -0.0043
    Cell Significance Index: -7.9800
  • Cell Name: lens epithelial cell (CL0002224)
    Fold Change: -0.0053
    Cell Significance Index: -8.2000
  • Cell Name: secondary lens fiber (CL0002225)
    Fold Change: -0.0061
    Cell Significance Index: -8.3400
  • Cell Name: pulmonary alveolar epithelial cell (CL0000322)
    Fold Change: -0.0088
    Cell Significance Index: -6.6300
  • Cell Name: non-pigmented ciliary epithelial cell (CL0002304)
    Fold Change: -0.0096
    Cell Significance Index: -6.1200
  • Cell Name: pancreatic A cell (CL0000171)
    Fold Change: -0.0098
    Cell Significance Index: -7.2900
  • Cell Name: cell in vitro (CL0001034)
    Fold Change: -0.0099
    Cell Significance Index: -5.4000
  • Cell Name: myeloid lineage restricted progenitor cell (CL0000839)
    Fold Change: -0.0107
    Cell Significance Index: -0.1500
  • Cell Name: type B pancreatic cell (CL0000169)
    Fold Change: -0.0128
    Cell Significance Index: -7.2400
  • Cell Name: ciliary muscle cell (CL1000443)
    Fold Change: -0.0150
    Cell Significance Index: -6.8300
  • Cell Name: intermediate cell of urothelium (CL4030055)
    Fold Change: -0.0171
    Cell Significance Index: -3.0900
  • Cell Name: basal cell of urothelium (CL1000486)
    Fold Change: -0.0178
    Cell Significance Index: -2.1900
  • Cell Name: cytotoxic T cell (CL0000910)
    Fold Change: -0.0178
    Cell Significance Index: -0.2600
  • Cell Name: dopaminergic neuron (CL0000700)
    Fold Change: -0.0235
    Cell Significance Index: -6.7600
  • Cell Name: neoplastic cell (CL0001063)
    Fold Change: -0.0290
    Cell Significance Index: -5.7600
  • Cell Name: progenitor cell of mammary luminal epithelium (CL0009116)
    Fold Change: -0.0311
    Cell Significance Index: -2.3200
  • Cell Name: pancreatic D cell (CL0000173)
    Fold Change: -0.0345
    Cell Significance Index: -7.2700
  • Cell Name: pancreatic acinar cell (CL0002064)
    Fold Change: -0.0404
    Cell Significance Index: -6.9000
  • Cell Name: pigmented ciliary epithelial cell (CL0002303)
    Fold Change: -0.0419
    Cell Significance Index: -6.0900
  • Cell Name: epithelial cell of stomach (CL0002178)
    Fold Change: -0.0442
    Cell Significance Index: -5.1500
  • Cell Name: precursor B cell (CL0000817)
    Fold Change: -0.0448
    Cell Significance Index: -0.5800
  • Cell Name: eukaryotic cell (CL0000255)
    Fold Change: -0.0459
    Cell Significance Index: -2.0000
  • Cell Name: stromal cell of ovary (CL0002132)
    Fold Change: -0.0477
    Cell Significance Index: -6.5500
  • Cell Name: GABAergic neuron (CL0000617)
    Fold Change: -0.0491
    Cell Significance Index: -0.6200
  • Cell Name: inhibitory interneuron (CL0000498)
    Fold Change: -0.0585
    Cell Significance Index: -0.7000
  • Cell Name: pancreatic ductal cell (CL0002079)
    Fold Change: -0.0612
    Cell Significance Index: -7.0100
  • Cell Name: abnormal cell (CL0001061)
    Fold Change: -0.0650
    Cell Significance Index: -6.6400
