SZGR2

Summary ?

GeneID	4734
Symbol	NEDD4
Synonyms	NEDD4-1\|RPF1
Description	neural precursor cell expressed, developmentally down-regulated 4, E3 ubiquitin protein ligase
Reference	MIM:602278\|HGNC:HGNC:7727\|Ensembl:ENSG00000069869\|HPRD:03786\|Vega:OTTHUMG00000132015
Gene type	protein-coding
Map location	15q
Pascal p-value	0.031
Fetal beta	0.738
Support	G2Cdb.humanPSD G2Cdb.humanPSP CompositeSet Darnell FMRP targets

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: 0.0132

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
BOC	0.73	0.53
PDLIM1	0.67	0.40
DCT	0.67	0.00
DPF3	0.66	0.38
COL2A1	0.66	0.49
HUNK	0.65	0.78
CDON	0.64	0.75
DUSP4	0.64	0.83
TNFRSF19	0.64	0.67
BHLHE22	0.63	0.85

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
C5orf53	-0.41	-0.60
AIFM3	-0.41	-0.65
PTH1R	-0.40	-0.59
HLA-F	-0.40	-0.62
AF347015.27	-0.39	-0.72
MT-CO2	-0.39	-0.74
AF347015.31	-0.39	-0.71
AF347015.33	-0.38	-0.71
IFI27	-0.38	-0.72
LDHD	-0.38	-0.51

