SZGR2

Summary ?

GeneID	8829
Symbol	NRP1
Synonyms	BDCA4\|CD304\|NP1\|NRP\|VEGF165R
Description	neuropilin 1
Reference	MIM:602069\|HGNC:HGNC:8004\|Ensembl:ENSG00000099250\|HPRD:03642\|Vega:OTTHUMG00000019343
Gene type	protein-coding
Map location	10p12
Pascal p-value	0.008
Fetal beta	1.234
DMG	1 (# studies)
Support	Ascano FMRP targets

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Jaffe_2016	Genome-wide DNA methylation analysis	This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05.	2
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 6

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg26075074	10	33623509	NRP1	1.94E-9	-0.008	1.62E-6	DMG:Jaffe_2016
cg20074042	10	33625992	NRP1	9.08E-9	-0.013	4.12E-6	DMG:Jaffe_2016

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
ZCCHC12	0.75	0.73
SLC26A11	0.73	0.77
CPNE2	0.73	0.74
NSUN7	0.73	0.66
GDPD2	0.71	0.62
DCLK2	0.71	0.73
TPST1	0.70	0.71
CCNA1	0.70	0.71
CTNNB1	0.70	0.66
ANUBL1	0.70	0.66

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
MT-CO2	-0.46	-0.52
AF347015.21	-0.45	-0.52
AF347015.27	-0.44	-0.50
AF347015.31	-0.44	-0.49
AF347015.8	-0.43	-0.49
AF347015.33	-0.42	-0.46
AF347015.2	-0.42	-0.50
MT-CYB	-0.42	-0.46
AF347015.15	-0.40	-0.46
MT-ATP8	-0.39	-0.48

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005021	vascular endothelial growth factor receptor activity	TAS		9288753
GO:0004872	receptor activity	IEA		-
GO:0042802	identical protein binding	IEA		-
GO:0017154	semaphorin receptor activity	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007413	axonal fasciculation	IEA	neuron, axon (GO term level: 13)	-
GO:0007411	axon guidance	IEA	axon (GO term level: 13)	-
GO:0007411	axon guidance	TAS	axon (GO term level: 13)	9288753
GO:0030517	negative regulation of axon extension	IEA	axon (GO term level: 15)	-
GO:0016358	dendrite development	IEA	neurite, dendrite (GO term level: 11)	-
GO:0007399	nervous system development	IEA	neurite (GO term level: 5)	-
GO:0001569	patterning of blood vessels	IEA		-
GO:0007155	cell adhesion	IEA		-
GO:0007267	cell-cell signaling	TAS		9288753
GO:0009887	organ morphogenesis	TAS		9529250
GO:0007165	signal transduction	TAS		9288753
GO:0008284	positive regulation of cell proliferation	TAS		9529250
GO:0007507	heart development	IEA		-
GO:0048010	vascular endothelial growth factor receptor signaling pathway	IEA		-
GO:0007275	multicellular organismal development	IEA		-
GO:0030154	cell differentiation	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005576	extracellular region	IEA		-
GO:0016020	membrane	IEA		-
GO:0016021	integral to membrane	IEA		-
GO:0005886	plasma membrane	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
FGF1	AFGF \| ECGF \| ECGF-beta \| ECGFA \| ECGFB \| FGF-alpha \| FGFA \| GLIO703 \| HBGF1	fibroblast growth factor 1 (acidic)	NRP1 (Npn-1) interacts with FGF1. This interaction was modeled on a demonstrated interaction between rat NRP1 and human FGF1.	BIND	15695515