  • Cell Name: smooth muscle cell of sphincter of pupil (CL0002243)
    Fold Change: -0.0697
    Cell Significance Index: -7.2600
  • Cell Name: kidney loop of Henle descending limb epithelial cell (CL1001021)
    Fold Change: -0.0845
    Cell Significance Index: -6.6900
  • Cell Name: lamp5 GABAergic cortical interneuron (CL4023011)
    Fold Change: -0.0866
    Cell Significance Index: -1.8700
  • Cell Name: cardiac muscle myoblast (CL0000513)
    Fold Change: -0.0876
    Cell Significance Index: -6.7300
  • Cell Name: endothelial cell of placenta (CL0009092)
    Fold Change: -0.0910
    Cell Significance Index: -0.5500
  • Cell Name: hippocampal granule cell (CL0001033)
    Fold Change: -0.0925
    Cell Significance Index: -6.2200
  • Cell Name: neural cell (CL0002319)
    Fold Change: -0.0960
    Cell Significance Index: -1.1200
  • Cell Name: luminal adaptive secretory precursor cell of mammary gland (CL4033057)
    Fold Change: -0.0960
    Cell Significance Index: -4.5100
  • Cell Name: basal epithelial cell of tracheobronchial tree (CL0002329)
    Fold Change: -0.1052
    Cell Significance Index: -2.9400
  • Cell Name: early pro-B cell (CL0002046)
    Fold Change: -0.1057
    Cell Significance Index: -6.8200
  • Cell Name: bladder urothelial cell (CL1001428)
    Fold Change: -0.1168
    Cell Significance Index: -6.0700
  • Cell Name: retinal progenitor cell (CL0002672)
    Fold Change: -0.1182
    Cell Significance Index: -6.6400
  • Cell Name: acinar cell of salivary gland (CL0002623)
    Fold Change: -0.1383
    Cell Significance Index: -6.4500
  • Cell Name: endothelial cell of uterus (CL0009095)
    Fold Change: -0.1501
    Cell Significance Index: -0.9400
  • Cell Name: indirect pathway medium spiny neuron (CL4023029)
    Fold Change: -0.1501
    Cell Significance Index: -6.6400
  • Cell Name: L5 extratelencephalic projecting glutamatergic cortical neuron (CL4023041)
    Fold Change: -0.1544
    Cell Significance Index: -5.4100
  • Cell Name: medial ganglionic eminence derived GABAergic cortical interneuron (CL4023069)
    Fold Change: -0.1577
    Cell Significance Index: -1.4900
  • Cell Name: corticothalamic-projecting glutamatergic cortical neuron (CL4023013)
    Fold Change: -0.1670
    Cell Significance Index: -5.3200
  • Cell Name: L6b glutamatergic cortical neuron (CL4023038)
    Fold Change: -0.1680
    Cell Significance Index: -5.5000
  • Cell Name: retinal blood vessel endothelial cell (CL0002585)
    Fold Change: -0.1687
    Cell Significance Index: -2.1800
  • Cell Name: direct pathway medium spiny neuron (CL4023026)
    Fold Change: -0.1797
    Cell Significance Index: -6.8100
  • Cell Name: stratified epithelial cell (CL0000079)
    Fold Change: -0.1904
    Cell Significance Index: -6.9900
  • Cell Name: cerebral cortex endothelial cell (CL1001602)
    Fold Change: -0.1917
    Cell Significance Index: -3.9000
  • Cell Name: mesonephric nephron tubule epithelial cell (CL1000022)
    Fold Change: -0.1919
    Cell Significance Index: -6.6700
