Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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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 SLC6A8
Basic gene info.Gene symbolSLC6A8
Gene namesolute carrier family 6 (neurotransmitter transporter), member 8
SynonymsCCDS1|CRT|CRTR|CT1|CTR5
CytomapUCSC genome browser: Xq28
Genomic locationchrX :152954965-152962048
Type of geneprotein-coding
RefGenesNM_001142805.1,
NM_001142806.1,NM_005629.3,
Ensembl idENSG00000268982
Descriptioncreatine transporter 1creatine transporter SLC6A8 variant Dsodium- and chloride-dependent creatine transporter 1solute carrier family 6 (neurotransmitter transporter, creatine), member 8solute carrier family 6 member 8
Modification date20141219
dbXrefs MIM : 300036
HGNC : HGNC
Ensembl : ENSG00000130821
HPRD : 02073
Vega : OTTHUMG00000024208
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SLC6A8
BioGPS: 6535
Gene Expression Atlas: ENSG00000268982
The Human Protein Atlas: ENSG00000268982
PathwayNCI Pathway Interaction Database: SLC6A8
KEGG: SLC6A8
REACTOME: SLC6A8
ConsensusPathDB
Pathway Commons: SLC6A8
MetabolismMetaCyc: SLC6A8
HUMANCyc: SLC6A8
RegulationEnsembl's Regulation: ENSG00000268982
miRBase: chrX :152,954,965-152,962,048
TargetScan: NM_001142805
cisRED: ENSG00000268982
ContextiHOP: SLC6A8
cancer metabolism search in PubMed: SLC6A8
UCL Cancer Institute: SLC6A8
Assigned class in ccmGDBC

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Phenotypic Information for SLC6A8(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: SLC6A8
Familial Cancer Database: SLC6A8
* 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_AMINO_ACIDS_AND_DERIVATIVES

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: SLC6A8
MedGen: SLC6A8 (Human Medical Genetics with Condition)
ClinVar: SLC6A8
PhenotypeMGI: SLC6A8 (International Mouse Phenotyping Consortium)
PhenomicDB: SLC6A8

Mutations for SLC6A8
* 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 SLC6A8 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a

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

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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.

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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=5

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=32)
Stat. for Synonymous SNVs
(# total SNVs=8)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=1)
There's no deleted snv.

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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
chr23:152958537-152958537p.V273V3
chr23:152958731-152958731p.A309E3
chr23:152960320-152960320p.L581L2
chr23:152960192-152960192p.V539I2
chr23:152958730-152958730p.A309T2
chr23:152958790-152958790p.S329C1
chr23:152956789-152956789p.F142Y1
chr23:152959803-152959803p.G466V1
chr23:152958551-152958551p.R278H1
chr23:152960547-152960547p.Q596*1

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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
# sample2  3  2 3  611  4215
# mutation2  3  2 3  611  4216
nonsynonymous SNV1  2  1 2  41   3115
synonymous SNV1  1  1 1  2 1  11 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])

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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
chrX:152958790p.R278H,SLC6A81
chrX:152960179p.R504Q,SLC6A81
chrX:152957439p.A285A,SLC6A81
chrX:152958817p.I524M,SLC6A81
chrX:152960208p.G288V,SLC6A81
chrX:152957459p.P534L,SLC6A81
chrX:152958983p.L293F,SLC6A81
chrX:152957540p.G36S,SLC6A81
chrX:152959593p.L293L,SLC6A81
chrX:152954135p.R46R,SLC6A81

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 SLC6A8 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]

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Gene Expression for SLC6A8

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))
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check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


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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

ABCD1,BCAP31,DKC1,ECE2,EMD,ENO1,FAM127B,
FAM58A,HAUS7,IDH3G,IRAK1,NAA10,PCBP4,PLXNB3,
POLR2F,SLC10A3,SLC6A8,SRM,TUBA1C,TUBA4A,UBL4A
ACAT1,ACO2,ADHFE1,ATP5G3,CHCHD3,CS,DLD,
DLST,ETFDH,GPT2,HSPB6,KIAA0408,NDUFV3,PDHA1,
GATB,PGM1,PLIN5,RNF157,SLC2A4,SLC6A8,TBX15

ADM,ALDOA,B3GALT5,BMP2,BTNL8,CA9,CEACAM20,
DMBX1,DNM2,EGLN3,LIMA1,MALL,MUC17,NDRG1,
PTPRH,SDCBP2,SLC6A10P,SLC6A8,SLC9A1,SLC9A3R1,TMEM92
ABCG1,ARHGEF18,CHMP4B,COL17A1,EGLN3,ENTPD8,IFNGR2,
IGSF3,LRP10,NSFL1C,OTOP3,PTPRH,PTTG1IP,SLC16A3,
SLC6A10P,SLC6A8,SRC,TMEM127,TNIP1,TOM1,ZER1
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

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check002.gifInteracting Genes (from Pathway Commons)

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

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Pharmacological Information for SLC6A8
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB00148solute carrier family 6 (neurotransmitter transporter, creatine), member 8approved; nutraceuticalCreatine
DB00515solute carrier family 6 (neurotransmitter transporter, creatine), member 8approvedCisplatin


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Cross referenced IDs for SLC6A8
* 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



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