SZGR2

Summary ?

GeneID	3164
Symbol	NR4A1
Synonyms	GFRP1\|HMR\|N10\|NAK-1\|NGFIB\|NP10\|NUR77\|TR3
Description	nuclear receptor subfamily 4 group A member 1
Reference	MIM:139139\|HGNC:HGNC:7980\|Ensembl:ENSG00000123358\|HPRD:00744\|Vega:OTTHUMG00000150393
Gene type	protein-coding
Map location	12q13
Pascal p-value	0.601
Fetal beta	-1.882

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
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
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.1579

Section I. Genetics and epigenetics annotation

Section II. Transcriptome annotation

General gene expression (GTEx)

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
SMC3	0.96	0.94
HNRNPU	0.96	0.96
HNRNPH1	0.96	0.96
HNRNPA2B1	0.96	0.96
NCL	0.95	0.97
HNRNPH3	0.95	0.95
RBM8A	0.95	0.94
SMARCE1	0.95	0.94
SFPQ	0.94	0.96
HNRNPR	0.94	0.95

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
HLA-F	-0.72	-0.83
AF347015.31	-0.69	-0.86
IFI27	-0.69	-0.88
TSC22D4	-0.69	-0.82
MT-CO2	-0.68	-0.86
AIFM3	-0.68	-0.76
C5orf53	-0.68	-0.73
FXYD1	-0.68	-0.86
PTH1R	-0.68	-0.77
AF347015.27	-0.67	-0.83

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0004879	ligand-dependent nuclear receptor activity	IEA		-
GO:0003700	transcription factor activity	IEA		-
GO:0003707	steroid hormone receptor activity	IEA		-
GO:0005515	protein binding	IEA		-
GO:0005515	protein binding	IPI		18305892
GO:0008270	zinc ion binding	IEA		-
GO:0046872	metal ion binding	IEA		-
GO:0043565	sequence-specific DNA binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006355	regulation of transcription, DNA-dependent	IEA		-
GO:0006350	transcription	IEA		-
GO:0006917	induction of apoptosis	IEA		-
GO:0007165	signal transduction	TAS		2626032
GO:0043154	negative regulation of caspase activity	IEA		-
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005634	nucleus	IEA		-
GO:0005654	nucleoplasm	EXP		11274386

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
AKT1	AKT \| MGC99656 \| PKB \| PKB-ALPHA \| PRKBA \| RAC \| RAC-ALPHA	v-akt murine thymoma viral oncogene homolog 1	-	HPRD,BioGRID	11274386
BCL2	Bcl-2	B-cell CLL/lymphoma 2	-	HPRD,BioGRID	14980220
EP300	KAT3B \| p300	E1A binding protein p300	-	HPRD,BioGRID	12082103
FXYD3	MAT-8 \| MAT8 \| MGC111076 \| PLML	FXYD domain containing ion transport regulator 3	Two-hybrid	BioGRID	16169070
GADD45GIP1	CKBBP2 \| CRIF1 \| MGC4667 \| MGC4758 \| PLINP-1 \| PRG6 \| Plinp1	growth arrest and DNA-damage-inducible, gamma interacting protein 1	Affinity Capture-Western	BioGRID	15459248
KAT2B	CAF \| P \| P/CAF \| PCAF	K(lysine) acetyltransferase 2B	-	HPRD,BioGRID	12082103
MED1	CRSP1 \| CRSP200 \| DRIP205 \| DRIP230 \| MGC71488 \| PBP \| PPARBP \| PPARGBP \| RB18A \| TRAP220 \| TRIP2	mediator complex subunit 1	-	HPRD	12082103
NCOA1	F-SRC-1 \| KAT13A \| MGC129719 \| MGC129720 \| NCoA-1 \| RIP160 \| SRC-1 \| SRC1 \| bHLHe42	nuclear receptor coactivator 1	-	HPRD,BioGRID	12082103
NCOA3	ACTR \| AIB-1 \| AIB1 \| CAGH16 \| CTG26 \| KAT13B \| MGC141848 \| RAC3 \| SRC3 \| TNRC14 \| TNRC16 \| TRAM-1 \| pCIP	nuclear receptor coactivator 3	-	HPRD,BioGRID	12082103
NCOR2	CTG26 \| SMRT \| SMRTE \| SMRTE-tau \| TNRC14 \| TRAC-1 \| TRAC1	nuclear receptor co-repressor 2	-	HPRD,BioGRID	11559707
PML	MYL \| PP8675 \| RNF71 \| TRIM19	promyelocytic leukemia	-	HPRD,BioGRID	12032831
RPS6KA6	RSK4	ribosomal protein S6 kinase, 90kDa, polypeptide 6	Two-hybrid	BioGRID	16169070
RXRA	FLJ00280 \| FLJ00318 \| FLJ16020 \| FLJ16733 \| MGC102720 \| NR2B1	retinoid X receptor, alpha	Reconstituted Complex Two-hybrid	BioGRID	14980220
RXRG	NR2B3 \| RXRC	retinoid X receptor, gamma	-	HPRD,BioGRID	12082103

