Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

Home

Search

Download

 Statistics

Help

About Us

Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

Gene Summary

Phenotypic Information (metabolism pathway, cancer, disease, phenome)

Mutations: SVs, CNVs, SNVs

Gene expression: GE, Protein, DEGE, CNV vs GE

Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG

Pharmacological Information: Drug-Gene Network

Cross referenced IDs

Gene Summary for RPS8
Basic gene info.Gene symbolRPS8
Gene nameribosomal protein S8
SynonymsS8
CytomapUCSC genome browser: 1p34.1-p32
Genomic locationchr1 :45241245-45244412
Type of geneprotein-coding
RefGenesNM_001012.1,
Ensembl idENSG00000142937
Description40S ribosomal protein S8OK/SW-cl.83
Modification date20141207
dbXrefs MIM : 600357
HGNC : HGNC
Ensembl : ENSG00000142937
HPRD : 15969
Vega : OTTHUMG00000008494
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_RPS8
BioGPS: 6202
Gene Expression Atlas: ENSG00000142937
The Human Protein Atlas: ENSG00000142937
PathwayNCI Pathway Interaction Database: RPS8
KEGG: RPS8
REACTOME: RPS8
ConsensusPathDB
Pathway Commons: RPS8
MetabolismMetaCyc: RPS8
HUMANCyc: RPS8
RegulationEnsembl's Regulation: ENSG00000142937
miRBase: chr1 :45,241,245-45,244,412
TargetScan: NM_001012
cisRED: ENSG00000142937
ContextiHOP: RPS8
cancer metabolism search in PubMed: RPS8
UCL Cancer Institute: RPS8
Assigned class in ccmGDBC

Top
Phenotypic Information for RPS8(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: RPS8
Familial Cancer Database: RPS8
* This gene is included in those cancer gene databases.

.

Oncogene 1

Tumor Suppressor gene 2

Cancer Gene Census 3

CancerGenes 4

Network of Cancer Gene 5

Significant driver gene in

Therapeutic Vulnerabilities in Cancer1

cf) number; DB name
1 Oncogene; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long,
2 Tumor Suppressor gene; https://bioinfo.uth.edu/TSGene/,
3 Cancer Gene Census; http://www.nature.com/nrc/journal/v4/n3/abs/nrc1299.html,
4 CancerGenes; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long,
5 Network of Cancer Gene; http://ncg.kcl.ac.uk/index.php,
1Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/

check002.gifMetabolic Pathway Description
REACTOME_METABOLISM_OF_PROTEINS
REACTOME_METABOLISM_OF_MRNA
REACTOME_METABOLISM_OF_RNA

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: RPS8
MedGen: RPS8 (Human Medical Genetics with Condition)
ClinVar: RPS8
PhenotypeMGI: RPS8 (International Mouse Phenotyping Consortium)
PhenomicDB: RPS8

Mutations for RPS8
* Under tables are showing count per each tissue to give us broad intuition about tissue specific mutation patterns.You can go to the detailed page for each mutation database's web site.

check002.gifStructural Variants in COSMIC: go to COSMIC mutation histogram
There's no structural variation information in COSMIC data for this gene.

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows RPS8 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
DA657610RPS816314524406545244127AKT264574194074395540761110
BG565964RPS817014524153645241605USP4764729111197004111977607
AK129640GOLGA2119169131023519131029481RPS81913213814524373845244409
BM682967RPS81722514524377445244427MAP3K722670669124605491252594
BF920614LRRC4C17166114108098841081143RPS816228314524341745243748
AW948714RPS81010314524178245242410NISCH9938235252652952526812
BQ082553DDA11323191743159817431920RPS832044614524258345242709

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

Top
check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
There's no copy number variation information in COSMIC data for this gene.

Top
check002.gifSNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation

 : Non-synonymous mutation, : Synonymous mutation, Circle size denotes number of samples.
Maximum mutation count=2

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=12)
Stat. for Synonymous SNVs
(# total SNVs=7)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=0)
There's no inserted snv.

Top
check002.gifTop 10 SNVs Having the Most Samples in COSMIC data
* When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site,primary_histology,mutation(aa),pubmedID.
GRCh37 positionMutation(aa)Unique sampleID count
chr1:45244310-45244310p.E194Q2
chr1:45243328-45243328p.A85G1
chr1:45243749-45243749p.N155N1
chr1:45241776-45241776p.R25R1
chr1:45243365-45243365p.V97V1
chr1:45243758-45243758p.I158I1
chr1:45241793-45241793p.R31L1
chr1:45243431-45243431p.L119L1
chr1:45243760-45243760p.S159N1
chr1:45242351-45242352p.R41fs*121