FGF2	BFGF \| FGFB \| HBGF-2	fibroblast growth factor 2 (basic)	NRP1 (Npn-1) interacts with FGF2. This interaction was modeled on a demonstrated interaction between rat NRP1 and human FGF2.	BIND	15695515
FGF4	HBGF-4 \| HST \| HST-1 \| HSTF1 \| K-FGF \| KFGF	fibroblast growth factor 4	NRP1 (Npn-1) interacts with FGF4. This interaction was modeled on a demonstrated interaction between rat NRP1 and human FGF4.	BIND	15695515
FGF7	HBGF-7 \| KGF	fibroblast growth factor 7 (keratinocyte growth factor)	NRP1 (Npn-1) interacts with FGF7. This interaction was modeled on a demonstrated interaction between rat NRP1 and human FGF7.	BIND	15695515
HGF	F-TCF \| HGFB \| HPTA \| SF	hepatocyte growth factor (hepapoietin A; scatter factor)	NRP1 (Npn-1) interacts with HGF. This interaction was modeled on a demonstrated interaction between rat NRP1 and human HGF.	BIND	15695515
PGF	D12S1900 \| PGFL \| PLGF \| PlGF-2 \| SHGC-10760	placental growth factor	NRP1 interacts with PlGF-2. This interaction was modeled on a demonstrated interaction between human NRP1 and mouse PlGF-2.	BIND	11986311
PGF	D12S1900 \| PGFL \| PLGF \| PlGF-2 \| SHGC-10760	placental growth factor	-	HPRD,BioGRID	11986311
PLXNA1	NOV \| NOVP \| PLEXIN-A1 \| PLXN1	plexin A1	-	HPRD	10520994
PLXND1	KIAA0620 \| MGC75353 \| PLEXD1	plexin D1	PlexinD1 interacts with Npn-1. This interaction was modeled on a demonstrated interaction between human PlexinD1 and Npn-1 from an unspecified species.	BIND	15239958
SEMA3A	Hsema-I \| Hsema-III \| MGC133243 \| SEMA1 \| SEMAD \| SEMAIII \| SEMAL \| SemD \| coll-1	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A	-	HPRD,BioGRID	9331348 \|10520994
SEMA3A	Hsema-I \| Hsema-III \| MGC133243 \| SEMA1 \| SEMAD \| SEMAIII \| SEMAL \| SemD \| coll-1	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A	Sema3A interacts with Npn-1. This interaction was modeled on a demonstrated interaction between human Sema3A and rat Npn-1.	BIND	15550623
SEMA3B	FLJ34863 \| LUCA-1 \| SEMA5 \| SEMAA \| SemA \| semaV	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B	-	HPRD	10196546
SEMA3F	SEMA-IV \| SEMA4 \| SEMAK	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F	-	HPRD	9883722
VEGFA	MGC70609 \| VEGF \| VEGF-A \| VPF	vascular endothelial growth factor A	Affinity Capture-Western Reconstituted Complex	BioGRID	9529250 \|11986311
VEGFA	MGC70609 \| VEGF \| VEGF-A \| VPF	vascular endothelial growth factor A	NRP1 interacts with VEGF165.	BIND	11986311
VEGFA	MGC70609 \| VEGF \| VEGF-A \| VPF	vascular endothelial growth factor A	-	HPRD	9529250 \|10409677 \|11986311
VEGFA	MGC70609 \| VEGF \| VEGF-A \| VPF	vascular endothelial growth factor A	VEGF165 interacts with neuropilin-1. This interaction was modeled on a demonstrated interaction between human VEGF165 and neuropilin-1 from an unspecified species.	BIND	14600159
VEGFB	VEGFL \| VRF	vascular endothelial growth factor B	-	HPRD,BioGRID	10409677

