Gene Page: NR4A2

Summary ?
GeneID4929
SymbolNR4A2
SynonymsHZF-3|NOT|NURR1|RNR1|TINUR
Descriptionnuclear receptor subfamily 4 group A member 2
ReferenceMIM:601828|HGNC:HGNC:7981|Ensembl:ENSG00000153234|HPRD:03493|Vega:OTTHUMG00000131950
Gene typeprotein-coding
Map location2q22-q23
Pascal p-value0.055
Sherlock p-value0.682
Fetal beta1.403
DMG2 (# studies)

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. 3
DMG:Wockner_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 3
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
AssociationA combined odds ratio method (Sun et al. 2008), association studies2Link to SZGene
GSMA_IIAGenome scan meta-analysis (All samples)Psr: 0.02395 
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophreniasClick to show details
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 3 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg061011802157185558NR4A24.541E-40.4050.045DMG:Wockner_2014
cg039537092157189668NR4A26.96E-10-0.0129.72E-7DMG:Jaffe_2016
cg215122752157198069NR4A26.58E-9-0.0113.39E-6DMG:Jaffe_2016


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.

No co-expressed genes in brain regions


Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0003700transcription factor activityIEA-
GO:0003707steroid hormone receptor activityIEA-
GO:0005515protein bindingIEA-
GO:0008270zinc ion bindingIEA-
GO:0046872metal ion bindingIEA-
GO:0043565sequence-specific DNA bindingIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0030182neuron differentiationIEAneuron (GO term level: 8)-
GO:0042053regulation of dopamine metabolic processIEAdopamine (GO term level: 9)-
GO:0007399nervous system developmentIEAneurite (GO term level: 5)-
GO:0006355regulation of transcription, DNA-dependentIEA-
GO:0006350transcriptionIEA-
GO:0007165signal transductionNAS7877627 
GO:0045944positive regulation of transcription from RNA polymerase II promoterIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005634nucleusTAS7877627 