Top
check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=1

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample1  1  1     22  12 3
# mutation1  1  1     32  12 3
nonsynonymous SNV            2   1  2
synonymous SNV1  1  1     12   2 1
cf) Tissue ID; Tissue type (1; BLCA[Bladder Urothelial Carcinoma], 2; BRCA[Breast invasive carcinoma], 3; CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], 4; COAD[Colon adenocarcinoma], 5; GBM[Glioblastoma multiforme], 6; Glioma Low Grade, 7; HNSC[Head and Neck squamous cell carcinoma], 8; KICH[Kidney Chromophobe], 9; KIRC[Kidney renal clear cell carcinoma], 10; KIRP[Kidney renal papillary cell carcinoma], 11; LAML[Acute Myeloid Leukemia], 12; LUAD[Lung adenocarcinoma], 13; LUSC[Lung squamous cell carcinoma], 14; OV[Ovarian serous cystadenocarcinoma ], 15; PAAD[Pancreatic adenocarcinoma], 16; PRAD[Prostate adenocarcinoma], 17; SKCM[Skin Cutaneous Melanoma], 18:STAD[Stomach adenocarcinoma], 19:THCA[Thyroid carcinoma], 20:UCEC[Uterine Corpus Endometrial Carcinoma])

Top
check002.gifTop 10 SNVs Having the Most Samples in TCGA data
* We represented just top 10 SNVs. When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site, primary_histology, mutation(aa), pubmedID.
Genomic PositionMutation(aa)Unique sampleID count
chr1:45243773p.R49L1
chr1:45242381p.K53K1
chr1:45244276p.R74C1
chr1:45242394p.P120P1
chr1:45243294p.L121L1
chr1:45243434p.G122G1
chr1:45243437p.R123C1
chr1:45243440p.P131S1
chr1:45243441p.R141Q1
chr1:45243675p.N155N1

check002.gifOther DBs for Point Mutations
Point Mutation Table of Ensembl: go to Ensembl variation table
Mutation of cBioPortal: go to cBioPortal's Cross-cancer alteration summary

check002.gifCopy Number for RPS8 in TCGA
* Copy number data were extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered on Jan-05-2015. Function ProcessCNAData in TCGA-Assembler package was used to obtain gene-level copy number value which is calculated as the average copy number of the genomic region of a gene.
cf) Tissue ID[Tissue type]: BLCA[Bladder Urothelial Carcinoma], BRCA[Breast invasive carcinoma], CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], COAD[Colon adenocarcinoma], GBM[Glioblastoma multiforme], Glioma Low Grade, HNSC[Head and Neck squamous cell carcinoma], KICH[Kidney Chromophobe], KIRC[Kidney renal clear cell carcinoma], KIRP[Kidney renal papillary cell carcinoma], LAML[Acute Myeloid Leukemia], LUAD[Lung adenocarcinoma], LUSC[Lung squamous cell carcinoma], OV[Ovarian serous cystadenocarcinoma ], PAAD[Pancreatic adenocarcinoma], PRAD[Prostate adenocarcinoma], SKCM[Skin Cutaneous Melanoma], STAD[Stomach adenocarcinoma], THCA[Thyroid carcinoma], UCEC[Uterine Corpus Endometrial Carcinoma]

Top
Gene Expression for RPS8

check002.gifGene Expression in Cancer Cell-lines (CCLE)
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data.

check002.gifDifferential Gene Expression in Primary Tumors (TCGA)
* Normalized gene expression data of RNASeqV2 was extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered at Jan-05-2015. Only eight cancer types have enough normal control samples for differential expression analysis.
(t test, adjusted p<0.05 (using Benjamini-Hochberg FDR))
Top
check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


Top
Gene-Gene Network Information
check002.gifCo-Expressed gene's network Plot
* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown.
Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene

: Open all plots for all cancer types

RPL10,RPL11,RPL12,RPL18,RPL24,RPL27A,RPL31,
RPL32,RPL36,RPL37,RPL37A,RPL5,RPL7A,RPLP0,
RPLP2,RPS10,RPS18,RPS19,RPS2,RPS8,RPS9
FBL,GNB2L1,RPL10,RPL10A,RPL12,RPL13,RPL13A,
RPL14,RPL18,RPL19,RPL24,RPL27A,RPL36,RPL5,
RPL7A,RPS11,RPS14,RPS2,RPS3,RPS6,RPS8

RPL10A,RPL12,RPL24,RPL29,RPL32,RPL35,RPL36,
RPL5,RPL7A,RPLP0,RPS10,RPS13,RPS14,RPS16,
RPS18,RPS29,RPS3,RPS6,RPS7,RPS8,RPS9
DPH5,EEF1B2,RPL10A,RPL15,RPL24,RPL27A,RPL32,
RPL5,RPL7A,RPLP0,RPS10,RPS11,RPS14,RPS18,
RPS3,RPS3A,RPS5,RPS6,RPS7,RPS8,RPSA
check002.gifCo-Expressed gene's Protein-protein interaction Network Plot
* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown.
Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene

: Open all plots for all cancer types

Top
check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

Top
Pharmacological Information for RPS8


There's no related Drug.
Top
Cross referenced IDs for RPS8
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section

: Open all cross reference information



Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @
Site Policies | State of Texas