Gene Page: NKX2-1

Summary ?
GeneID7080
SymbolNKX2-1
SynonymsBCH|BHC|NK-2|NKX2.1|NKX2A|NMTC1|T/EBP|TEBP|TITF1|TTF-1|TTF1
DescriptionNK2 homeobox 1
ReferenceMIM:600635|HGNC:HGNC:11825|Ensembl:ENSG00000136352|HPRD:02798|Vega:OTTHUMG00000140225
Gene typeprotein-coding
Map location14q13
Pascal p-value0.448
Fetal beta-0.074
eGeneAnterior cingulate cortex BA24

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophreniasClick to show details
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 3 

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs19511691436965881NKX2-1ENSG00000136352.132.92827E-60.0424473gtex_brain_ba24

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
GenePearson's Correlation Spearman's Correlation
FAM176B0.770.66
VAMP50.700.56
IFI270.700.50
METRN0.700.49
IL320.690.64
GSDMD0.680.56
CLDN50.680.68
GNG110.670.54
CRIP10.670.51
IGFBP70.640.63
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
WAC-0.61-0.61
EZH1-0.60-0.60
SLC4A1AP-0.58-0.51
ZNF331-0.58-0.59
MTMR15-0.58-0.56
PTK2-0.57-0.53
HBS1L-0.57-0.58
PIAS2-0.56-0.54
DDHD1-0.56-0.52
FBXW11-0.56-0.50

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0003700transcription factor activityIEA-
GO:0005515protein bindingISS-
GO:0016563transcription activator activityISS-
GO:0016563transcription activator activityNAS7711080 |7713914 
GO:0043565sequence-specific DNA bindingIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007420brain developmentIEABrain (GO term level: 7)-
GO:0001764neuron migrationIEAneuron (GO term level: 8)-
GO:0021798forebrain dorsal/ventral pattern formationIEABrain (GO term level: 10)-
GO:0009887organ morphogenesisIEA-
GO:0007492endoderm developmentIEA-
GO:0007389pattern specification processIEA-
GO:0030878thyroid gland developmentIEA-
GO:0030324lung developmentIEA-
GO:0045944positive regulation of transcription from RNA polymerase II promoterIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005634nucleusNAS-
GO:0005654nucleoplasmISS-
GO:0005667transcription factor complexIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
PID HNF3B PATHWAY 4537All SZGR 2.0 genes in this pathway
LUI THYROID CANCER PAX8 PPARG UP 4429All SZGR 2.0 genes in this pathway
TANAKA METHYLATED IN ESOPHAGEAL CARCINOMA 10358All SZGR 2.0 genes in this pathway
LUI THYROID CANCER CLUSTER 1 5133All SZGR 2.0 genes in this pathway
KIM MYC AMPLIFICATION TARGETS DN 9751All SZGR 2.0 genes in this pathway
KIM MYCN AMPLIFICATION TARGETS DN 10359All SZGR 2.0 genes in this pathway
LOCKWOOD AMPLIFIED IN LUNG CANCER 214139All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS 1038678All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS 1062725All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3 1118744All SZGR 2.0 genes in this pathway
BENPORATH PRC2 TARGETS 652441All SZGR 2.0 genes in this pathway
HALMOS CEBPA TARGETS DN 4626All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV NHEK UP 244151All SZGR 2.0 genes in this pathway
WELCSH BRCA1 TARGETS UP 198132All SZGR 2.0 genes in this pathway
NIELSEN SCHWANNOMA UP 1816All SZGR 2.0 genes in this pathway
LOPES METHYLATED IN COLON CANCER UP 2720All SZGR 2.0 genes in this pathway
MCCABE BOUND BY HOXC6 469239All SZGR 2.0 genes in this pathway
MCCABE HOXC6 TARGETS CANCER UP 3123All SZGR 2.0 genes in this pathway
MITSIADES RESPONSE TO APLIDIN UP 439257All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP 1305895All SZGR 2.0 genes in this pathway
SHEDDEN LUNG CANCER GOOD SURVIVAL A4 196124All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K27ME3 269159All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3K4ME2 AND H3K27ME3 349234All SZGR 2.0 genes in this pathway
MIKKELSEN NPC HCP WITH H3K27ME3 341243All SZGR 2.0 genes in this pathway
MIKKELSEN MEF HCP WITH H3K27ME3 590403All SZGR 2.0 genes in this pathway
PHESSE TARGETS OF APC AND MBD2 UP 2014All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725838All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-236026091A,m8hsa-miR-23abrainAUCACAUUGCCAGGGAUUUCC
hsa-miR-23bbrainAUCACAUUGCCAGGGAUUACC
miR-3381581641Ahsa-miR-338brainUCCAGCAUCAGUGAUUUUGUUGA
miR-495594600m8hsa-miR-495brainAAACAAACAUGGUGCACUUCUUU