SZGR2

Summary ?

GeneID	90525
Symbol	SHF
Synonyms	-
Description	Src homology 2 domain containing F
Reference	HGNC:HGNC:25116\|Ensembl:ENSG00000138606\|HPRD:14272\|Vega:OTTHUMG00000131353
Gene type	protein-coding
Map location	15q21.1
Pascal p-value	0.882
Fetal beta	0.952
DMG	2 (# studies)
eGene	Cerebellum Myers' cis & trans

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
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
DMG:Wockner_2014	Genome-wide DNA methylation analysis	This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24).	2

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg01908020	15	45494784	SHF	3.802E-4	-0.255	0.043	DMG:Wockner_2014
cg20696985	15	45480429	SHF	2.98E-9	-0.014	2.08E-6	DMG:Jaffe_2016

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs6687849	chr1	175904808	SHF	90525	0.08	trans
rs2481653	chr1	176044120	SHF	90525	0.16	trans
rs2502827	chr1	176044216	SHF	90525	0.02	trans
rs17572651	chr1	218943612	SHF	90525	0	trans
rs6543365		0	SHF	90525	0.08	trans
rs16829545	chr2	151977407	SHF	90525	7.832E-21	trans
rs3845734	chr2	171125572	SHF	90525	0	trans
rs7584986	chr2	184111432	SHF	90525	4.175E-9	trans
rs6741060	chr2	217169088	SHF	90525	0.15	trans
rs3732634	chr3	58104876	SHF	90525	0.13	trans
rs2183142	chr4	159232695	SHF	90525	0.04	trans
rs170776	chr4	173276735	SHF	90525	0.11	trans
rs1396222	chr4	173279496	SHF	90525	0.07	trans
rs335993	chr4	173321789	SHF	90525	0.16	trans
rs335980	chr4	173329784	SHF	90525	0.06	trans
rs335982	chr4	173330945	SHF	90525	0.14	trans
rs337984	chr4	173411662	SHF	90525	0.17	trans
rs17762315	chr5	76807576	SHF	90525	2.006E-4	trans
rs17583830	chr6	107778357	SHF	90525	0.18	trans
rs7787830	chr7	98797019	SHF	90525	0.08	trans
rs11139334	chr9	84209393	SHF	90525	0.04	trans
rs11061703	chr12	1436977	SHF	90525	0.05	trans
rs16955618	chr15	29937543	SHF	90525	2.157E-32	trans
rs11873184	chr18	1584081	SHF	90525	0.05	trans
rs1041786	chr21	22617710	SHF	90525	0.01	trans
rs17404243	chr22	26970901	SHF	90525	0.18	trans
rs16986332	chrX	10958354	SHF	90525	0.06	trans

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.

No co-expressed genes in brain regions

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
PID PDGFRA PATHWAY	22	18	All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS UP	126	84	All SZGR 2.0 genes in this pathway
ACEVEDO METHYLATED IN LIVER CANCER DN	940	425	All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY	1725	838	All SZGR 2.0 genes in this pathway

Gene Page: SHF