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG MAPK SIGNALING PATHWAY	267	205	All SZGR 2.0 genes in this pathway
PID NFAT 3PATHWAY	54	47	All SZGR 2.0 genes in this pathway
PID REG GR PATHWAY	82	60	All SZGR 2.0 genes in this pathway
PID RXR VDR PATHWAY	26	24	All SZGR 2.0 genes in this pathway
REACTOME SIGNALLING BY NGF	217	167	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY SCF KIT	78	59	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY ERBB4	90	67	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY ERBB2	101	78	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY EGFR IN CANCER	109	80	All SZGR 2.0 genes in this pathway
REACTOME PI3K EVENTS IN ERBB4 SIGNALING	38	28	All SZGR 2.0 genes in this pathway
REACTOME PI3K EVENTS IN ERBB2 SIGNALING	44	34	All SZGR 2.0 genes in this pathway
REACTOME DOWNSTREAM SIGNALING EVENTS OF B CELL RECEPTOR BCR	97	66	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY THE B CELL RECEPTOR BCR	126	90	All SZGR 2.0 genes in this pathway
REACTOME NGF SIGNALLING VIA TRKA FROM THE PLASMA MEMBRANE	137	105	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY FGFR IN DISEASE	127	88	All SZGR 2.0 genes in this pathway
REACTOME PI3K AKT ACTIVATION	38	29	All SZGR 2.0 genes in this pathway
REACTOME GAB1 SIGNALOSOME	38	29	All SZGR 2.0 genes in this pathway
REACTOME GENERIC TRANSCRIPTION PATHWAY	352	181	All SZGR 2.0 genes in this pathway
REACTOME NUCLEAR RECEPTOR TRANSCRIPTION PATHWAY	49	36	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY PDGF	122	93	All SZGR 2.0 genes in this pathway
REACTOME DOWNSTREAM SIGNAL TRANSDUCTION	95	76	All SZGR 2.0 genes in this pathway
REACTOME PI 3K CASCADE	56	39	All SZGR 2.0 genes in this pathway
REACTOME DOWNSTREAM SIGNALING OF ACTIVATED FGFR	100	74	All SZGR 2.0 genes in this pathway
REACTOME IMMUNE SYSTEM	933	616	All SZGR 2.0 genes in this pathway
REACTOME ADAPTIVE IMMUNE SYSTEM	539	350	All SZGR 2.0 genes in this pathway
REACTOME PIP3 ACTIVATES AKT SIGNALING	29	20	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY FGFR	112	80	All SZGR 2.0 genes in this pathway
CHANDRAN METASTASIS TOP50 DN	45	26	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE LIVE UP	485	293	All SZGR 2.0 genes in this pathway
GAL LEUKEMIC STEM CELL DN	244	153	All SZGR 2.0 genes in this pathway
RODRIGUES NTN1 TARGETS DN	158	102	All SZGR 2.0 genes in this pathway
NAGASHIMA NRG1 SIGNALING UP	176	123	All SZGR 2.0 genes in this pathway
NAGASHIMA EGF SIGNALING UP	58	40	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS UP	214	155	All SZGR 2.0 genes in this pathway
GESERICK TERT TARGETS DN	21	16	All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 1 DN	378	231	All SZGR 2.0 genes in this pathway
ODONNELL METASTASIS UP	82	58	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN UP	1142	669	All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN UP	612	367	All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST TUMORS 324 UP	150	93	All SZGR 2.0 genes in this pathway
BERENJENO TRANSFORMED BY RHOA UP	536	340	All SZGR 2.0 genes in this pathway
WANG ESOPHAGUS CANCER VS NORMAL UP	121	72	All SZGR 2.0 genes in this pathway
BUSA SAM68 TARGETS UP	7	6	All SZGR 2.0 genes in this pathway
TOMIDA METASTASIS DN	18	11	All SZGR 2.0 genes in this pathway
RAMJAUN APOPTOSIS BY TGFB1 VIA MAPK1 DN	8	6	All SZGR 2.0 genes in this pathway
GALLUZZI PERMEABILIZE MITOCHONDRIA	43	31	All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 2B	392	251	All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER HIGH RECURRENCE	49	31	All SZGR 2.0 genes in this pathway
LUI THYROID CANCER CLUSTER 1	51	33	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 UP	309	199	All SZGR 2.0 genes in this pathway
WATTEL AUTONOMOUS THYROID ADENOMA DN	55	29	All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS UP	769	437	All SZGR 2.0 genes in this pathway
INGRAM SHH TARGETS UP	127	79	All SZGR 2.0 genes in this pathway
LOPEZ MBD TARGETS	957	597	All SZGR 2.0 genes in this pathway
WEI MYCN TARGETS WITH E BOX	795	478	All SZGR 2.0 genes in this pathway
AMIT EGF RESPONSE 40 HELA	42	29	All SZGR 2.0 genes in this pathway
AMIT SERUM RESPONSE 40 MCF10A	32	21	All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST UP	398	262	All SZGR 2.0 genes in this pathway