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005515	protein binding	IPI		17719543
GO:0004842	ubiquitin-protein ligase activity	IEA		-
GO:0016874	ligase activity	IEA		-
GO:0016881	acid-amino acid ligase activity	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006464	protein modification process	IEA		-
GO:0006511	ubiquitin-dependent protein catabolic process	IEA		-
GO:0044419	interspecies interaction between organisms	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0000151	ubiquitin ligase complex	IEA		-
GO:0005829	cytosol	IEA		-
GO:0005622	intracellular	IEA		-
GO:0005737	cytoplasm	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ANXA13	ANX13 \| ISA \| MGC150460	annexin A13	-	HPRD,BioGRID	10871286
CBLB	DKFZp686J10223 \| DKFZp779A0729 \| DKFZp779F1443 \| FLJ36865 \| FLJ41152 \| Nbla00127 \| RNF56	Cas-Br-M (murine) ecotropic retroviral transforming sequence b	-	HPRD,BioGRID	12907674
CDC25C	CDC25	cell division cycle 25 homolog C (S. pombe)	-	HPRD,BioGRID	10037602
DAZAP2	KIAA0058 \| MGC14319 \| MGC766 \| PRTB	DAZ associated protein 2	-	HPRD	11342538
EPS15	AF-1P \| AF1P \| MLLT5	epidermal growth factor receptor pathway substrate 15	-	HPRD,BioGRID	11919637
GRB10	GRB-IR \| Grb-10 \| IRBP \| KIAA0207 \| MEG1 \| RSS	growth factor receptor-bound protein 10	-	HPRD	12697834
GRB10	GRB-IR \| Grb-10 \| IRBP \| KIAA0207 \| MEG1 \| RSS	growth factor receptor-bound protein 10	-	HPRD	10446181 \|12697834\|12697834
HGS	HRS \| ZFYVE8	hepatocyte growth factor-regulated tyrosine kinase substrate	-	HPRD,BioGRID	12230472
IGF1R	CD221 \| IGFIR \| JTK13 \| MGC142170 \| MGC142172 \| MGC18216	insulin-like growth factor 1 receptor	-	HPRD,BioGRID	12697834
LITAF	FLJ38636 \| MGC116698 \| MGC116700 \| MGC116701 \| MGC125274 \| MGC125275 \| MGC125276 \| PIG7 \| SIMPLE \| TP53I7	lipopolysaccharide-induced TNF factor	-	HPRD	11042109
N4BP2	B3BP \| FLJ10680 \| KIAA1413	NEDD4 binding protein 2	-	HPRD	11717310
N4BP3	KIAA0341	Nedd4 binding protein 3	-	HPRD,BioGRID	11717310
NDFIP1	MGC10924 \| N4WBP5	Nedd4 family interacting protein 1	-	HPRD	11042109\|11748237
NDFIP2	FLJ25842 \| KIAA1165 \| N4wbp5a	Nedd4 family interacting protein 2	-	HPRD	12050153 \|12796489 \|15252135\|12796489
NDFIP2	FLJ25842 \| KIAA1165 \| N4wbp5a	Nedd4 family interacting protein 2	-	HPRD,BioGRID	12050153 \|12796489 \|15252135
NFE2	NF-E2 \| p45	nuclear factor (erythroid-derived 2), 45kDa	p45 interacts with NEDD4. This interaction was modeled on a demonstrated interaction between human p45 and mouse NEDD4.	BIND	9305852
PMEPA1	STAG1 \| TMEPAI	prostate transmembrane protein, androgen induced 1	-	HPRD,BioGRID	11042109 \|12907594
PRRG2	PRGP2	proline rich Gla (G-carboxyglutamic acid) 2	-	HPRD	11042109
SCNN1A	ENaCa \| ENaCalpha \| FLJ21883 \| SCNEA \| SCNN1	sodium channel, nonvoltage-gated 1 alpha	-	HPRD,BioGRID	10642508
SCNN1A	ENaCa \| ENaCalpha \| FLJ21883 \| SCNEA \| SCNN1	sodium channel, nonvoltage-gated 1 alpha	-	HPRD	10212229 \|10642508 \|11359767\|10642508
SCNN1B	ENaCb \| ENaCbeta \| SCNEB	sodium channel, nonvoltage-gated 1, beta	-	HPRD	10212229 \|10642508 \|11359767\|10642508
SCNN1B	ENaCb \| ENaCbeta \| SCNEB	sodium channel, nonvoltage-gated 1, beta	-	HPRD,BioGRID	10642508
SCNN1G	ENaCg \| ENaCgamma \| PHA1 \| SCNEG	sodium channel, nonvoltage-gated 1, gamma	-	HPRD,BioGRID	10642508
SCNN1G	ENaCg \| ENaCgamma \| PHA1 \| SCNEG	sodium channel, nonvoltage-gated 1, gamma	-	HPRD	10212229 \|10642508 \|11359767\|10642508
SGK1	SGK	serum/glucocorticoid regulated kinase 1	-	HPRD,BioGRID	11696533
SH3KBP1	CIN85 \| GIG10 \| MIG18	SH3-domain kinase binding protein 1	-	HPRD,BioGRID	12218189
TP73	P73	tumor protein p73	p73-alpha interacts with an unspecified isoform of Nedd4.	BIND	15678106
UBE2D2	E2(17)KB2 \| PUBC1 \| UBC4 \| UBC4/5 \| UBCH5B	ubiquitin-conjugating enzyme E2D 2 (UBC4/5 homolog, yeast)	-	HPRD,BioGRID	9182527
UBE2D3	E2(17)KB3 \| MGC43926 \| MGC5416 \| UBC4/5 \| UBCH5C	ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast)	-	HPRD,BioGRID	9990509
UBE2E1	UBCH6	ubiquitin-conjugating enzyme E2E 1 (UBC4/5 homolog, yeast)	-	HPRD,BioGRID	9990509
UBE2L3	E2-F1 \| L-UBC \| UBCH7 \| UbcM4	ubiquitin-conjugating enzyme E2L 3	-	HPRD,BioGRID	9990509
WBP1	MGC15305 \| WBP-1	WW domain binding protein 1	-	HPRD	11042109
WBP2	MGC18269 \| WBP-2	WW domain binding protein 2	-	HPRD	11042109

