SZGR2

Summary ?

GeneID	7804
Symbol	LRP8
Synonyms	APOER2\|HSZ75190\|LRP-8\|MCI1
Description	LDL receptor related protein 8
Reference	MIM:602600\|HGNC:HGNC:6700\|Ensembl:ENSG00000157193\|HPRD:04002\|Vega:OTTHUMG00000008924
Gene type	protein-coding
Map location	1p34
Pascal p-value	0.003
Sherlock p-value	0.141
Fetal beta	1.255
DMG	1 (# studies)
eGene	Cerebellar Hemisphere Meta
Support	CompositeSet Darnell FMRP targets Potential synaptic genes

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
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
PMID:cooccur	High-throughput literature-search	Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
Literature	High-throughput literature-search	Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias	Click to show details
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 3.9483

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg24107728	1	53760337	LRP8	5.321E-4	0.589	0.048	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:0004888	transmembrane receptor activity	TAS		8626535
GO:0030229	very-low-density lipoprotein receptor activity	IDA		8626535
GO:0030227	apolipoprotein E receptor activity	IDA		8626535
GO:0030227	apolipoprotein E receptor activity	TAS		11152697
GO:0005509	calcium ion binding	IEA		-
GO:0008034	lipoprotein binding	IC		11152697
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006508	proteolysis	NAS		11152697
GO:0007165	signal transduction	TAS		10380922
GO:0006629	lipid metabolic process	NAS		11152697
GO:0006897	endocytosis	IDA		8626535
GO:0019221	cytokine-mediated signaling pathway	NAS		11152697
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005576	extracellular region	IEA		-
GO:0016021	integral to membrane	IC		11152697
GO:0005901	caveola	IDA		11369809
GO:0005886	plasma membrane	NAS		10380922

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
ANAPC10	APC10 \| DKFZp564L0562 \| DOC1	anaphase promoting complex subunit 10	Two-hybrid	BioGRID	10827173
APBA2	D15S1518E \| HsT16821 \| LIN-10 \| MGC99508 \| MGC:14091 \| MINT2 \| X11L	amyloid beta (A4) precursor protein-binding, family A, member 2	Two-hybrid	BioGRID	10827173
APOE	AD2 \| LPG \| MGC1571 \| apoprotein	apolipoprotein E	-	HPRD,BioGRID	12167620 \|12950167
APOH	B2G1 \| BG	apolipoprotein H (beta-2-glycoprotein I)	-	HPRD,BioGRID	12807892
CLU	AAG4 \| APOJ \| CLI \| KUB1 \| MGC24903 \| SGP-2 \| SGP2 \| SP-40 \| TRPM-2 \| TRPM2	clusterin	-	HPRD	12824284
DAB1	-	disabled homolog 1 (Drosophila)	-	HPRD	10380922
DAB1	-	disabled homolog 1 (Drosophila)	Two-hybrid	BioGRID	10827173
DLG4	FLJ97752 \| FLJ98574 \| PSD95 \| SAP90	discs, large homolog 4 (Drosophila)	Two-hybrid	BioGRID	10827173
GIPC1	C19orf3 \| GIPC \| GLUT1CBP \| Hs.6454 \| IIP-1 \| MGC15889 \| MGC3774 \| NIP \| RGS19IP1 \| SEMCAP \| SYNECTIIN \| SYNECTIN \| TIP-2	GIPC PDZ domain containing family, member 1	Two-hybrid	BioGRID	10827173
ITGB1BP1	DKFZp686K08158 \| ICAP-1A \| ICAP-1B \| ICAP-1alpha \| ICAP1 \| ICAP1A \| ICAP1B	integrin beta 1 binding protein 1	Two-hybrid	BioGRID	10827173
LRPAP1	A2MRAP \| A2RAP \| HBP44 \| MGC138272 \| MRAP \| RAP	low density lipoprotein receptor-related protein associated protein 1	-	HPRD,BioGRID	12899622
MAPK8IP1	IB1 \| JIP-1 \| JIP1 \| PRKM8IP	mitogen-activated protein kinase 8 interacting protein 1	Two-hybrid	BioGRID	10827173
MAPK8IP2	IB2 \| JIP2 \| PRKM8IPL	mitogen-activated protein kinase 8 interacting protein 2	Two-hybrid	BioGRID	10827173
NOS1AP	6330408P19Rik \| CAPON \| MGC138500	nitric oxide synthase 1 (neuronal) adaptor protein	Two-hybrid	BioGRID	10827173
RELN	PRO1598 \| RL	reelin	-	HPRD,BioGRID	10571240 \|12167620 \|12670700 \|12899622
SCN3A	KIAA1356 \| NAC3 \| Nav1.3	sodium channel, voltage-gated, type III, alpha subunit	Two-hybrid	BioGRID	10827173
SNX17	KIAA0064	sorting nexin 17	-	HPRD,BioGRID	12169628
SYNJ2BP	ARIP2 \| FLJ11271 \| FLJ41973 \| OMP25	synaptojanin 2 binding protein	Two-hybrid	BioGRID	10827173

