SZGR2

Summary ?

GeneID	6125
Symbol	RPL5
Synonyms	DBA6\|L5\|MSTP030\|PPP1R135
Description	ribosomal protein L5
Reference	MIM:603634\|HGNC:HGNC:10360\|Ensembl:ENSG00000122406\|HPRD:04699\|Vega:OTTHUMG00000010899
Gene type	protein-coding
Map location	1p22.1
Pascal p-value	0.061
Sherlock p-value	0.179
Fetal beta	0.999
Support	G2Cdb.humanPSD G2Cdb.humanPSP CompositeSet

Gene in Data Sources

Gene set name	Method of gene set	Description
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
CV:PGCnp	Genome-wide Association Study	GWAS
DNM:Fromer_2014	Whole Exome Sequencing analysis	This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.0064

Section I. Genetics and epigenetics annotation

DNM table

Gene	Chromosome	Position	Ref	Alt	Transcript	AA change	Mutation type	Sift	CG46	Trait	Study
RPL5	chr1	93307363	C	T	NM_000969 NM_001252273	p.279R>W .	missense intronic			Schizophrenia	DNM:Fromer_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.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
RPS25P8	0.96	0.96
RPL38	0.96	0.94
RPL37A	0.96	0.95
RPS24	0.95	0.94
RPS8	0.95	0.95
RPL23	0.94	0.94
RPS27A	0.94	0.90
RPL26	0.94	0.91
RPL30	0.94	0.94
RPS23	0.94	0.93

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
ATP10A	-0.61	-0.79
BCL2L2	-0.59	-0.82
SYNM	-0.57	-0.79
MAP3K5	-0.57	-0.75
PTPRB	-0.57	-0.74
ACSL6	-0.57	-0.76
EPB41L2	-0.57	-0.76
LDHD	-0.56	-0.71
VWA5B2	-0.56	-0.78
PK4P	-0.56	-0.70

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0003735	structural constituent of ribosome	IEA		-
GO:0003735	structural constituent of ribosome	TAS		7772601
GO:0005515	protein binding	IEA		-
GO:0005515	protein binding	IPI		9465063 \|12054647
GO:0008097	5S rRNA binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006414	translational elongation	EXP		15189156
GO:0006412	translation	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005829	cytosol	EXP		14567916
GO:0005840	ribosome	IEA		-
GO:0005622	intracellular	IEA		-
GO:0005634	nucleus	IEA		-
GO:0005737	cytoplasm	IEA		-
GO:0022625	cytosolic large ribosomal subunit	TAS		7772601

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
CSNK2A1	CK2A1 \| CKII	casein kinase 2, alpha 1 polypeptide	-	HPRD,BioGRID	10491318
CSNK2B	CK2B \| CK2N \| CSK2B \| G5A \| MGC138222 \| MGC138224	casein kinase 2, beta polypeptide	-	HPRD	8806611 \|9042965 \|9738462 \|10491318
CSNK2B	CK2B \| CK2N \| CSK2B \| G5A \| MGC138222 \| MGC138224	casein kinase 2, beta polypeptide	Two-hybrid	BioGRID	8806611 \|9042965 \|11710515 \|14667819
EIF5A	A \| EIF-5A \| EIF5A1 \| MGC104255 \| MGC99547 \| uORF	eukaryotic translation initiation factor 5A	-	HPRD,BioGRID	9465063
HARS	FLJ20491 \| HRS	histidyl-tRNA synthetase	-	HPRD,BioGRID	8049265
IPO13	IMP13 \| KAP13 \| KIAA0724 \| RANBP13	importin 13	Reconstituted Complex	BioGRID	11447110
IPO5	DKFZp686O1576 \| FLJ43041 \| IMB3 \| KPNB3 \| MGC2068 \| RANBP5	importin 5	-	HPRD,BioGRID	9687515
IPO7	FLJ14581 \| Imp7 \| MGC138673 \| RANBP7	importin 7	-	HPRD,BioGRID	9687515
MDM2	HDMX \| MGC71221 \| hdm2	Mdm2 p53 binding protein homolog (mouse)	-	HPRD,BioGRID	7935455 \|14612427
PDCD4	H731 \| MGC33046 \| MGC33047	programmed cell death 4 (neoplastic transformation inhibitor)	-	HPRD,BioGRID	12054647
RPL5	MGC117339 \| MSTP030	ribosomal protein L5	Protein-RNA Two-hybrid	BioGRID	10491318 \|15231747
TNPO1	IPO2 \| KPNB2 \| MIP \| MIP1 \| TRN	transportin 1	-	HPRD,BioGRID	9687515