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG UBIQUITIN MEDIATED PROTEOLYSIS	138	98	All SZGR 2.0 genes in this pathway
KEGG ENDOCYTOSIS	183	132	All SZGR 2.0 genes in this pathway
PID ERBB4 PATHWAY	38	32	All SZGR 2.0 genes in this pathway
PID PS1 PATHWAY	46	39	All SZGR 2.0 genes in this pathway
PID VEGFR1 2 PATHWAY	69	57	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY ERBB4	90	67	All SZGR 2.0 genes in this pathway
REACTOME ANTIVIRAL MECHANISM BY IFN STIMULATED GENES	66	45	All SZGR 2.0 genes in this pathway
REACTOME INTERFERON SIGNALING	159	116	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 CYTOKINE SIGNALING IN IMMUNE SYSTEM	270	204	All SZGR 2.0 genes in this pathway
REACTOME CLASS I MHC MEDIATED ANTIGEN PROCESSING PRESENTATION	251	156	All SZGR 2.0 genes in this pathway
REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION	212	129	All SZGR 2.0 genes in this pathway
HUTTMANN B CLL POOR SURVIVAL UP	276	187	All SZGR 2.0 genes in this pathway
DEURIG T CELL PROLYMPHOCYTIC LEUKEMIA UP	368	234	All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 2 DN	281	186	All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION UP	1278	748	All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA DN	1375	806	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED UP	633	376	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN	1781	1082	All SZGR 2.0 genes in this pathway
RASHI RESPONSE TO IONIZING RADIATION 5	147	89	All SZGR 2.0 genes in this pathway
FARMER BREAST CANCER APOCRINE VS BASAL	330	217	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN	855	609	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 COMMON DN	483	336	All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA ELK3 UP	209	139	All SZGR 2.0 genes in this pathway
WEI MYCN TARGETS WITH E BOX	795	478	All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS MODERATELY DN	110	64	All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN	514	330	All SZGR 2.0 genes in this pathway
PARK HSC VS MULTIPOTENT PROGENITORS UP	19	14	All SZGR 2.0 genes in this pathway
SASAKI ADULT T CELL LEUKEMIA	176	122	All SZGR 2.0 genes in this pathway
HESS TARGETS OF HOXA9 AND MEIS1 UP	65	44	All SZGR 2.0 genes in this pathway
VERHAAK AML WITH NPM1 MUTATED DN	246	180	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
GAVIN FOXP3 TARGETS CLUSTER P6	91	44	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
TOYOTA TARGETS OF MIR34B AND MIR34C	463	262	All SZGR 2.0 genes in this pathway
VANASSE BCL2 TARGETS DN	74	50	All SZGR 2.0 genes in this pathway
HOFFMANN LARGE TO SMALL PRE BII LYMPHOCYTE UP	163	102	All SZGR 2.0 genes in this pathway
HOFFMANN SMALL PRE BII TO IMMATURE B LYMPHOCYTE UP	70	49	All SZGR 2.0 genes in this pathway
HOFFMANN IMMATURE TO MATURE B LYMPHOCYTE DN	50	36	All SZGR 2.0 genes in this pathway
HAN SATB1 TARGETS DN	442	275	All SZGR 2.0 genes in this pathway
BOYAULT LIVER CANCER SUBCLASS G56 UP	12	9	All SZGR 2.0 genes in this pathway
KYNG WERNER SYNDROM AND NORMAL AGING DN	225	124	All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA CD2 DN	46	29	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE	1137	655	All SZGR 2.0 genes in this pathway
BILANGES SERUM SENSITIVE VIA TSC2	39	25	All SZGR 2.0 genes in this pathway
KOINUMA TARGETS OF SMAD2 OR SMAD3	824	528	All SZGR 2.0 genes in this pathway
IKEDA MIR30 TARGETS UP	116	87	All SZGR 2.0 genes in this pathway
YANG BCL3 TARGETS UP	364	236	All SZGR 2.0 genes in this pathway
KRIEG HYPOXIA NOT VIA KDM3A	770	480	All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS DN	784	464	All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM A	182	108	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-128	381	387	1A	hsa-miR-128a	UCACAGUGAACCGGUCUCUUUU
miR-128	381	387	1A	hsa-miR-128b	UCACAGUGAACCGGUCUCUUUC
miR-144	1112	1118	m8	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-27	381	388	1A,m8	hsa-miR-27a^brain	UUCACAGUGGCUAAGUUCCGC
miR-27	381	388	1A,m8	hsa-miR-27b^brain	UUCACAGUGGCUAAGUUCUGC
miR-30-5p	942	949	1A,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
				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-376	1122	1128	1A	hsa-miR-376a	AUCAUAGAGGAAAAUCCACGU
miR-376	1122	1128	1A	hsa-miR-376b	AUCAUAGAGGAAAAUCCAUGUU
miR-9	1048	1055	1A,m8	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: NEDD4