SZGR2

Summary ?

GeneID	753
Symbol	LDLRAD4
Synonyms	C18orf1
Description	low density lipoprotein receptor class A domain containing 4
Reference	MIM:606571\|HGNC:HGNC:1224\|Ensembl:ENSG00000168675\|HPRD:07358\|Vega:OTTHUMG00000181925
Gene type	protein-coding
Map location	18p11.21
Pascal p-value	0.263
eGene	Cerebellum

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DNM:Gulsuner_2013	Whole Exome Sequencing analysis	155 DNMs identified by exome sequencing of quads or trios of schizophrenia individuals and their parents.

Section I. Genetics and epigenetics annotation

DNM table

Gene	Chromosome	Position	Ref	Alt	Transcript	AA change	Mutation type	Sift	CG46	Trait	Study
LDLRAD4	chr18	13438266	G	A	NM_181482	p.22G>S	missense			Schizophrenia	DNM:Gulsuner_2013

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
DNAJB9	0.78	0.85
SCOC	0.75	0.85
IMPA1	0.75	0.82
IFT57	0.75	0.74
ARL1	0.72	0.83
NDUFAF4	0.70	0.78
COX11	0.70	0.79
MCF2	0.70	0.71
RAB4A	0.70	0.71
STXBP6	0.69	0.61

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
SMTN	-0.39	-0.45
ZNF814	-0.35	-0.48
AC010618.2	-0.34	-0.39
AC069281.3	-0.34	-0.47
WDR86	-0.34	-0.30
RP11-274B21.1	-0.34	-0.42
CRIPAK	-0.33	-0.36
LIME1	-0.33	-0.35
AL008718.1	-0.33	-0.31
CLCF1	-0.33	-0.42

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0003674	molecular_function	ND		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0008150	biological_process	ND		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0016021	integral to membrane	NAS		9479497
GO:0005886	plasma membrane	IEA		-

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	579	586	1A,m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-153	1052	1058	1A	hsa-miR-153	UUGCAUAGUCACAAAAGUGA
miR-218	7064	7070	1A	hsa-miR-218^brain	UUGUGCUUGAUCUAACCAUGU
miR-25/32/92/363/367	6969	6975	1A	hsa-miR-25^brain	CAUUGCACUUGUCUCGGUCUGA
				hsa-miR-32	UAUUGCACAUUACUAAGUUGC
				hsa-miR-92	UAUUGCACUUGUCCCGGCCUG
				hsa-miR-367	AAUUGCACUUUAGCAAUGGUGA
				hsa-miR-92b^SZ	UAUUGCACUCGUCCCGGCCUC
				hsa-miR-25^brain	CAUUGCACUUGUCUCGGUCUGA
				hsa-miR-32	UAUUGCACAUUACUAAGUUGC
				hsa-miR-92	UAUUGCACUUGUCCCGGCCUG
				hsa-miR-367	AAUUGCACUUUAGCAAUGGUGA
				hsa-miR-92b^SZ	UAUUGCACUCGUCCCGGCCUC
miR-369-3p	402	408	1A	hsa-miR-369-3p	AAUAAUACAUGGUUGAUCUUU
miR-374	402	408	m8	hsa-miR-374	UUAUAAUACAACCUGAUAAGUG
miR-410	404	410	1A	hsa-miR-410	AAUAUAACACAGAUGGCCUGU
miR-448	1052	1058	1A	hsa-miR-448	UUGCAUAUGUAGGAUGUCCCAU
miR-96	505	511	m8	hsa-miR-96^brain	UUUGGCACUAGCACAUUUUUGC

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: LDLRAD4