SZGR2

Summary ?

GeneID	23126
Symbol	POGZ
Synonyms	MRD37\|WHSUS\|ZNF280E\|ZNF635\|ZNF635m
Description	pogo transposable element with ZNF domain
Reference	MIM:614787\|HGNC:HGNC:18801\|Ensembl:ENSG00000143442\|HPRD:11445\|Vega:OTTHUMG00000012499
Gene type	protein-coding
Map location	1q21.3
Sherlock p-value	0.775
TADA p-value	0.004
Fetal beta	2.346
DMG	1 (# studies)
eGene	Cerebellar Hemisphere Cerebellum
Support	CompositeSet

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.	1
DNM:Fromer_2014	Whole Exome Sequencing analysis	This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
DNM:Gulsuner_2013	Whole Exome Sequencing analysis	155 DNMs identified by exome sequencing of quads or trios of schizophrenia individuals and their parents.
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

DNM table

Gene	Chromosome	Position	Ref	Alt	Transcript	AA change	Mutation type	Sift	CG46	Trait	Study
POGZ	chr1	151377574..151377575	CA	C	NM_001194937 NM_001194938 NM_015100 NM_145796 NM_207171	. . . . .	frameshift frameshift frameshift frameshift frameshift			Schizophrenia	DNM:Fromer_2014
POGZ	chr1	151377883	T	C	NM_001194937 NM_001194938 NM_015100 NM_145796 NM_207171	p.1201T>A p.1148T>A p.1210T>A p.1115T>A p.1157T>A	missense missense missense missense missense			Schizophrenia	DNM:Gulsuner_2013

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg10700717	1	151430878	POGZ	4.59E-8	-0.023	1.25E-5	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
RAPGEF3	0.79	0.78
FAM38A	0.77	0.75
MICALL2	0.76	0.77
SLC27A1	0.75	0.76
ACACB	0.74	0.69
FBXW4	0.73	0.68
DNHD1	0.73	0.75
KIAA1755	0.72	0.66
TJAP1	0.72	0.74
PEAR1	0.72	0.68

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
PSMA6	-0.59	-0.68
SUB1	-0.58	-0.59
RWDD1	-0.58	-0.62
VPS29	-0.57	-0.59
COX16	-0.57	-0.64
MRPL1	-0.57	-0.61
NFU1	-0.56	-0.60
PSMC6	-0.55	-0.55
MRPL47	-0.55	-0.58
MRPS23	-0.55	-0.60

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0003677	DNA binding	IEA		-
GO:0005515	protein binding	IPI		10976766
GO:0008270	zinc ion binding	IEA		-
GO:0046872	metal ion binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007275	multicellular organismal development	IEA		-
GO:0045449	regulation of transcription	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005622	intracellular	IEA		-
GO:0005634	nucleus	IEA		-
GO:0005737	cytoplasm	IDA		18029348

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
WANG CLIM2 TARGETS UP	269	146	All SZGR 2.0 genes in this pathway
JAATINEN HEMATOPOIETIC STEM CELL UP	316	190	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED DN	805	505	All SZGR 2.0 genes in this pathway
LOCKWOOD AMPLIFIED IN LUNG CANCER	214	139	All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS POORLY UP	236	139	All SZGR 2.0 genes in this pathway
LEE LIVER CANCER MYC DN	63	40	All SZGR 2.0 genes in this pathway
PENG GLUCOSE DEPRIVATION DN	169	112	All SZGR 2.0 genes in this pathway
REN ALVEOLAR RHABDOMYOSARCOMA UP	98	64	All SZGR 2.0 genes in this pathway
GENTILE UV RESPONSE CLUSTER D4	55	37	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV SCC DN	123	86	All SZGR 2.0 genes in this pathway
GENTILE UV HIGH DOSE DN	312	203	All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV NHEK DN	318	220	All SZGR 2.0 genes in this pathway
LIN MELANOMA COPY NUMBER UP	73	53	All SZGR 2.0 genes in this pathway
ACEVEDO METHYLATED IN LIVER CANCER DN	940	425	All SZGR 2.0 genes in this pathway
BOYAULT LIVER CANCER SUBCLASS G1 UP	113	70	All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN	1972	1213	All SZGR 2.0 genes in this pathway
KOINUMA TARGETS OF SMAD2 OR SMAD3	824	528	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
let-7/98	367	373	1A	hsa-let-7a^brain	UGAGGUAGUAGGUUGUAUAGUU
				hsa-let-7b^brain	UGAGGUAGUAGGUUGUGUGGUU
				hsa-let-7c^brain	UGAGGUAGUAGGUUGUAUGGUU
				hsa-let-7d^brain	AGAGGUAGUAGGUUGCAUAGU
				hsa-let-7e^brain	UGAGGUAGGAGGUUGUAUAGU
				hsa-let-7f^brain	UGAGGUAGUAGAUUGUAUAGUU
				hsa-miR-98^brain	UGAGGUAGUAAGUUGUAUUGUU
				hsa-let-7g^SZ	UGAGGUAGUAGUUUGUACAGU
				hsa-let-7i^brain	UGAGGUAGUAGUUUGUGCUGU
miR-101	1275	1282	1A,m8	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-144	1276	1282	1A	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-208	548	554	1A	hsa-miR-208	AUAAGACGAGCAAAAAGCUUGU
miR-221/222	492	498	m8	hsa-miR-221^brain	AGCUACAUUGUCUGCUGGGUUUC
miR-221/222	492	498	m8	hsa-miR-222^brain	AGCUACAUCUGGCUACUGGGUCUC
miR-24	198	205	1A,m8	hsa-miR-24^SZ	UGGCUCAGUUCAGCAGGAACAG
miR-320	1720	1726	m8	hsa-miR-320	AAAAGCUGGGUUGAGAGGGCGAA
miR-34/449	1186	1193	1A,m8	hsa-miR-34a^brain	UGGCAGUGUCUUAGCUGGUUGUU
				hsa-miR-34c	AGGCAGUGUAGUUAGCUGAUUGC
				hsa-miR-449	UGGCAGUGUAUUGUUAGCUGGU
				hsa-miR-449b	AGGCAGUGUAUUGUUAGCUGGC
miR-410	560	566	1A	hsa-miR-410	AAUAUAACACAGAUGGCCUGU
miR-499	548	554	1A	hsa-miR-499	UUAAGACUUGCAGUGAUGUUUAA

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: POGZ