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 VEGF VEGFR PATHWAY	10	6	All SZGR 2.0 genes in this pathway
PID VEGFR1 PATHWAY	26	23	All SZGR 2.0 genes in this pathway
REACTOME DEVELOPMENTAL BIOLOGY	396	292	All SZGR 2.0 genes in this pathway
REACTOME VEGF LIGAND RECEPTOR INTERACTIONS	10	6	All SZGR 2.0 genes in this pathway
REACTOME AXON GUIDANCE	251	188	All SZGR 2.0 genes in this pathway
REACTOME CRMPS IN SEMA3A SIGNALING	14	14	All SZGR 2.0 genes in this pathway
REACTOME SEMA3A PAK DEPENDENT AXON REPULSION	15	14	All SZGR 2.0 genes in this pathway
REACTOME SEMAPHORIN INTERACTIONS	68	53	All SZGR 2.0 genes in this pathway
REACTOME SEMA3A PLEXIN REPULSION SIGNALING BY INHIBITING INTEGRIN ADHESION	13	9	All SZGR 2.0 genes in this pathway
REACTOME L1CAM INTERACTIONS	86	62	All SZGR 2.0 genes in this pathway
REACTOME SIGNAL TRANSDUCTION BY L1	34	25	All SZGR 2.0 genes in this pathway
SCHUETZ BREAST CANCER DUCTAL INVASIVE UP	351	230	All SZGR 2.0 genes in this pathway
FULCHER INFLAMMATORY RESPONSE LECTIN VS LPS UP	579	346	All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS BASAL DN	455	304	All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL DN	460	312	All SZGR 2.0 genes in this pathway
ROY WOUND BLOOD VESSEL UP	50	30	All SZGR 2.0 genes in this pathway
RODRIGUES DCC TARGETS DN	121	84	All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 8D DN	205	127	All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 10D DN	142	90	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS DN	459	276	All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN	781	465	All SZGR 2.0 genes in this pathway
LANDIS BREAST CANCER PROGRESSION DN	70	43	All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION CDC25 UP	120	73	All SZGR 2.0 genes in this pathway
CHEBOTAEV GR TARGETS UP	77	62	All SZGR 2.0 genes in this pathway
BERENJENO ROCK SIGNALING NOT VIA RHOA DN	48	34	All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST TUMORS 65 DN	37	22	All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS A UP	191	128	All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST TUMORS 324 DN	149	93	All SZGR 2.0 genes in this pathway
WANG ESOPHAGUS CANCER VS NORMAL DN	101	66	All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS FETAL LIVER DN	514	319	All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP	1037	673	All SZGR 2.0 genes in this pathway
LIAO HAVE SOX4 BINDING SITES	40	26	All SZGR 2.0 genes in this pathway
LIAO METASTASIS	539	324	All SZGR 2.0 genes in this pathway
GUENTHER GROWTH SPHERICAL VS ADHERENT DN	26	19	All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS	1038	678	All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 UP	256	159	All SZGR 2.0 genes in this pathway
ROSS AML WITH CBFB MYH11 FUSION	52	32	All SZGR 2.0 genes in this pathway
JECHLINGER EPITHELIAL TO MESENCHYMAL TRANSITION DN	66	47	All SZGR 2.0 genes in this pathway
GUO HEX TARGETS UP	81	54	All SZGR 2.0 genes in this pathway
ABBUD LIF SIGNALING 2 UP	14	13	All SZGR 2.0 genes in this pathway
WANG TARGETS OF MLL CBP FUSION DN	45	31	All SZGR 2.0 genes in this pathway
GERY CEBP TARGETS	126	90	All SZGR 2.0 genes in this pathway
KANG IMMORTALIZED BY TERT DN	102	67	All SZGR 2.0 genes in this pathway
PETROVA PROX1 TARGETS DN	64	38	All SZGR 2.0 genes in this pathway
REN ALVEOLAR RHABDOMYOSARCOMA DN	408	274	All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS LATE PROGENITOR	544	307	All SZGR 2.0 genes in this pathway
HU GENOTOXIN ACTION DIRECT VS INDIRECT 4HR	37	22	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 16HR DN	86	62	All SZGR 2.0 genes in this pathway
RAMALHO STEMNESS DN	74	55	All SZGR 2.0 genes in this pathway
CHEN LVAD SUPPORT OF FAILING HEART DN	42	32	All SZGR 2.0 genes in this pathway
MCCLUNG CREB1 TARGETS DN	57	39	All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 DN	830	547	All SZGR 2.0 genes in this pathway
MODY HIPPOCAMPUS NEONATAL	35	25	All SZGR 2.0 genes in this pathway
WANG CISPLATIN RESPONSE AND XPC DN	228	146	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
TSENG ADIPOGENIC POTENTIAL DN	46	28	All SZGR 2.0 genes in this pathway
MCDOWELL ACUTE LUNG INJURY DN	48	33	All SZGR 2.0 genes in this pathway
BILD MYC ONCOGENIC SIGNATURE	206	117	All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR UP	953	554	All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR UP	783	442	All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE UP	393	244	All SZGR 2.0 genes in this pathway