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
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
WEST ADRENOCORTICAL TUMOR MARKERS DN 2014All SZGR 2.0 genes in this pathway
NAKAMURA TUMOR ZONE PERIPHERAL VS CENTRAL DN 634384All SZGR 2.0 genes in this pathway
PICCALUGA ANGIOIMMUNOBLASTIC LYMPHOMA DN 13686All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA UP 783507All SZGR 2.0 genes in this pathway
TURASHVILI BREAST NORMAL DUCTAL VS LOBULAR UP 6840All SZGR 2.0 genes in this pathway
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA UP 177110All SZGR 2.0 genes in this pathway
OSWALD HEMATOPOIETIC STEM CELL IN COLLAGEN GEL UP 233161All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 6HR DN 4129All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 8D UP 15791All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 10D UP 194122All SZGR 2.0 genes in this pathway
LOPEZ MESOTELIOMA SURVIVAL TIME DN 77All SZGR 2.0 genes in this pathway
RHEIN ALL GLUCOCORTICOID THERAPY UP 7841All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION MONOCYTE DN 5438All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS UP 501327All SZGR 2.0 genes in this pathway
NAGASHIMA NRG1 SIGNALING UP 176123All SZGR 2.0 genes in this pathway
NAGASHIMA EGF SIGNALING UP 5840All SZGR 2.0 genes in this pathway
GRAHAM CML QUIESCENT VS NORMAL DIVIDING UP 5733All SZGR 2.0 genes in this pathway
GRAHAM NORMAL QUIESCENT VS NORMAL DIVIDING UP 6647All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821933All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA ANAPLASTIC DN 537339All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS DN 508354All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE UP 530342All SZGR 2.0 genes in this pathway
VANHARANTA UTERINE FIBROID DN 6745All SZGR 2.0 genes in this pathway
RIZ ERYTHROID DIFFERENTIATION HBZ 4127All SZGR 2.0 genes in this pathway
RIZ ERYTHROID DIFFERENTIATION HEMGN 3121All SZGR 2.0 genes in this pathway
RIZ ERYTHROID DIFFERENTIATION 6HR 4023All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN 514330All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR DN 428306All SZGR 2.0 genes in this pathway
AMIT EGF RESPONSE 60 HELA 4632All SZGR 2.0 genes in this pathway
AMIT SERUM RESPONSE 40 MCF10A 3221All SZGR 2.0 genes in this pathway
AMIT SERUM RESPONSE 60 MCF10A 5742All SZGR 2.0 genes in this pathway
LE EGR2 TARGETS DN 10884All SZGR 2.0 genes in this pathway
YAGI AML FAB MARKERS 191131All SZGR 2.0 genes in this pathway
DEBIASI APOPTOSIS BY REOVIRUS INFECTION UP 314201All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL 254164All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV NHEK UP 244151All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS PEAK AT 2HR 5136All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS 1 3324All SZGR 2.0 genes in this pathway
DAZARD UV RESPONSE CLUSTER G1 6741All SZGR 2.0 genes in this pathway
SAFFORD T LYMPHOCYTE ANERGY 8754All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 3 720440All SZGR 2.0 genes in this pathway
ZHENG BOUND BY FOXP3 491310All SZGR 2.0 genes in this pathway
ZHENG FOXP3 TARGETS IN THYMUS DN 129All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS UP 317208All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION UP 461298All SZGR 2.0 genes in this pathway
WALLACE PROSTATE CANCER RACE UP 299167All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 3D UP 210124All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER DN 540340All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE DN 274165All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL DN 701446All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN 546362All SZGR 2.0 genes in this pathway
BLUM RESPONSE TO SALIRASIB DN 342220All SZGR 2.0 genes in this pathway
WU ALZHEIMER DISEASE DN 1912All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS DN 366257All 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 DN 235144All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF VS CSF2RB AND IL4 UP 408276All SZGR 2.0 genes in this pathway