JECHLINGER EPITHELIAL TO MESENCHYMAL TRANSITION DN	66	47	All SZGR 2.0 genes in this pathway
YAO HOXA10 TARGETS VIA PROGESTERONE UP	79	58	All SZGR 2.0 genes in this pathway
KANG IMMORTALIZED BY TERT DN	102	67	All SZGR 2.0 genes in this pathway
MOREAUX MULTIPLE MYELOMA BY TACI UP	412	249	All SZGR 2.0 genes in this pathway
ABE VEGFA TARGETS 2HR	34	21	All SZGR 2.0 genes in this pathway
MCDOWELL ACUTE LUNG INJURY UP	45	29	All SZGR 2.0 genes in this pathway
INGRAM SHH TARGETS	7	5	All SZGR 2.0 genes in this pathway
RAMASWAMY METASTASIS DN	61	47	All SZGR 2.0 genes in this pathway
YAMAZAKI TCEB3 TARGETS UP	175	116	All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL	254	164	All SZGR 2.0 genes in this pathway
WESTON VEGFA TARGETS	108	71	All SZGR 2.0 genes in this pathway
ZHU CMV ALL UP	120	89	All SZGR 2.0 genes in this pathway
DELLA RESPONSE TO TSA AND BUTYRATE	21	17	All SZGR 2.0 genes in this pathway
LEE AGING NEOCORTEX UP	89	59	All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS PEAK AT 2HR	51	36	All SZGR 2.0 genes in this pathway
LEE AGING CEREBELLUM UP	84	58	All SZGR 2.0 genes in this pathway
MCCLUNG COCAIN REWARD 4WK	75	47	All SZGR 2.0 genes in this pathway
ZHU CMV 24 HR UP	93	65	All SZGR 2.0 genes in this pathway
ABE VEGFA TARGETS 30MIN	29	21	All SZGR 2.0 genes in this pathway
ZHU CMV 8 HR UP	47	39	All SZGR 2.0 genes in this pathway
WESTON VEGFA TARGETS 3HR	74	47	All SZGR 2.0 genes in this pathway
JOSEPH RESPONSE TO SODIUM BUTYRATE UP	31	21	All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS UP	566	371	All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION UP	461	298	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS UP	673	430	All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS UP	602	364	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS UP	601	369	All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN	546	362	All SZGR 2.0 genes in this pathway
WINTER HYPOXIA METAGENE	242	168	All SZGR 2.0 genes in this pathway
WU SILENCED BY METHYLATION IN BLADDER CANCER	55	42	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 36HR UP	221	150	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 60HR UP	293	203	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS UP	108	78	All SZGR 2.0 genes in this pathway
SHAFFER IRF4 TARGETS IN MYELOMA VS MATURE B LYMPHOCYTE	101	76	All SZGR 2.0 genes in this pathway
SHAFFER IRF4 TARGETS IN PLASMA CELL VS MATURE B LYMPHOCYTE	67	51	All SZGR 2.0 genes in this pathway
LEE LIVER CANCER HEPATOBLAST	16	12	All SZGR 2.0 genes in this pathway
YAGI AML WITH INV 16 TRANSLOCATION	422	277	All SZGR 2.0 genes in this pathway
UZONYI RESPONSE TO LEUKOTRIENE AND THROMBIN	37	26	All SZGR 2.0 genes in this pathway
DORN ADENOVIRUS INFECTION 12HR UP	29	18	All SZGR 2.0 genes in this pathway
DORN ADENOVIRUS INFECTION 24HR DN	43	32	All SZGR 2.0 genes in this pathway
DORN ADENOVIRUS INFECTION 32HR DN	39	28	All SZGR 2.0 genes in this pathway
DORN ADENOVIRUS INFECTION 48HR DN	40	29	All SZGR 2.0 genes in this pathway
TIAN TNF SIGNALING NOT VIA NFKB	22	16	All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE	721	492	All SZGR 2.0 genes in this pathway
CHANDRAN METASTASIS DN	306	191	All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 1	68	50	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 1HR UP	61	44	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 2HR UP	39	30	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP B	549	316	All SZGR 2.0 genes in this pathway
KASLER HDAC7 TARGETS 1 UP	194	133	All SZGR 2.0 genes in this pathway
PEDERSEN METASTASIS BY ERBB2 ISOFORM 5	11	8	All SZGR 2.0 genes in this pathway
YANG BCL3 TARGETS UP	364	236	All SZGR 2.0 genes in this pathway
PLASARI TGFB1 TARGETS 1HR UP	34	26	All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS UP	279	155	All SZGR 2.0 genes in this pathway
ZWANG CLASS 3 TRANSIENTLY INDUCED BY EGF	222	159	All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
miR-488	643	649	1A	hsa-miR-488	CCCAGAUAAUGGCACUCUCAA
miR-543	588	594	1A	hsa-miR-543	AAACAUUCGCGGUGCACUUCU

SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.

Gene Page: NR4A1