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
PID REELIN PATHWAY	29	29	All SZGR 2.0 genes in this pathway
PID LIS1 PATHWAY	28	22	All SZGR 2.0 genes in this pathway
REACTOME PLATELET HOMEOSTASIS	78	49	All SZGR 2.0 genes in this pathway
REACTOME PLATELET SENSITIZATION BY LDL	16	9	All SZGR 2.0 genes in this pathway
REACTOME HEMOSTASIS	466	331	All SZGR 2.0 genes in this pathway
NAKAMURA TUMOR ZONE PERIPHERAL VS CENTRAL UP	285	181	All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA UP	783	507	All SZGR 2.0 genes in this pathway
FOURNIER ACINAR DEVELOPMENT EARLY DN	6	5	All SZGR 2.0 genes in this pathway
ZHONG RESPONSE TO AZACITIDINE AND TSA DN	70	38	All SZGR 2.0 genes in this pathway
FULCHER INFLAMMATORY RESPONSE LECTIN VS LPS UP	579	346	All SZGR 2.0 genes in this pathway
HORIUCHI WTAP TARGETS DN	310	188	All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER EARLY UP	430	232	All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS RED UP	17	13	All SZGR 2.0 genes in this pathway
UDAYAKUMAR MED1 TARGETS UP	135	82	All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION UP	1278	748	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS 12HR DN	209	122	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED DN	805	505	All SZGR 2.0 genes in this pathway
ROSTY CERVICAL CANCER PROLIFERATION CLUSTER	140	73	All SZGR 2.0 genes in this pathway
MOHANKUMAR TLX1 TARGETS UP	414	287	All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS DN	1024	594	All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS DN	637	377	All SZGR 2.0 genes in this pathway
WEI MYCN TARGETS WITH E BOX	795	478	All SZGR 2.0 genes in this pathway
BENPORATH ES 1	379	235	All SZGR 2.0 genes in this pathway
BENPORATH PROLIFERATION	147	80	All SZGR 2.0 genes in this pathway
AMIT EGF RESPONSE 240 HELA	60	43	All SZGR 2.0 genes in this pathway
GEORGES TARGETS OF MIR192 AND MIR215	893	528	All SZGR 2.0 genes in this pathway
LEE TARGETS OF PTCH1 AND SUFU DN	83	69	All SZGR 2.0 genes in this pathway
SWEET KRAS TARGETS DN	66	39	All SZGR 2.0 genes in this pathway
ASTON MAJOR DEPRESSIVE DISORDER DN	160	110	All SZGR 2.0 genes in this pathway
POMEROY MEDULLOBLASTOMA DESMOPLASIC VS CLASSIC UP	62	38	All SZGR 2.0 genes in this pathway
MANALO HYPOXIA DN	289	166	All SZGR 2.0 genes in this pathway
SCHUHMACHER MYC TARGETS UP	80	57	All SZGR 2.0 genes in this pathway
URS ADIPOCYTE DIFFERENTIATION UP	74	51	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	All SZGR 2.0 genes in this pathway
HARRIS HYPOXIA	81	64	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 8HR DN	47	31	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 24HR UP	148	96	All SZGR 2.0 genes in this pathway
BILD HRAS ONCOGENIC SIGNATURE	261	166	All SZGR 2.0 genes in this pathway
DOUGLAS BMI1 TARGETS UP	566	371	All SZGR 2.0 genes in this pathway
DURCHDEWALD SKIN CARCINOGENESIS DN	264	168	All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS REQUIRE MYC	210	123	All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS DN	292	189	All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION DN	281	179	All SZGR 2.0 genes in this pathway
YOKOE CANCER TESTIS ANTIGENS	38	22	All SZGR 2.0 genes in this pathway
IWANAGA CARCINOGENESIS BY KRAS PTEN DN	353	226	All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 3D DN	270	181	All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR UP	430	288	All SZGR 2.0 genes in this pathway
SMID BREAST CANCER LUMINAL A DN	18	7	All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL UP	648	398	All SZGR 2.0 genes in this pathway
IZADPANAH STEM CELL ADIPOSE VS BONE UP	126	92	All SZGR 2.0 genes in this pathway
MATZUK SPERMATOZOA	114	77	All SZGR 2.0 genes in this pathway
GRADE COLON AND RECTAL CANCER UP	285	167	All SZGR 2.0 genes in this pathway
POOLA INVASIVE BREAST CANCER UP	288	168	All SZGR 2.0 genes in this pathway
YAGI AML WITH INV 16 TRANSLOCATION	422	277	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 30MIN DN	150	99	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 4HR DN	254	158	All SZGR 2.0 genes in this pathway
KARLSSON TGFB1 TARGETS UP	127	78	All SZGR 2.0 genes in this pathway
WANG RESPONSE TO GSK3 INHIBITOR SB216763 DN	374	217	All SZGR 2.0 genes in this pathway
LU EZH2 TARGETS DN	414	237	All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 6HR UP	229	149	All SZGR 2.0 genes in this pathway
PANGAS TUMOR SUPPRESSION BY SMAD1 AND SMAD5 DN	157	106	All SZGR 2.0 genes in this pathway
PASINI SUZ12 TARGETS DN	315	215	All SZGR 2.0 genes in this pathway
PLASARI TGFB1 TARGETS 10HR UP	199	143	All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS UP	279	155	All SZGR 2.0 genes in this pathway
GHANDHI DIRECT IRRADIATION UP	110	68	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	238	245	1A,m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-148/152	1154	1160	1A	hsa-miR-148a	UCAGUGCACUACAGAACUUUGU
				hsa-miR-152^brain	UCAGUGCAUGACAGAACUUGGG
				hsa-miR-148b	UCAGUGCAUCACAGAACUUUGU
miR-330	423	429	m8	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA

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: LRP8