Gene Page:LHX1

概括?
基因 3975
Symbol LHX1
Synonyms LIM-1|LIM1
Description LIM homeobox 1
Reference MIM:601999|HGNC:HGNC:6593|Ensembl:ENSG00000273706|HPRD:09067|Vega:OTTHUMG00000188456
Gene type protein-coding
Map location 17q12
Pascal p-value 0.18
Fetal beta 0.635
eGene Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene set Description Info
CNV:YES Copy number variation studies Manual curation
CV:PGCnp Genome-wide Association Study GWAS
PMID:cooccur High-throughput literature-search Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
Literature High-throughput literature-search Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias Click to show details
GO_Annotation Mapping neuro-related keywords to Gene Ontology annotations 与神经相关关键字的命中：3

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs6687849 chr1 175904808 LHX1 3975 0.18 trans
rs2502827 chr1 176044216 LHX1 3975 0.02 trans
rs17572651 chr1 218943612 LHX1 3975 1.642E-4 trans
rs6734526 chr2 5616370 LHX1 3975 0.02 trans
rs6753473 chr2 26526418 LHX1 3975 0.12 trans
rs17028363 chr2 41913161 LHX1 3975 0.18 trans
rs16829545 chr2 151977407 LHX1 3975 6.31E-36 trans
rs16841750 chr2 158288461 LHX1 3975 2.792E-4 trans
rs3845734 chr2 171125572 LHX1 3975 0.02 trans
rs7584986 chr2 184111432 LHX1 3975 2.139e-11 trans
rs6741060 chr2 217169088 LHX1 3975 0 trans
rs9810143 chr3 5060209 LHX1 3975 3.73E-4 trans
rs6797307 chr3 8601563 LHX1 3975 0.03 trans
rs7692715 chr4 125335209 LHX1 3975 0.15 trans
rs2183142 chr4 159232695 LHX1 3975 0.03 trans
rs170776 chr4 173276735 LHX1 3975 0.02 trans
rs1396222 chr4 173279496 LHX1 3975 0.01 trans
rs335993 chr4 173321789 LHX1 3975 0.03 trans
rs335980 chr4 173329784 LHX1 3975 0.01 trans
rs335982 chr4 173330945 LHX1 3975 0.03 trans
rs336016 chr4 173366576 LHX1 3975 0.14 trans
rs337984 chr4 173411662 LHX1 3975 0.03 trans
rs17762315 chr5 76807576 LHX1 3975 0.02 trans
rs10491487 chr5 80323367 LHX1 3975 0.03 trans
rs10474151 chr5 84286402 LHX1 3975 0.02 trans
rs13360496 0 LHX1 3975 0.11 trans
rs13191953 chr6 24151042 LHX1 3975 0.04 trans
rs12196880 chr6 24313746 LHX1 3975 0.04 trans
rs10806988 chr6 24341768 LHX1 3975 0.11 trans
rs16890367 chr6 38078448 LHX1 3975 0.01 trans
rs12706918 chr7 80266147 LHX1 3975 0.16 trans
rs7787830 chr7 98797019 LHX1 3975 0.18 trans
rs6996695 chr8 77540580 LHX1 3975 0.01 trans
rs3118341 chr9 25185518 LHX1 3975 0.02 trans
rs9406868 chr9 25223372 LHX1 3975 0.03 trans
rs11139334 chr9 84209393 LHX1 3975 0 trans
rs2393316 chr10 59333070 LHX1 3975 0.01 trans
rs11061703 chr12 1436977 LHX1 3975 0.07 trans
rs7337967 chr13 53519044 LHX1 3975 0.1 trans
rs16955618 chr15 29937543 LHX1 3975 1.572E-45 trans
rs2077735 chr15 58479024 LHX1 3975 0.08 trans
rs11873184 chr18 1584081 LHX1 3975 0.01 trans
rs12458173 chr18 31430166 LHX1 3975 0.07 trans
rs17681878 chr18 34767223 LHX1 3975 0.05 trans
rs749043 chr20 46995700 LHX1 3975 0.19 trans
rs1041786 chr21 22617710 LHX1 3975 1.039E-5 trans
rs16986332 chrX 10958354 LHX1 3975 0.13 trans
rs16990575 chrX 32691327 LHX1 3975 0.03 trans

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
Gene Pearson's Correlation Spearman's Correlation
ARAP1 0.83 0.83
LTBP3 0.80 0.81
LZTS2 0.77 0.77
PLXNB1 0.76 0.75
RNPEPL1 0.76 0.75
DNM2 0.75 0.72
SLC38A10 0.75 0.72
TLN1 0.74 0.74
PLOD3 0.73 0.76
TMEM104 0.73 0.71
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
C18orf32 -0.39 -0.47
LY96 -0.38 -0.26
GLMN -0.37 -0.39
clec2b -0.37 -0.19
Sycp3 -0.37 -0.25
NOX1 -0.37 -0.29
AC087071.1 -0.37 -0.21
CAPZA2 -0.36 -0.40
TMEM126A -0.36 -0.38
AL050337.1 -0.36 -0.25

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0003700 transcription factor activity NAS 9212161
GO:0003702 RNA polymerase II transcription factor activity TAS 9212161
GO:0008270 zinc ion binding IEA -
GO:0046872 metal ion binding IEA -
GO:0043565 sequence-specific DNA binding IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0021702 cerebellar Purkinje cell differentiation IEA neuron, GABA, Brain (GO term level: 15) -
GO:0021549 cerebellum development IEA Brain (GO term level: 10) -
GO:0007399 nervous system development TAS neurite (GO term level: 5) 9212161
GO:0001706 endoderm formation IEA -
GO:0006355 regulation of transcription, DNA-dependent IEA -
GO:0009887 organ morphogenesis TAS 7700351
去:0009791 post-embryonic development IEA -
GO:0030154 cell differentiation IEA -
GO:0021937 Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation IEA -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005634 nucleus IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
TANAKA METHYLATED IN ESOPHAGEAL CARCINOMA 103 58 All SZGR 2.0 genes in this pathway
MOHANKUMAR TLX1 TARGETS UP 414 287 All SZGR 2.0 genes in this pathway
LI WILMS TUMOR VS FETAL KIDNEY 2 DN 51 42 All SZGR 2.0 genes in this pathway
HATADA METHYLATED IN LUNG CANCER UP 390 236 All SZGR 2.0 genes in this pathway
SHEPARD BMYB MORPHOLINO DN 200 112 All SZGR 2.0 genes in this pathway
SHEPARD BMYB TARGETS 74 41 All SZGR 2.0 genes in this pathway
SHEPARD CRUSH AND BURN MUTANT DN 185 111 All SZGR 2.0 genes in this pathway
SATO SILENCED BY METHYLATION IN PANCREATIC CANCER 2 50 34 All SZGR 2.0 genes in this pathway
SATO SILENCED BY METHYLATION IN PANCREATIC CANCER 1 419 273 All SZGR 2.0 genes in this pathway
LEIN CEREBELLUM MARKERS 85 47 All SZGR 2.0 genes in this pathway
BOCHKIS FOXA2 TARGETS 425 261 All SZGR 2.0 genes in this pathway
MATZUK IMPLANTATION AND UTERINE 22 15 All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K27ME3 269 159 All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 NOT SATB1 DN 448 282 All SZGR 2.0 genes in this pathway