LEE SP4 THYMOCYTE 1411All SZGR 2.0 genes in this pathway
LEE RECENT THYMIC EMIGRANT 227128All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K4ME3 AND H3K27ME3 1069729All SZGR 2.0 genes in this pathway
LIU VAV3 PROSTATE CARCINOGENESIS DN 1714All SZGR 2.0 genes in this pathway
CROONQUIST STROMAL STIMULATION UP 6042All SZGR 2.0 genes in this pathway
CROONQUIST NRAS VS STROMAL STIMULATION DN 9965All SZGR 2.0 genes in this pathway
VALK AML CLUSTER 1 2819All SZGR 2.0 genes in this pathway
PYEON CANCER HEAD AND NECK VS CERVICAL UP 19395All SZGR 2.0 genes in this pathway
GUTIERREZ WALDENSTROEMS MACROGLOBULINEMIA 1 DN 97All SZGR 2.0 genes in this pathway
UZONYI RESPONSE TO LEUKOTRIENE AND THROMBIN 3726All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE 721492All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 2HR UP 3930All SZGR 2.0 genes in this pathway
WINZEN DEGRADED VIA KHSRP 10070All SZGR 2.0 genes in this pathway
PEDERSEN METASTASIS BY ERBB2 ISOFORM 5 118All SZGR 2.0 genes in this pathway
PLASARI TGFB1 SIGNALING VIA NFIC 1HR UP 3325All SZGR 2.0 genes in this pathway
PLASARI TGFB1 SIGNALING VIA NFIC 10HR DN 3025All SZGR 2.0 genes in this pathway
WANG MLL TARGETS 289188All SZGR 2.0 genes in this pathway
PEDRIOLI MIR31 TARGETS DN 418245All SZGR 2.0 genes in this pathway
SMIRNOV RESPONSE TO IR 6HR DN 11469All SZGR 2.0 genes in this pathway
ZWANG CLASS 3 TRANSIENTLY INDUCED BY EGF 222159All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-1/206902908m8hsa-miR-1UGGAAUGUAAAGAAGUAUGUA
hsa-miR-206SZUGGAAUGUAAGGAAGUGUGUGG
hsa-miR-613AGGAAUGUUCCUUCUUUGCC
miR-129-5p6436501A,m8hsa-miR-129brainCUUUUUGCGGUCUGGGCUUGC
hsa-miR-129-5pCUUUUUGCGGUCUGGGCUUGCU
miR-132/21210141020m8hsa-miR-212SZUAACAGUCUCCAGUCACGGCC
hsa-miR-132brainUAACAGUCUACAGCCAUGGUCG
miR-17-5p/20/93.mr/106/519.d10641070m8hsa-miR-17-5pCAAAGUGCUUACAGUGCAGGUAGU
hsa-miR-20abrainUAAAGUGCUUAUAGUGCAGGUAG
hsa-miR-106aAAAAGUGCUUACAGUGCAGGUAGC
hsa-miR-106bSZUAAAGUGCUGACAGUGCAGAU
hsa-miR-20bSZCAAAGUGCUCAUAGUGCAGGUAG
hsa-miR-519dCAAAGUGCCUCCCUUUAGAGUGU
miR-183113611421Ahsa-miR-183UAUGGCACUGGUAGAAUUCACUG
miR-18612511257m8hsa-miR-186CAAAGAAUUCUCCUUUUGGGCUU
miR-204/211870876m8hsa-miR-204brainUUCCCUUUGUCAUCCUAUGCCU
hsa-miR-211UUCCCUUUGUCAUCCUUCGCCU
miR-217567573m8hsa-miR-217UACUGCAUCAGGAACUGAUUGGAU
miR-30-5p127912861A,m8hsa-miR-30a-5pUGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrainUGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZUGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZUGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5pUGUAAACAUCCUUGACUGGA
miR-32010061012m8hsa-miR-320AAAAGCUGGGUUGAGAGGGCGAA
miR-33565571m8hsa-miR-33GUGCAUUGUAGUUGCAUUG
hsa-miR-33bGUGCAUUGCUGUUGCAUUGCA
miR-34/44911931199m8hsa-miR-34abrainUGGCAGUGUCUUAGCUGGUUGUU
hsa-miR-34cAGGCAGUGUAGUUAGCUGAUUGC
hsa-miR-449UGGCAGUGUAUUGUUAGCUGGU
hsa-miR-449bAGGCAGUGUAUUGUUAGCUGGC
miR-34b11941200m8hsa-miR-34bUAGGCAGUGUCAUUAGCUGAUUG
miR-361124312501A,m8hsa-miR-361brainUUAUCAGAAUCUCCAGGGGUAC
miR-365211217m8hsa-miR-365UAAUGCCCCUAAAAAUCCUUAU
miR-369-3p7377431Ahsa-miR-369-3pAAUAAUACAUGGUUGAUCUUU
miR-374737743m8hsa-miR-374UUAUAAUACAACCUGAUAAGUG
miR-376c7627681Ahsa-miR-376cAACAUAGAGGAAAUUCCACG
miR-381116011661Ahsa-miR-381UAUACAAGGGCAAGCUCUCUGU
miR-409-3p901907m8hsa-miR-409-3pCGAAUGUUGCUCGGUGAACCCCU
miR-4107397451Ahsa-miR-410AAUAUAACACAGAUGGCCUGU
miR-4506436491Ahsa-miR-450UUUUUGCGAUGUGUUCCUAAUA
miR-45511771183m8hsa-miR-455UAUGUGCCUUUGGACUACAUCG
miR-5398158211Ahsa-miR-539GGAGAAAUUAUCCUUGGUGUGU
miR-93.hd/291-3p/294/295/302/372/373/52010631069m8hsa-miR-93brainAAAGUGCUGUUCGUGCAGGUAG
hsa-miR-302aUAAGUGCUUCCAUGUUUUGGUGA
hsa-miR-302bUAAGUGCUUCCAUGUUUUAGUAG
hsa-miR-302cUAAGUGCUUCCAUGUUUCAGUGG
hsa-miR-302dUAAGUGCUUCCAUGUUUGAGUGU
hsa-miR-372AAAGUGCUGCGACAUUUGAGCGU
hsa-miR-373GAAGUGCUUCGAUUUUGGGGUGU
hsa-miR-520eAAAGUGCUUCCUUUUUGAGGG
hsa-miR-520aAAAGUGCUUCCCUUUGGACUGU
hsa-miR-520bAAAGUGCUUCCUUUUAGAGGG
hsa-miR-520cAAAGUGCUUCCUUUUAGAGGGUU
hsa-miR-520dAAAGUGCUUCUCUUUGGUGGGUU