SZGR2

Summary ?

GeneID	7039
Symbol	TGFA
Synonyms	TFGA
Description	transforming growth factor alpha
Reference	MIM:190170\|HGNC:HGNC:11765\|Ensembl:ENSG00000163235\|HPRD:07522\|Vega:OTTHUMG00000129669
Gene type	protein-coding
Map location	2p13
Pascal p-value	0.345
Fetal beta	-1.599
DMG	1 (# studies)

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Montano_2016	Genome-wide DNA methylation analysis	This dataset includes 172 replicated associations between CpGs with schizophrenia.	1
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.0833

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg26253134	2	70751721	TGFA	4.15E-5	-0.006	0.088	DMG:Montano_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
CRYBG3	0.88	0.88
SASH1	0.88	0.87
SHROOM4	0.87	0.85
SSFA2	0.87	0.86
DOCK1	0.86	0.82
KIAA0494	0.85	0.85
ARHGEF10	0.85	0.85
TJP2	0.85	0.78
MTMR10	0.85	0.76
KIF13B	0.85	0.78

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
RPL35	-0.54	-0.64
PFDN5	-0.53	-0.59
RPL31	-0.53	-0.64
RPL27	-0.53	-0.64
RPL36	-0.51	-0.62
FAM128A	-0.50	-0.51
TIMM8B	-0.50	-0.59
RPS21	-0.49	-0.63
ZNF32	-0.49	-0.52
RPS7	-0.49	-0.55

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0004871	signal transducer activity	TAS		2103501 \|10918572
GO:0001948	glycoprotein binding	IEA		-
GO:0004708	MAP kinase kinase activity	IDA		11278323
GO:0005155	epidermal growth factor receptor activating ligand activity	IDA		11278323
GO:0008083	growth factor activity	IDA		11278323
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0000187	activation of MAPK activity	IDA		11278323
GO:0001525	angiogenesis	IEA		-
GO:0008283	cell proliferation	TAS		10861448
GO:0045741	positive regulation of epidermal growth factor receptor activity	IDA		11278323
GO:0045840	positive regulation of mitosis	IDA		11278323
GO:0050679	positive regulation of epithelial cell proliferation	IDA		11278323
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005576	extracellular region	IEA		-
GO:0016021	integral to membrane	IEA		-
GO:0005886	plasma membrane	NAS		10918572

