SZGR2

Summary ?

GeneID	1947
Symbol	EFNB1
Synonyms	CFND\|CFNS\|EFB1\|EFL3\|EPLG2\|Elk-L\|LERK2
Description	ephrin-B1
Reference	MIM:300035\|HGNC:HGNC:3226\|Ensembl:ENSG00000090776\|HPRD:02072\|Vega:OTTHUMG00000021751
Gene type	protein-coding
Map location	Xq12
Fetal beta	0.993

Gene in Data Sources

Gene set name	Method of gene set	Description
CV:GWAScat	Genome-wide Association Studies	This data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:PGC128	Genome-wide Association Study	A multi-stage schizophrenia GWAS of up to 36,989 cases and 113,075 controls. Reported by the Schizophrenia Working Group of PGC. 128 independent associations spanning 108 loci
CV:PGCnp	Genome-wide Association Study	GWAS
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 2
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.0172

Section I. Genetics and epigenetics annotation

CV:PGC128

SNP ID	Chromosome	Position	Allele	P	Function	Gene	Up/Down Distance
rs5937157	chrX	68377126	TG	5.742E-11	intergenic	EFNB1,PJA1	dist=315120;dist=3455

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
GRIN2A	0.91	0.86
DLGAP2	0.90	0.82
MEF2D	0.89	0.74
DIRAS2	0.89	0.77
TMEM132D	0.88	0.82
KCNB1	0.88	0.76
IQSEC2	0.88	0.82
TRHDE	0.88	0.86
MFSD4	0.87	0.88
PITPNM3	0.87	0.86

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
BCL7C	-0.46	-0.57
HEBP2	-0.46	-0.66
GTF3C6	-0.43	-0.45
RPL23A	-0.43	-0.52
FADS2	-0.43	-0.39
C9orf46	-0.42	-0.48
C21orf57	-0.42	-0.49
TRAF4	-0.41	-0.50
RPS12	-0.41	-0.56
DYNLT1	-0.40	-0.56

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005515	protein binding	IPI		9883737
GO:0005515	protein binding	ISS		-
GO:0046875	ephrin receptor binding	TAS		8798744
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007411	axon guidance	IEA	axon (GO term level: 13)	-
GO:0007399	nervous system development	IEA	neurite (GO term level: 5)	-
GO:0001755	neural crest cell migration	IEA		-
GO:0007155	cell adhesion	TAS		8798744
GO:0007267	cell-cell signaling	TAS		8798744
GO:0009880	embryonic pattern specification	IEA		-
GO:0007275	multicellular organismal development	IEA		-
GO:0030154	cell differentiation	IEA		-
GO:0042102	positive regulation of T cell proliferation	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0045202	synapse	ISS	neuron, Synap, Neurotransmitter, Glial (GO term level: 2)	-
GO:0005625	soluble fraction	TAS		8798744
GO:0016020	membrane	IEA		-
GO:0005887	integral to plasma membrane	TAS		8660976
GO:0045121	membrane raft	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
EPHA3	ETK \| ETK1 \| HEK \| HEK4 \| TYRO4	EPH receptor A3	Reconstituted Complex	BioGRID	9195962
EPHB1	ELK \| EPHT2 \| FLJ37986 \| Hek6 \| NET	EPH receptor B1	The membrane bound ligand ELK-L interacts with the receptor ELK. This interaction was modeled on a demonstrated interaction between ELK-L from human and ELK from rat.	BIND	7973638 \|8755474
EPHB1	ELK \| EPHT2 \| FLJ37986 \| Hek6 \| NET	EPH receptor B1	-	HPRD,BioGRID	10669731 \|12223469
EPHB2	CAPB \| DRT \| EPHT3 \| ERK \| Hek5 \| MGC87492 \| PCBC \| Tyro5	EPH receptor B2	-	HPRD	8878483
EPHB2	CAPB \| DRT \| EPHT3 \| ERK \| Hek5 \| MGC87492 \| PCBC \| Tyro5	EPH receptor B2	The membrane bound ligand ELK-L interacts with the receptor NUK. This interaction was modeled on a demonstrated interaction between ELK-L from human and NUK from mouse.	BIND	8755474
GRIP2	-	glutamate receptor interacting protein 2	in vitro in vivo Two-hybrid	BioGRID	9883737 \|10197531
NCK2	GRB4 \| NCKbeta	NCK adaptor protein 2	-	HPRD	11557983
PICK1	MGC15204 \| PICK \| PRKCABP	protein interacting with PRKCA 1	-	HPRD,BioGRID	9883737
PTPN13	DKFZp686J1497 \| FAP-1 \| PNP1 \| PTP-BAS \| PTP-BL \| PTP1E \| PTPL1 \| PTPLE	protein tyrosine phosphatase, non-receptor type 13 (APO-1/CD95 (Fas)-associated phosphatase)	-	HPRD,BioGRID	9920925
RGS3	C2PA \| FLJ20370 \| FLJ31516 \| FLJ90496 \| PDZ-RGS3 \| RGP3	regulator of G-protein signaling 3	-	HPRD,BioGRID	11301003
SDCBP	MDA-9 \| ST1 \| SYCL \| TACIP18	syndecan binding protein (syntenin)	-	HPRD,BioGRID	9920925
SORBS1	CAP \| DKFZp451C066 \| DKFZp586P1422 \| FLAF2 \| FLJ12406 \| KIAA1296 \| R85FL \| SH3D5 \| SH3P12 \| SORB1	sorbin and SH3 domain containing 1	-	HPRD	11557983
SRC	ASV \| SRC1 \| c-SRC \| p60-Src	v-src sarcoma (Schmidt-Ruppin A-2) viral oncogene homolog (avian)	-	HPRD,BioGRID	8878483

