SZGR2

Summary ?

GeneID	9209
Symbol	LRRFIP2
Synonyms	HUFI-2
Description	leucine rich repeat (in FLII) interacting protein 2
Reference	MIM:614043\|HGNC:HGNC:6703\|Ensembl:ENSG00000093167\|HPRD:10061\|Vega:OTTHUMG00000130796
Gene type	protein-coding
Map location	3p22.2
Pascal p-value	0.002
Sherlock p-value	0.978
eGene	Myers' cis & trans Meta

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
GSMA_I	Genome scan meta-analysis	Psr: 0.006

Section I. Genetics and epigenetics annotation

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs17202548	chr3	36995986	LRRFIP2	9209	0.08	cis
rs4647269	chr3	37057590	LRRFIP2	9209	0.03	cis
rs3774339	chr3	37062853	LRRFIP2	9209	0.03	cis
rs3774326	chr3	37099565	LRRFIP2	9209	0.14	cis
rs11720064	chr3	37101518	LRRFIP2	9209	0.08	cis
rs1468712	chr3	37106012	LRRFIP2	9209	0.07	cis
rs7651033	chr3	37116041	LRRFIP2	9209	0.03	cis
rs2302504	chr3	37116385	LRRFIP2	9209	0.1	cis
rs17204801	chr3	37143433	LRRFIP2	9209	0.02	cis
rs6800554	chr3	37143878	LRRFIP2	9209	0.18	cis
rs9869432	chr3	37196600	LRRFIP2	9209	0.05	cis
rs1392749	chr3	37205190	LRRFIP2	9209	0.07	cis
rs11711937	chr3	37224837	LRRFIP2	9209	0.05	cis
rs6800842	chr3	37289603	LRRFIP2	9209	0.16	cis
rs4678564	chr3	37437303	LRRFIP2	9209	0.08	cis

Section II. Transcriptome annotation

General gene expression (GTEx)

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
GAK	0.91	0.91
AP3D1	0.89	0.89
ARFGAP1	0.89	0.88
LPHN1	0.89	0.92
KIAA0664	0.89	0.89
CABIN1	0.89	0.90
CES2	0.88	0.88
LRRC68	0.88	0.89
PPAN-P2RY11	0.88	0.90
DNAJC11	0.88	0.87

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
AF347015.21	-0.73	-0.69
AF347015.31	-0.71	-0.64
C1orf54	-0.68	-0.68
MT-CO2	-0.68	-0.62
AF347015.27	-0.66	-0.62
GNG11	-0.65	-0.63
AF347015.8	-0.64	-0.60
AF347015.33	-0.64	-0.57
MT-CYB	-0.64	-0.58
HIGD1B	-0.64	-0.58

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005515	protein binding	IPI		15677333
GO:0030275	LRR domain binding	NAS		10366446
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0016055	Wnt receptor signaling pathway	IEA		-
GO:0008150	biological_process	ND		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005575	cellular_component	ND		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
CHEMNITZ RESPONSE TO PROSTAGLANDIN E2 DN	391	222	All SZGR 2.0 genes in this pathway
DAVICIONI MOLECULAR ARMS VS ERMS UP	332	228	All SZGR 2.0 genes in this pathway
HOOI ST7 TARGETS DN	123	78	All SZGR 2.0 genes in this pathway
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA DN	663	425	All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP	1382	904	All SZGR 2.0 genes in this pathway
EBAUER TARGETS OF PAX3 FOXO1 FUSION DN	48	31	All SZGR 2.0 genes in this pathway
GEORGES TARGETS OF MIR192 AND MIR215	893	528	All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS	882	572	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 1	528	324	All SZGR 2.0 genes in this pathway
KYNG DNA DAMAGE BY 4NQO OR GAMMA RADIATION	15	13	All SZGR 2.0 genes in this pathway
KYNG DNA DAMAGE UP	226	164	All SZGR 2.0 genes in this pathway
ENGELMANN CANCER PROGENITORS DN	70	44	All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING	510	309	All SZGR 2.0 genes in this pathway
MOOTHA PGC	420	269	All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS UNANNOTATED UP	85	50	All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 6HR UP	229	149	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE	1137	655	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-101	86	92	m8	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-124/506	392	398	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
miR-124/506	392	398	m8	hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-15/16/195/424/497	730	736	m8	hsa-miR-15a^brain	UAGCAGCACAUAAUGGUUUGUG
				hsa-miR-16^brain	UAGCAGCACGUAAAUAUUGGCG
				hsa-miR-15b^brain	UAGCAGCACAUCAUGGUUUACA
				hsa-miR-195^SZ	UAGCAGCACAGAAAUAUUGGC
				hsa-miR-424	CAGCAGCAAUUCAUGUUUUGAA
				hsa-miR-497	CAGCAGCACACUGUGGUUUGU
miR-378*	644	650	m8	hsa-miR-422b	CUGGACUUGGAGUCAGAAGGCC
miR-378*	644	650	m8	hsa-miR-422a	CUGGACUUAGGGUCAGAAGGCC
miR-410	573	579	1A	hsa-miR-410	AAUAUAACACAGAUGGCCUGU
miR-494	512	519	1A,m8	hsa-miR-494^brain	UGAAACAUACACGGGAAACCUCUU

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: LRRFIP2