Gene Page: NR1H3

Summary ?
GeneID10062
SymbolNR1H3
SynonymsLXR-a|LXRA|RLD-1
Descriptionnuclear receptor subfamily 1 group H member 3
ReferenceMIM:602423|HGNC:HGNC:7966|Ensembl:ENSG00000025434|HPRD:07211|Vega:OTTHUMG00000150628
Gene typeprotein-coding
Map location11p11.2
Pascal p-value0.044
Sherlock p-value0.282
Fetal beta-0.405
DMG1 (# studies)
eGeneHypothalamus
Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Jaffe_2016Genome-wide DNA methylation analysisThis dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 1

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg244190991147270565NR1H33.17E-10-0.0177.03E-7DMG:Jaffe_2016

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs2452512chr1060954418NR1H3100620.08trans
rs12450116chr1753333924NR1H3100620.09trans
rs4465127chrX75360522NR1H3100620.04trans
rs6648110chrX75871494NR1H3100620.01trans
rs6648142chrX75928565NR1H3100620.01trans
rs192069chrX76053555NR1H3100620trans
rs7881752chrX76197379NR1H3100620.03trans
rs5982340chrX76230686NR1H3100620.01trans

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
ZNF280D0.930.95
DHX290.920.95
LARS0.920.95
USP150.920.94
C1orf1030.920.94
ZNF354A0.910.94
PLAA0.910.94
TPP20.910.93
GPBP10.910.94
C10orf1370.910.93
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MT-CO2-0.80-0.86
AF347015.31-0.80-0.86
AF347015.33-0.79-0.86
FXYD1-0.79-0.87
AF347015.8-0.78-0.86
AF347015.27-0.78-0.84
HLA-F-0.77-0.81
IFI27-0.77-0.86
HIGD1B-0.77-0.86
MT-CYB-0.76-0.83

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG PPAR SIGNALING PATHWAY 6947All SZGR 2.0 genes in this pathway
BIOCARTA PPARA PATHWAY 5843All SZGR 2.0 genes in this pathway
BIOCARTA NUCLEARRS PATHWAY 1512All SZGR 2.0 genes in this pathway
PID RXR VDR PATHWAY 2624All SZGR 2.0 genes in this pathway
REACTOME GENERIC TRANSCRIPTION PATHWAY 352181All SZGR 2.0 genes in this pathway
REACTOME NUCLEAR RECEPTOR TRANSCRIPTION PATHWAY 4936All SZGR 2.0 genes in this pathway
PICCALUGA ANGIOIMMUNOBLASTIC LYMPHOMA UP 205140All SZGR 2.0 genes in this pathway
BERTUCCI MEDULLARY VS DUCTAL BREAST CANCER UP 206111All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS UP 14984All SZGR 2.0 genes in this pathway
LANDIS BREAST CANCER PROGRESSION DN 7043All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST PRENEOPLASTIC DN 5533All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST TUMORS 324 DN 14993All SZGR 2.0 genes in this pathway
HAMAI APOPTOSIS VIA TRAIL DN 186107All SZGR 2.0 genes in this pathway
RIZ ERYTHROID DIFFERENTIATION 12HR 4335All SZGR 2.0 genes in this pathway
ROVERSI GLIOMA COPY NUMBER UP 10075All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS DN 1024594All SZGR 2.0 genes in this pathway
ROZANOV MMP14 TARGETS UP 266171All SZGR 2.0 genes in this pathway
LEE LIVER CANCER CIPROFIBRATE DN 6643All SZGR 2.0 genes in this pathway
LEE LIVER CANCER MYC TGFA DN 6544All SZGR 2.0 genes in this pathway
LEE LIVER CANCER ACOX1 DN 6539All SZGR 2.0 genes in this pathway
LEE LIVER CANCER MYC E2F1 DN 6438All SZGR 2.0 genes in this pathway
LEE LIVER CANCER DENA DN 7445All SZGR 2.0 genes in this pathway
LEE LIVER CANCER E2F1 DN 6442All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS DN 366238All SZGR 2.0 genes in this pathway
LENAOUR DENDRITIC CELL MATURATION UP 11484All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 16HR DN 8662All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 24HR DN 148102All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 14HR DN 298200All SZGR 2.0 genes in this pathway
RUAN RESPONSE TO TNF DN 8450All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 48HR DN 504323All SZGR 2.0 genes in this pathway
LI ADIPOGENESIS BY ACTIVATED PPARG 1712All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS 6 189112All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR UP 953554All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR DN 1011592All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 STIMULATED 1022619All SZGR 2.0 genes in this pathway
LEE METASTASIS AND ALTERNATIVE SPLICING DN 4531All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL CULTURED VS FRESH UP 425298All SZGR 2.0 genes in this pathway
QI PLASMACYTOMA UP 259185All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO CSF2RB AND IL4 DN 315201All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF UP 418282All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF VS CSF2RB AND IL4 UP 408276All SZGR 2.0 genes in this pathway
KYNG WERNER SYNDROM AND NORMAL AGING UP 9362All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 30MIN DN 15099All SZGR 2.0 genes in this pathway
WANG CLASSIC ADIPOGENIC TARGETS OF PPARG 2615All SZGR 2.0 genes in this pathway
CHYLA CBFA2T3 TARGETS UP 387225All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS UP 504321All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 3 UP 430288All SZGR 2.0 genes in this pathway
STEGER ADIPOGENESIS UP 2116All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 8D 882506All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM B 517302All SZGR 2.0 genes in this pathway