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG ERBB SIGNALING PATHWAY	87	71	All SZGR 2.0 genes in this pathway
KEGG PATHWAYS IN CANCER	328	259	All SZGR 2.0 genes in this pathway
KEGG RENAL CELL CARCINOMA	70	60	All SZGR 2.0 genes in this pathway
KEGG PANCREATIC CANCER	70	56	All SZGR 2.0 genes in this pathway
KEGG GLIOMA	65	56	All SZGR 2.0 genes in this pathway
KEGG PROSTATE CANCER	89	75	All SZGR 2.0 genes in this pathway
KEGG NON SMALL CELL LUNG CANCER	54	47	All SZGR 2.0 genes in this pathway
PID P53 DOWNSTREAM PATHWAY	137	94	All SZGR 2.0 genes in this pathway
PID FOXM1 PATHWAY	40	30	All SZGR 2.0 genes in this pathway
PID ERBB NETWORK PATHWAY	15	13	All SZGR 2.0 genes in this pathway
KOBAYASHI EGFR SIGNALING 6HR DN	18	13	All SZGR 2.0 genes in this pathway
TURASHVILI BREAST DUCTAL CARCINOMA VS DUCTAL NORMAL DN	198	110	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
HOOI ST7 TARGETS UP	94	57	All SZGR 2.0 genes in this pathway
CASORELLI APL SECONDARY VS DE NOVO UP	39	25	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
HORIUCHI WTAP TARGETS UP	306	188	All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 1 UP	380	236	All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 2 UP	418	263	All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN	781	465	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS UP	293	179	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS DN	508	354	All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER UP	443	294	All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST TUMORS 324 UP	150	93	All SZGR 2.0 genes in this pathway
DARWICHE SKIN TUMOR PROMOTER UP	142	96	All SZGR 2.0 genes in this pathway
DARWICHE PAPILLOMA RISK LOW UP	162	104	All SZGR 2.0 genes in this pathway
DARWICHE PAPILLOMA RISK HIGH UP	147	101	All SZGR 2.0 genes in this pathway
DARWICHE SQUAMOUS CELL CARCINOMA UP	146	104	All SZGR 2.0 genes in this pathway
BREUHAHN GROWTH FACTOR SIGNALING IN LIVER CANCER	22	19	All SZGR 2.0 genes in this pathway
AGARWAL AKT PATHWAY TARGETS	10	9	All SZGR 2.0 genes in this pathway
SEITZ NEOPLASTIC TRANSFORMATION BY 8P DELETION DN	30	25	All SZGR 2.0 genes in this pathway
BORLAK LIVER CANCER EGF UP	57	41	All SZGR 2.0 genes in this pathway
LI WILMS TUMOR VS FETAL KIDNEY 2 DN	51	42	All SZGR 2.0 genes in this pathway
HE PTEN TARGETS DN	7	6	All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS	1062	725	All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3	1118	744	All SZGR 2.0 genes in this pathway
AMIT EGF RESPONSE 120 HELA	69	47	All SZGR 2.0 genes in this pathway
AMIT EGF RESPONSE 240 MCF10A	20	13	All SZGR 2.0 genes in this pathway
AMIT SERUM RESPONSE 240 MCF10A	57	36	All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 DN	464	276	All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 1 DN	169	102	All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 3 DN	59	32	All SZGR 2.0 genes in this pathway
LE EGR2 TARGETS DN	108	84	All SZGR 2.0 genes in this pathway
ZUCCHI METASTASIS UP	43	24	All SZGR 2.0 genes in this pathway
MATSUDA NATURAL KILLER DIFFERENTIATION	475	313	All SZGR 2.0 genes in this pathway
STONER ESOPHAGEAL CARCINOGENESIS UP	39	25	All SZGR 2.0 genes in this pathway
LENAOUR DENDRITIC CELL MATURATION UP	114	84	All SZGR 2.0 genes in this pathway
THEILGAARD NEUTROPHIL AT SKIN WOUND DN	225	163	All SZGR 2.0 genes in this pathway
HARRIS HYPOXIA	81	64	All SZGR 2.0 genes in this pathway
LEONARD HYPOXIA	47	35	All SZGR 2.0 genes in this pathway
BILD HRAS ONCOGENIC SIGNATURE	261	166	All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR UP	430	288	All SZGR 2.0 genes in this pathway
ZHANG BREAST CANCER PROGENITORS UP	425	253	All SZGR 2.0 genes in this pathway
WINTER HYPOXIA METAGENE	242	168	All SZGR 2.0 genes in this pathway
FIRESTEIN PROLIFERATION	175	125	All SZGR 2.0 genes in this pathway
VART KSHV INFECTION ANGIOGENIC MARKERS DN	138	92	All SZGR 2.0 genes in this pathway
HELLEBREKERS SILENCED DURING TUMOR ANGIOGENESIS	80	56	All SZGR 2.0 genes in this pathway
MIZUKAMI HYPOXIA UP	12	12	All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS DN	366	257	All SZGR 2.0 genes in this pathway
KOBAYASHI EGFR SIGNALING 24HR DN	251	151	All SZGR 2.0 genes in this pathway
SUBTIL PROGESTIN TARGETS	36	25	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE	1137	655	All SZGR 2.0 genes in this pathway
AZARE NEOPLASTIC TRANSFORMATION BY STAT3 UP	121	70	All SZGR 2.0 genes in this pathway
DELPUECH FOXO3 TARGETS UP	68	49	All SZGR 2.0 genes in this pathway
TORCHIA TARGETS OF EWSR1 FLI1 FUSION UP	271	165	All SZGR 2.0 genes in this pathway
WINZEN DEGRADED VIA KHSRP	100	70	All SZGR 2.0 genes in this pathway
KOINUMA TARGETS OF SMAD2 OR SMAD3	824	528	All SZGR 2.0 genes in this pathway
WACKER HYPOXIA TARGETS OF VHL	13	11	All SZGR 2.0 genes in this pathway
PEDERSEN METASTASIS BY ERBB2 ISOFORM 7	403	240	All SZGR 2.0 genes in this pathway
PEDERSEN TARGETS OF 611CTF ISOFORM OF ERBB2	76	45	All SZGR 2.0 genes in this pathway
KRIEG HYPOXIA NOT VIA KDM3A	770	480	All SZGR 2.0 genes in this pathway
PHONG TNF RESPONSE VIA P38 PARTIAL	160	106	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
NABA SECRETED FACTORS	344	197	All SZGR 2.0 genes in this pathway
NABA MATRISOME ASSOCIATED	753	411	All SZGR 2.0 genes in this pathway
NABA MATRISOME	1028	559	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-148/152	3345	3352	1A,m8	hsa-miR-148a	UCAGUGCACUACAGAACUUUGU
				hsa-miR-152^brain	UCAGUGCAUGACAGAACUUGGG
				hsa-miR-148b	UCAGUGCAUCACAGAACUUUGU
miR-23	3420	3426	m8	hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
miR-23	3420	3426	m8	hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
miR-323	3419	3426	1A,m8	hsa-miR-323^brain	GCACAUUACACGGUCGACCUCU
miR-326	5	11	m8	hsa-miR-326	CCUCUGGGCCCUUCCUCCAG

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: TGFA