Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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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 SLC16A8
Basic gene info.Gene symbolSLC16A8
Gene namesolute carrier family 16 (monocarboxylate transporter), member 8
SynonymsMCT3|REMP
CytomapUCSC genome browser: 22q12.3-q13.2
Genomic locationchr22 :38474143-38479170
Type of geneprotein-coding
RefGenesNM_013356.2,
Ensembl idENSG00000100156
DescriptionMCT 3monocarboxylate transporter 3solute carrier 16 (monocarboxylic acid transporters), member 8solute carrier family 16 member 8solute carrier family 16, member 8 (monocarboxylic acid transporter 3)
Modification date20141207
dbXrefs MIM : 610409
HGNC : HGNC
Ensembl : ENSG00000100156
HPRD : 11568
Vega : OTTHUMG00000151196
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SLC16A8
BioGPS: 23539
Gene Expression Atlas: ENSG00000100156
The Human Protein Atlas: ENSG00000100156
PathwayNCI Pathway Interaction Database: SLC16A8
KEGG: SLC16A8
REACTOME: SLC16A8
ConsensusPathDB
Pathway Commons: SLC16A8
MetabolismMetaCyc: SLC16A8
HUMANCyc: SLC16A8
RegulationEnsembl's Regulation: ENSG00000100156
miRBase: chr22 :38,474,143-38,479,170
TargetScan: NM_013356
cisRED: ENSG00000100156
ContextiHOP: SLC16A8
cancer metabolism search in PubMed: SLC16A8
UCL Cancer Institute: SLC16A8
Assigned class in ccmGDBC

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Phenotypic Information for SLC16A8(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: SLC16A8
Familial Cancer Database: SLC16A8
* 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_PYRUVATE_METABOLISM_AND_CITRIC_ACID_TCA_CYCLE
REACTOME_PYRUVATE_METABOLISM

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: SLC16A8
MedGen: SLC16A8 (Human Medical Genetics with Condition)
ClinVar: SLC16A8
PhenotypeMGI: SLC16A8 (International Mouse Phenotyping Consortium)
PhenomicDB: SLC16A8

Mutations for SLC16A8
* 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

- Statistics for Tissue and Mutation typeTop
- For Inter-chromosomal Variations
There's no inter-chromosomal structural variation.
- For Intra-chromosomal Variations
* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
pancreasSLC16A8chr223847810038478120SLC16A8chr223847817638478196
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract)

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows SLC16A8 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=11

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=18)
Stat. for Synonymous SNVs
(# total SNVs=10)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.There's no inserted 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
chr22:38477342-38477342p.R235W11
chr22:38477930-38477930p.L108L2
chr22:38474460-38474460p.A484T2
chr22:38474554-38474554p.S452S2
chr22:38474563-38474563p.G449G1
chr22:38477098-38477098p.R316L1
chr22:38478875-38478875p.G2G1
chr22:38474623-38474623p.V429V1
chr22:38477275-38477275p.A257V1
chr22:38474640-38474640p.G424R1

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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=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample 1 5  1 1       33  
# mutation 1 6  1 1       33  
nonsynonymous SNV   4  1         21  
synonymous SNV 1 2    1       12  
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
chr22:38474460p.A484T2
chr22:38474623p.G424R1
chr22:38474640p.P396P1
chr22:38476857p.A374V1
chr22:38476924p.A362A1
chr22:38476959p.G354G1
chr22:38476983p.R341C1
chr22:38477024p.A313E1
chr22:38474436p.T57T1
chr22:38477107p.V21V1

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 SLC16A8 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 SLC16A8

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

ASB18,ATP4A,CTPS1,EXO5,FAM27L,NXPE2,FKBP9P1,
GAB4,GCK,GPRC6A,KLK5,LOC100130557,MTHFD1L,PNLDC1,
RNASE2,RPL18A,SCMH1,SLC16A8,SLFNL1,ZNF362,ZFP69B
AGAP3,ANAPC2,ANKS3,BANP,CDK10,CXXC1,EHMT2,
GGA1,MTA1,OGFOD2,RECQL5,SEPT5,SH2B1,SLC16A8,
SNRNP70,SPPL2B,SPRN,SYMPK,USP20,XAB2,ZNF282

CGB2,CPNE6,FLJ25758,SPATA31D1,IZUMO1R,GAGE12D,GAGE4,
H2BFWT,HIST1H2BI,LOC116437,LYPD4,MIOX,MS4A13,NPB,
OXT,PFN3,PIP,PRR19,SLC16A8,SSX2,ZNF460
ATOH8,BCAM,EFHD1,TMEM255A,GRIP2,HRC,HTR1F,
MUSTN1,MYOZ1,NOL3,NRIP2,PEAR1,POLL,RCAN2,
RERGL,SLC16A8,SLC6A1,SLC7A2,SRL,ZNF202,ZNF496
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 SLC16A8
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
DB00119solute carrier family 16, member 8 (monocarboxylic acid transporter 3)approved; nutraceuticalPyruvic acid


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Cross referenced IDs for SLC16A8
* 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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