GAVIN FOXP3 TARGETS CLUSTER T4	94	69	All SZGR 2.0 genes in this pathway
GAVIN FOXP3 TARGETS CLUSTER P4	100	62	All SZGR 2.0 genes in this pathway
ZHENG BOUND BY FOXP3	491	310	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 STIMULATED	1022	619	All SZGR 2.0 genes in this pathway
ZHENG FOXP3 TARGETS UP	26	16	All SZGR 2.0 genes in this pathway
KONDO EZH2 TARGETS	245	148	All SZGR 2.0 genes in this pathway
DE YY1 TARGETS DN	92	64	All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR DN	191	123	All SZGR 2.0 genes in this pathway
LE SKI TARGETS UP	17	12	All SZGR 2.0 genes in this pathway
LABBE WNT3A TARGETS UP	112	71	All SZGR 2.0 genes in this pathway
LABBE TARGETS OF TGFB1 AND WNT3A UP	111	70	All SZGR 2.0 genes in this pathway
VART KSHV INFECTION ANGIOGENIC MARKERS UP	165	118	All SZGR 2.0 genes in this pathway
MOOTHA PGC	420	269	All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA C D DN	252	155	All SZGR 2.0 genes in this pathway
GOLDRATH ANTIGEN RESPONSE	346	192	All SZGR 2.0 genes in this pathway
ICHIBA GRAFT VERSUS HOST DISEASE D7 DN	40	22	All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO CSF2RB AND IL4 UP	338	225	All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF UP	418	282	All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF VS CSF2RB AND IL4 UP	408	276	All SZGR 2.0 genes in this pathway
HAN SATB1 TARGETS UP	395	249	All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN	457	302	All SZGR 2.0 genes in this pathway
VALK AML CLUSTER 9	35	26	All SZGR 2.0 genes in this pathway
COULOUARN TEMPORAL TGFB1 SIGNATURE UP	109	68	All SZGR 2.0 genes in this pathway
ZEMBUTSU SENSITIVITY TO CYCLOPHOSPHAMIDE	18	12	All SZGR 2.0 genes in this pathway
VERHAAK GLIOBLASTOMA MESENCHYMAL	216	130	All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS GROWING	243	155	All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS CONFLUENT	567	365	All SZGR 2.0 genes in this pathway
BHAT ESR1 TARGETS NOT VIA AKT1 DN	88	61	All SZGR 2.0 genes in this pathway
BHAT ESR1 TARGETS VIA AKT1 DN	82	51	All SZGR 2.0 genes in this pathway
MIYAGAWA TARGETS OF EWSR1 ETS FUSIONS DN	229	135	All SZGR 2.0 genes in this pathway
BAKKER FOXO3 TARGETS DN	187	109	All SZGR 2.0 genes in this pathway
DELACROIX RARG BOUND MEF	367	231	All SZGR 2.0 genes in this pathway
DELACROIX RAR TARGETS DN	24	16	All SZGR 2.0 genes in this pathway
PEDRIOLI MIR31 TARGETS DN	418	245	All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP	489	314	All SZGR 2.0 genes in this pathway
ZWANG CLASS 1 TRANSIENTLY INDUCED BY EGF	516	308	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-1/206	2537	2544	1A,m8	hsa-miR-1	UGGAAUGUAAAGAAGUAUGUA
				hsa-miR-206^SZ	UGGAAUGUAAGGAAGUGUGUGG
				hsa-miR-613	AGGAAUGUUCCUUCUUUGCC
miR-124.1	2441	2447	1A	hsa-miR-124a	UUAAGGCACGCGGUGAAUGCCA
miR-124/506	748	754	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	748	754	m8	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-130/301	2134	2140	m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-137	571	578	1A,m8	hsa-miR-137	UAUUGCUUAAGAAUACGCGUAG
miR-141/200a	2192	2199	1A,m8	hsa-miR-141	UAACACUGUCUGGUAAAGAUGG
miR-141/200a	2192	2199	1A,m8	hsa-miR-200a	UAACACUGUCUGGUAACGAUGU
miR-142-5p	1166	1172	m8	hsa-miR-142-5p	CAUAAAGUAGAAAGCACUAC
miR-148/152	2135	2142	1A,m8	hsa-miR-148a	UCAGUGCACUACAGAACUUUGU
				hsa-miR-152^brain	UCAGUGCAUGACAGAACUUGGG
				hsa-miR-148b	UCAGUGCAUCACAGAACUUUGU
miR-186	2267	2273	1A	hsa-miR-186	CAAAGAAUUCUCCUUUUGGGCUU
miR-194	2195	2201	1A	hsa-miR-194	UGUAACAGCAACUCCAUGUGGA
miR-214	1136	1142	m8	hsa-miR-214^brain	ACAGCAGGCACAGACAGGCAG
miR-30-5p	563	569	m8	hsa-miR-30a-5p	UGUAAACAUCCUCGACUGGAAG
				hsa-miR-30c^brain	UGUAAACAUCCUACACUCUCAGC
				hsa-miR-30d^SZ	UGUAAACAUCCCCGACUGGAAG
				hsa-miR-30b^SZ	UGUAAACAUCCUACACUCAGCU
				hsa-miR-30e-5p	UGUAAACAUCCUUGACUGGA
miR-320	1127	1134	1A,m8	hsa-miR-320	AAAAGCUGGGUUGAGAGGGCGAA
miR-324-3p	2190	2196	m8	hsa-miR-324-3p	CCACUGCCCCAGGUGCUGCUGG
miR-326	1991	1998	1A,m8	hsa-miR-326	CCUCUGGGCCCUUCCUCCAG
miR-338	353	359	m8	hsa-miR-338^brain	UCCAGCAUCAGUGAUUUUGUUGA
miR-361	2139	2145	1A	hsa-miR-361^brain	UUAUCAGAAUCUCCAGGGGUAC
miR-376	2391	2397	m8	hsa-miR-376a	AUCAUAGAGGAAAAUCCACGU
miR-376	2391	2397	m8	hsa-miR-376b	AUCAUAGAGGAAAAUCCAUGUU
miR-381	978	984	1A	hsa-miR-381	UAUACAAGGGCAAGCUCUCUGU
miR-494	2420	2426	1A	hsa-miR-494^brain	UGAAACAUACACGGGAAACCUCUU
miR-539	122	128	1A	hsa-miR-539	GGAGAAAUUAUCCUUGGUGUGU
miR-9	2542	2548	1A	hsa-miR-9^SZ	UCUUUGGUUAUCUAGCUGUAUGA

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: NRP1