  • Cell Name: neuron (CL0000540)
    Fold Change: -0.1962
    Cell Significance Index: -1.8600
  • Cell Name: small intestine goblet cell (CL1000495)
    Fold Change: -0.2018
    Cell Significance Index: -7.0900
  • Cell Name: near-projecting glutamatergic cortical neuron (CL4023012)
    Fold Change: -0.2121
    Cell Significance Index: -5.2900
  • Cell Name: skeletal muscle fiber (CL0008002)
    Fold Change: -0.2159
    Cell Significance Index: -5.5500
  • Cell Name: obsolete epithelial cell of alveolus of lung (CL0010003)
    Fold Change: -0.2173
    Cell Significance Index: -5.4200
  • Cell Name: endothelial cell (CL0000115)
    Fold Change: -0.2180
    Cell Significance Index: -2.6800
  • Cell Name: granulosa cell (CL0000501)
    Fold Change: -0.2229
    Cell Significance Index: -5.8600
  • Cell Name: hippocampal pyramidal neuron (CL1001571)
    Fold Change: -0.2239
    Cell Significance Index: -6.3900
  • Cell Name: early T lineage precursor (CL0002425)
    Fold Change: -0.2252
    Cell Significance Index: -3.2700
  • Cell Name: kidney epithelial cell (CL0002518)
    Fold Change: -0.2268
    Cell Significance Index: -6.6800
  • Cell Name: fibroblast of mammary gland (CL0002555)
    Fold Change: -0.2302
    Cell Significance Index: -6.6000
  • Cell Name: erythroid progenitor cell (CL0000038)
    Fold Change: -0.2332
    Cell Significance Index: -3.0500
  • Cell Name: enterocyte of epithelium of small intestine (CL1000334)
    Fold Change: -0.2482
    Cell Significance Index: -7.1500
  • Cell Name: neutrophil progenitor cell (CL0000834)
    Fold Change: -0.2494
    Cell Significance Index: -6.6700
  • Cell Name: cortical cell of adrenal gland (CL0002097)
    Fold Change: -0.2508
    Cell Significance Index: -6.7200
  • Cell Name: placental villous trophoblast (CL2000060)
    Fold Change: -0.2539
    Cell Significance Index: -6.7800
  • Cell Name: endothelial cell of vascular tree (CL0002139)
    Fold Change: -0.2558
    Cell Significance Index: -3.5100
  • Cell Name: blood vessel endothelial cell (CL0000071)
    Fold Change: -0.2577
    Cell Significance Index: -2.8000
  • Cell Name: endothelial stalk cell (CL0002671)
    Fold Change: -0.2588
    Cell Significance Index: -2.9000
  • Cell Name: erythrocyte (CL0000232)
    Fold Change: -0.2665
    Cell Significance Index: -6.7900
  • Cell Name: pro-T cell (CL0000827)
    Fold Change: -0.2681
    Cell Significance Index: -6.8500
  • Cell Name: basal cell of prostate epithelium (CL0002341)
    Fold Change: -0.2763
    Cell Significance Index: -7.5200
  • Cell Name: VIP GABAergic cortical interneuron (CL4023016)
    Fold Change: -0.2764
    Cell Significance Index: -5.5500
  • Cell Name: leptomeningeal cell (CL0000708)
    Fold Change: -0.2784
    Cell Significance Index: -5.9500
  • Cell Name: lens fiber cell (CL0011004)
    Fold Change: -0.2790
    Cell Significance Index: -8.8300
  • Cell Name: neural progenitor cell (CL0011020)
    Fold Change: -0.2901
    Cell Significance Index: -2.8700