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG RIBOSOME	88	43	All SZGR 2.0 genes in this pathway
PID P53 REGULATION PATHWAY	59	50	All SZGR 2.0 genes in this pathway
REACTOME TRANSLATION	222	75	All SZGR 2.0 genes in this pathway
REACTOME SRP DEPENDENT COTRANSLATIONAL PROTEIN TARGETING TO MEMBRANE	179	53	All SZGR 2.0 genes in this pathway
REACTOME PEPTIDE CHAIN ELONGATION	153	41	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF PROTEINS	518	242	All SZGR 2.0 genes in this pathway
REACTOME 3 UTR MEDIATED TRANSLATIONAL REGULATION	176	51	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF MRNA	284	128	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF RNA	330	155	All SZGR 2.0 genes in this pathway
REACTOME INFLUENZA LIFE CYCLE	203	72	All SZGR 2.0 genes in this pathway
REACTOME INFLUENZA VIRAL RNA TRANSCRIPTION AND REPLICATION	169	47	All SZGR 2.0 genes in this pathway
REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX	176	57	All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA DN	526	357	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 6HR UP	55	34	All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 24HR DN	214	133	All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL BREAST 4 5WK UP	271	175	All SZGR 2.0 genes in this pathway
KIM MYC AMPLIFICATION TARGETS UP	201	127	All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK	1652	1023	All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK	1442	892	All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA HIF1A UP	77	49	All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS DN	1024	594	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
BENPORATH MYC MAX TARGETS	775	494	All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION DN	517	309	All SZGR 2.0 genes in this pathway
LU IL4 SIGNALING	94	56	All SZGR 2.0 genes in this pathway
JIANG AGING CEREBRAL CORTEX UP	36	27	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
MODY HIPPOCAMPUS PRENATAL	42	33	All SZGR 2.0 genes in this pathway
KYNG RESPONSE TO H2O2	71	42	All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR UP	953	554	All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR DN	1011	592	All SZGR 2.0 genes in this pathway
ZHENG FOXP3 TARGETS IN THYMUS UP	196	137	All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN	546	362	All SZGR 2.0 genes in this pathway
FLOTHO PEDIATRIC ALL THERAPY RESPONSE UP	53	33	All SZGR 2.0 genes in this pathway
IRITANI MAD1 TARGETS DN	47	30	All SZGR 2.0 genes in this pathway
JISON SICKLE CELL DISEASE DN	181	97	All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA CLASSES UP	605	377	All SZGR 2.0 genes in this pathway
DANG MYC TARGETS UP	143	100	All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC	1103	714	All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE DN	841	431	All SZGR 2.0 genes in this pathway
GREGORY SYNTHETIC LETHAL WITH IMATINIB	145	83	All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 2 UP	140	94	All SZGR 2.0 genes in this pathway
BILANGES SERUM AND RAPAMYCIN SENSITIVE GENES	68	35	All SZGR 2.0 genes in this pathway
KIM TIAL1 TARGETS	32	22	All SZGR 2.0 genes in this pathway
PEDERSEN METASTASIS BY ERBB2 ISOFORM 7	403	240	All SZGR 2.0 genes in this pathway
BOSCO ALLERGEN INDUCED TH2 ASSOCIATED MODULE	151	86	All SZGR 2.0 genes in this pathway
HOLLEMAN ASPARAGINASE RESISTANCE B ALL UP	26	15	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-376	13	19	m8	hsa-miR-376a	AUCAUAGAGGAAAAUCCACGU
miR-376	13	19	m8	hsa-miR-376b	AUCAUAGAGGAAAAUCCAUGUU

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: RPL5