SZGR2

Summary ?

GeneID	9325
Symbol	TRIP4
Synonyms	ASC-1\|ASC1\|HsT17391\|ZC2HC5
Description	thyroid hormone receptor interactor 4
Reference	MIM:604501\|HGNC:HGNC:12310\|Ensembl:ENSG00000103671\|HPRD:05140\|Vega:OTTHUMG00000133033
Gene type	protein-coding
Map location	15q22.31
Pascal p-value	0.003
Fetal beta	1.05
DMG	1 (# studies)
eGene	Caudate basal ganglia Cerebellar Hemisphere Hypothalamus Nucleus accumbens basal ganglia Myers' cis & trans Meta

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Nishioka_2013	Genome-wide DNA methylation analysis	The authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls.	1

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg19329389	15	64680051	TRIP4		-0.028	0.41	DMG:Nishioka_2013

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs10497672		0	TRIP4	9325		0.08		trans
rs16894557	chr6	28999825	TRIP4	9325		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.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
NKAIN2	0.85	0.77
TAL2	0.84	0.77
DAAM1	0.83	0.89
L3MBTL3	0.83	0.89
STMN2	0.81	0.88
SLC44A5	0.81	0.90
NT5C3	0.81	0.88
NOL4	0.81	0.87
HMGCR	0.81	0.88
KLF6	0.80	0.88

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
HLA-F	-0.61	-0.78
TSC22D4	-0.60	-0.79
AIFM3	-0.58	-0.70
HEPN1	-0.57	-0.71
S100B	-0.57	-0.76
TREX1	-0.57	-0.76
CLU	-0.56	-0.66
PAQR6	-0.56	-0.82
MT-CO2	-0.56	-0.80
HSD17B14	-0.56	-0.72

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ASCC2	ASC1p100	activating signal cointegrator 1 complex subunit 2	-	HPRD	12077347
ASCC3	ASC1p200 \| DJ467N11.1 \| HELIC1 \| MGC26074 \| RNAH \| dJ121G13.4	activating signal cointegrator 1 complex subunit 3	-	HPRD	12077347
CREBBP	CBP \| KAT3A \| RSTS	CREB binding protein	-	HPRD,BioGRID	10454579
EP300	KAT3B \| p300	E1A binding protein p300	-	HPRD,BioGRID	10454579
ESR1	DKFZp686N23123 \| ER \| ESR \| ESRA \| Era \| NR3A1	estrogen receptor 1	-	HPRD,BioGRID	10454579
GTF2A1	MGC129969 \| MGC129970 \| TF2A1 \| TFIIA	general transcription factor IIA, 1, 19/37kDa	-	HPRD	10454579
JUN	AP-1 \| AP1 \| c-Jun	jun oncogene	-	HPRD	12077347
NCOA1	F-SRC-1 \| KAT13A \| MGC129719 \| MGC129720 \| NCoA-1 \| RIP160 \| SRC-1 \| SRC1 \| bHLHe42	nuclear receptor coactivator 1	-	HPRD,BioGRID	10454579
NFKB1	DKFZp686C01211 \| EBP-1 \| KBF1 \| MGC54151 \| NF-kappa-B \| NFKB-p105 \| NFKB-p50 \| p105	nuclear factor of kappa light polypeptide gene enhancer in B-cells 1	-	HPRD	12077347
RARA	NR1B1 \| RAR	retinoic acid receptor, alpha	-	HPRD,BioGRID	10454579
RELA	MGC131774 \| NFKB3 \| p65	v-rel reticuloendotheliosis viral oncogene homolog A (avian)	-	HPRD	12077347
RXRA	FLJ00280 \| FLJ00318 \| FLJ16020 \| FLJ16733 \| MGC102720 \| NR2B1	retinoid X receptor, alpha	-	HPRD	7776974
SHD	-	Src homology 2 domain containing transforming protein D	Reconstituted Complex	BioGRID	10454579
SRC	ASV \| SRC1 \| c-SRC \| p60-Src	v-src sarcoma (Schmidt-Ruppin A-2) viral oncogene homolog (avian)	Affinity Capture-Western	BioGRID	10454579
TBP	GTF2D \| GTF2D1 \| MGC117320 \| MGC126054 \| MGC126055 \| SCA17 \| TFIID	TATA box binding protein	-	HPRD	10454579
THRB	ERBA-BETA \| ERBA2 \| GRTH \| MGC126109 \| MGC126110 \| NR1A2 \| PRTH \| THR1 \| THRB1 \| THRB2	thyroid hormone receptor, beta (erythroblastic leukemia viral (v-erb-a) oncogene homolog 2, avian)	-	HPRD,BioGRID	7776974 \|10454579

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP	552	347	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN	1781	1082	All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN DN	770	415	All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN DN	584	395	All SZGR 2.0 genes in this pathway
BENPORATH NANOG TARGETS	988	594	All SZGR 2.0 genes in this pathway
BENPORATH OCT4 TARGETS	290	172	All SZGR 2.0 genes in this pathway
SHEN SMARCA2 TARGETS UP	424	268	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
MARTINEZ RESPONSE TO TRABECTEDIN DN	271	175	All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 3	720	440	All SZGR 2.0 genes in this pathway
MARSON BOUND BY E2F4 UNSTIMULATED	728	415	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP	973	570	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
MILI PSEUDOPODIA HAPTOTAXIS UP	518	299	All SZGR 2.0 genes in this pathway
NOUSHMEHR GBM SILENCED BY METHYLATION	50	32	All SZGR 2.0 genes in this pathway
MARTENS BOUND BY PML RARA FUSION	456	287	All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS UP	504	321	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE	1137	655	All SZGR 2.0 genes in this pathway

Gene Page: TRIP4