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Other Information

**Key Characteristics:** 1. **Transcription Factor**: LHX6 is a member of the LIM homeobox family of transcription factors, which play a crucial role in regulating gene expression during development and differentiation. 2. **Cell-Specific Expression**: LHX6 is highly expressed in specific cell types, including GABAergic cortical interneurons, intestinal crypt stem cells, and transit amplifying cells. 3. **Regulatory Functions**: LHX6 regulates gene expression by binding to specific DNA sequences, influencing the transcription of target genes involved in cell migration, differentiation, and function. 4. **Conservation across Species**: The LHX6 gene is conserved across species, suggesting that its functions are evolutionarily conserved. **Pathways and Functions:** 1. **Cell Maturation**: LHX6 regulates the maturation of GABAergic cortical interneurons, influencing their development and function in the cerebral cortex. 2. **Neuron Differentiation**: LHX6 is involved in the differentiation of forebrain radial glial cells, which give rise to neurons in the cerebral cortex. 3. **Chromatin Regulation**: LHX6 interacts with chromatin-modifying enzymes, influencing the regulation of gene expression in the developing brain. 4. **Immune Cell Development**: LHX6 is expressed in intestinal crypt stem cells and transit amplifying cells, suggesting a role in the development and function of the immune system. **Clinical Significance:** 1. **Neurological Disorders**: Dysregulation of LHX6 has been implicated in various neurological disorders, including autism spectrum disorder (ASD) and schizophrenia. 2. **Immune System Dysregulation**: Abnormal expression of LHX6 has been linked to immune system dysregulation, including autoimmune diseases and cancer. 3. **Cancer Research**: LHX6 has been identified as a potential oncogene, with dysregulation contributing to tumorigenesis and cancer progression. 4. **Therapeutic Targeting**: Further research is needed to understand the therapeutic potential of LHX6 as a target for the treatment of neurological and immune-related disorders. In conclusion, LHX6 is a critical transcription factor that plays a multifaceted role in the development and function of various cell types, including neurons and immune cells. Further research is necessary to elucidate the mechanisms by which LHX6 regulates gene expression and to explore its therapeutic potential in the treatment of neurological and immune-related disorders.

Genular Protein ID: 3331397451

Symbol: LHX6_HUMAN

Name: LIM/homeobox protein Lhx6

UniProtKB Accession Codes:

Q9UPM6 A6PVQ1 A6PVQ2 A8K1B2 B7Z4D0 H0YN76 Q5T7S7 Q5T7S8 Q9NTK3 Q9UPM5

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 6 CDD 3 CTD 1 ChiTaRS 1 DMDM 1 DNASU 1 DisGeNET 1 EMBL 13 Ensembl 6 ExpressionAtlas 1 GO 14 Gene3D 2 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 5 KEGG 1 MANE-Select 1 MIM 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PIR 1 PRO 1 PROSITE 4 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 2 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 5 RNAct 1 RefSeq 6 SMART 2 SMR 1 STRING 1 SUPFAM 2 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 neXtProt 1

Citations:

PubMed ID: 10393337

Title: A brain region-specific gene product Lhx6.1 interacts with Ldb1 through tandem LIM-domains.

PubMed ID: 10393337

DOI: 10.1093/oxfordjournals.jbchem.a022420

PubMed ID: 14702039

Title: Complete sequencing and characterization of 21,243 full-length human cDNAs.

PubMed ID: 14702039

DOI: 10.1038/ng1285

PubMed ID: 15164053

Title: DNA sequence and analysis of human chromosome 9.

PubMed ID: 15164053

DOI: 10.1038/nature02465

PubMed ID: 11230166

Title: Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs.

PubMed ID: 11230166

DOI: 10.1101/gr.gr1547r

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

Sequence Information:

  • Length: 363
  • Mass: 40045
  • Checksum: 3633B5112D548532
  • Sequence:
    • MAQPGSGCKA TTRCLEGTAP PAMAQSDAEA LAGALDKDEG QASPCTPSTP SVCSPPSAAS 
SVPSAGKNIC SSCGLEILDR YLLKVNNLIW HVRCLECSVC RTSLRQQNSC YIKNKEIFCK 
MDYFSRFGTK CARCGRQIYA SDWVRRARGN AYHLACFACF SCKRQLSTGE EFGLVEEKVL 
CRIHYDTMIE NLKRAAENGN GLTLEGAVPS EQDSQPKPAK RARTSFTAEQ LQVMQAQFAQ 
DNNPDAQTLQ KLADMTGLSR RVIQVWFQNC RARHKKHTPQ HPVPPSGAPP SRLPSALSDD 
IHYTPFSSPE RARMVTLHGY IESQVQCGQV HCRLPYTAPP VHLKADMDGP LSNRGEKVIL 
FQY

Database document:

This is a preview of the gene's schema. Only a few entries are kept for 'singleCellExpressions,' 'mRNAExpressions,' and other large data arrays for visualization purposes. You can zoom in with the mouse wheel for a closer view, and the text will adjust automatically if necessary. For the full schema, download it here.