SZGR2

Summary ?

GeneID	81609
Symbol	SNX27
Synonyms	MRT1\|MY014
Description	sorting nexin family member 27
Reference	MIM:611541\|HGNC:HGNC:20073\|Ensembl:ENSG00000143376\|HPRD:11591\|Vega:OTTHUMG00000013052
Gene type	protein-coding
Map location	1q21.3
Sherlock p-value	0.1
Fetal beta	0.173
DMG	1 (# studies)
eGene	Caudate basal ganglia Cerebellum Cortex
Support	G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS CompositeSet

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
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).	1
GSMA_I	Genome scan meta-analysis	Psr: 0.0235
GSMA_IIA	Genome scan meta-analysis (All samples)	Psr: 0.00814

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg16269755	1	151586058	SNX27	2.885E-4	0.337	0.039	DMG:Wockner_2014

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 III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005515	protein binding	IEA		-
GO:0035091	phosphoinositide binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007165	signal transduction	IEA		-
GO:0015031	protein transport	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005737	cytoplasm	IEA		-
GO:0005769	early endosome	IEA		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
CHARAFE BREAST CANCER LUMINAL VS BASAL UP	380	215	All SZGR 2.0 genes in this pathway
PATIL LIVER CANCER	747	453	All SZGR 2.0 genes in this pathway
MOHANKUMAR TLX1 TARGETS UP	414	287	All SZGR 2.0 genes in this pathway
SHEPARD BMYB MORPHOLINO UP	205	126	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 18HR UP	178	111	All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS UP	566	371	All SZGR 2.0 genes in this pathway
POS RESPONSE TO HISTAMINE UP	13	10	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP	863	514	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
CHEN METABOLIC SYNDROM NETWORK	1210	725	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE	1137	655	All SZGR 2.0 genes in this pathway
TERAO AOX4 TARGETS HG UP	28	20	All SZGR 2.0 genes in this pathway
PEDERSEN METASTASIS BY ERBB2 ISOFORM 7	403	240	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-130/301	1166	1172	m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-141/200a	4070	4076	m8	hsa-miR-141	UAACACUGUCUGGUAAAGAUGG
miR-141/200a	4070	4076	m8	hsa-miR-200a	UAACACUGUCUGGUAACGAUGU
miR-145	1141	1148	1A,m8	hsa-miR-145	GUCCAGUUUUCCCAGGAAUCCCUU
miR-148/152	1167	1173	m8	hsa-miR-148a	UCAGUGCACUACAGAACUUUGU
				hsa-miR-152^brain	UCAGUGCAUGACAGAACUUGGG
				hsa-miR-148b	UCAGUGCAUCACAGAACUUUGU
miR-183	1483	1489	1A	hsa-miR-183	UAUGGCACUGGUAGAAUUCACUG
miR-186	5446	5452	m8	hsa-miR-186	CAAAGAAUUCUCCUUUUGGGCUU
miR-19	1165	1171	m8	hsa-miR-19a	UGUGCAAAUCUAUGCAAAACUGA
miR-19	1165	1171	m8	hsa-miR-19b	UGUGCAAAUCCAUGCAAAACUGA
miR-205	1403	1410	1A,m8	hsa-miR-205	UCCUUCAUUCCACCGGAGUCUG
miR-217	5290	5296	1A	hsa-miR-217	UACUGCAUCAGGAACUGAUUGGAU
miR-23	5325	5332	1A,m8	hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
miR-23	5325	5332	1A,m8	hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
miR-28	4706	4712	1A	hsa-miR-28^brain	AAGGAGCUCACAGUCUAUUGAG
miR-30-5p	1419	1425	1A	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-323	5325	5331	1A	hsa-miR-323^brain	GCACAUUACACGGUCGACCUCU
miR-376	1149	1155	1A	hsa-miR-376a	AUCAUAGAGGAAAAUCCACGU
miR-376	1149	1155	1A	hsa-miR-376b	AUCAUAGAGGAAAAUCCAUGUU
miR-409-5p	887	893	1A	hsa-miR-409-5p	AGGUUACCCGAGCAACUUUGCA
miR-410	1204	1210	1A	hsa-miR-410	AAUAUAACACAGAUGGCCUGU
miR-433-3p	1401	1407	1A	hsa-miR-433^brain	AUCAUGAUGGGCUCCUCGGUGU
miR-496	1195	1201	1A	hsa-miR-496	AUUACAUGGCCAAUCUC

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: SNX27