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG AXON GUIDANCE	129	103	All SZGR 2.0 genes in this pathway
PID EPHB FWD PATHWAY	40	38	All SZGR 2.0 genes in this pathway
PID EPHRINB REV PATHWAY	30	25	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE UP	530	342	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP	552	347	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
HUMMERICH SKIN CANCER PROGRESSION DN	100	64	All SZGR 2.0 genes in this pathway
LIEN BREAST CARCINOMA METAPLASTIC VS DUCTAL UP	83	51	All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK	1652	1023	All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS	1038	678	All SZGR 2.0 genes in this pathway
SAKAI CHRONIC HEPATITIS VS LIVER CANCER DN	36	24	All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL FGF3	8	7	All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST UP	398	262	All SZGR 2.0 genes in this pathway
GENTILE UV LOW DOSE UP	27	19	All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 DN	830	547	All SZGR 2.0 genes in this pathway
HENDRICKS SMARCA4 TARGETS DN	53	34	All SZGR 2.0 genes in this pathway
TSENG IRS1 TARGETS DN	135	88	All SZGR 2.0 genes in this pathway
JACKSON DNMT1 TARGETS DN	25	21	All SZGR 2.0 genes in this pathway
BILD HRAS ONCOGENIC SIGNATURE	261	166	All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS UP	566	371	All SZGR 2.0 genes in this pathway
KYNG ENVIRONMENTAL STRESS RESPONSE NOT BY GAMMA IN WS	33	22	All SZGR 2.0 genes in this pathway
KYNG DNA DAMAGE DN	195	135	All SZGR 2.0 genes in this pathway
KYNG ENVIRONMENTAL STRESS RESPONSE UP	56	41	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 DN	593	372	All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS DN	591	366	All SZGR 2.0 genes in this pathway
VART KSHV INFECTION ANGIOGENIC MARKERS UP	165	118	All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP	1305	895	All SZGR 2.0 genes in this pathway
HOFFMANN SMALL PRE BII TO IMMATURE B LYMPHOCYTE DN	50	33	All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN	668	419	All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER SUBCLASS S1	237	159	All SZGR 2.0 genes in this pathway
MIYAGAWA TARGETS OF EWSR1 ETS FUSIONS UP	259	159	All SZGR 2.0 genes in this pathway
TERAO AOX4 TARGETS SKIN UP	38	27	All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP	489	314	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-103/107	834	840	1A	hsa-miR-103^brain	AGCAGCAUUGUACAGGGCUAUGA
miR-103/107	834	840	1A	hsa-miR-107^brain	AGCAGCAUUGUACAGGGCUAUCA
miR-124/506	200	206	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	200	206	m8	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-129-5p	730	736	1A	hsa-miR-129^brain	CUUUUUGCGGUCUGGGCUUGC
miR-129-5p	730	736	1A	hsa-miR-129-5p	CUUUUUGCGGUCUGGGCUUGCU
miR-140	1496	1502	1A	hsa-miR-140^brain	AGUGGUUUUACCCUAUGGUAG
miR-15/16/195/424/497	1178	1184	1A	hsa-miR-15a^brain	UAGCAGCACAUAAUGGUUUGUG
				hsa-miR-16^brain	UAGCAGCACGUAAAUAUUGGCG
				hsa-miR-15b^brain	UAGCAGCACAUCAUGGUUUACA
				hsa-miR-195^SZ	UAGCAGCACAGAAAUAUUGGC
				hsa-miR-424	CAGCAGCAAUUCAUGUUUUGAA
				hsa-miR-497	CAGCAGCACACUGUGGUUUGU
miR-150	1303	1309	1A	hsa-miR-150	UCUCCCAACCCUUGUACCAGUG
miR-17-5p/20/93.mr/106/519.d	1148	1154	m8	hsa-miR-17-5p	CAAAGUGCUUACAGUGCAGGUAGU
				hsa-miR-20a^brain	UAAAGUGCUUAUAGUGCAGGUAG
				hsa-miR-106a	AAAAGUGCUUACAGUGCAGGUAGC
				hsa-miR-106b^SZ	UAAAGUGCUGACAGUGCAGAU
				hsa-miR-20b^SZ	CAAAGUGCUCAUAGUGCAGGUAG
				hsa-miR-519d	CAAAGUGCCUCCCUUUAGAGUGU
miR-185	936	942	m8	hsa-miR-185^brain	UGGAGAGAAAGGCAGUUC
miR-208	799	805	1A	hsa-miR-208	AUAAGACGAGCAAAAAGCUUGU
miR-34/449	1189	1195	1A	hsa-miR-34a^brain	UGGCAGUGUCUUAGCUGGUUGUU
				hsa-miR-34c	AGGCAGUGUAGUUAGCUGAUUGC
				hsa-miR-449	UGGCAGUGUAUUGUUAGCUGGU
				hsa-miR-449b	AGGCAGUGUAUUGUUAGCUGGC
miR-381	1425	1431	1A	hsa-miR-381	UAUACAAGGGCAAGCUCUCUGU
miR-491	63	69	1A	hsa-miR-491^brain	AGUGGGGAACCCUUCCAUGAGGA
miR-496	1412	1418	1A	hsa-miR-496	AUUACAUGGCCAAUCUC
miR-499	799	805	1A	hsa-miR-499	UUAAGACUUGCAGUGAUGUUUAA
miR-503	1178	1184	1A	hsa-miR-503	UAGCAGCGGGAACAGUUCUGCAG

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: EFNB1