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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for SLC16A8 |
Basic gene info. | Gene symbol | SLC16A8 |
Gene name | solute carrier family 16 (monocarboxylate transporter), member 8 | |
Synonyms | MCT3|REMP | |
Cytomap | UCSC genome browser: 22q12.3-q13.2 | |
Genomic location | chr22 :38474143-38479170 | |
Type of gene | protein-coding | |
RefGenes | NM_013356.2, | |
Ensembl id | ENSG00000100156 | |
Description | MCT 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 date | 20141207 | |
dbXrefs | MIM : 610409 | |
HGNC : HGNC | ||
Ensembl : ENSG00000100156 | ||
HPRD : 11568 | ||
Vega : OTTHUMG00000151196 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_SLC16A8 | |
BioGPS: 23539 | ||
Gene Expression Atlas: ENSG00000100156 | ||
The Human Protein Atlas: ENSG00000100156 | ||
Pathway | NCI Pathway Interaction Database: SLC16A8 | |
KEGG: SLC16A8 | ||
REACTOME: SLC16A8 | ||
ConsensusPathDB | ||
Pathway Commons: SLC16A8 | ||
Metabolism | MetaCyc: SLC16A8 | |
HUMANCyc: SLC16A8 | ||
Regulation | Ensembl's Regulation: ENSG00000100156 | |
miRBase: chr22 :38,474,143-38,479,170 | ||
TargetScan: NM_013356 | ||
cisRED: ENSG00000100156 | ||
Context | iHOP: SLC16A8 | |
cancer metabolism search in PubMed: SLC16A8 | ||
UCL Cancer Institute: SLC16A8 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for SLC16A8(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: SLC16A8 |
Familial Cancer Database: SLC16A8 |
* This gene is included in those cancer gene databases. |
Oncogene 1 | Significant driver gene in |
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/ |
Metabolic Pathway Description | |
REACTOME_PYRUVATE_METABOLISM_AND_CITRIC_ACID_TCA_CYCLE REACTOME_PYRUVATE_METABOLISM |
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. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
- Statistics for Tissue and Mutation type | Top |
- 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'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
pancreas | SLC16A8 | chr22 | 38478100 | 38478120 | SLC16A8 | chr22 | 38478176 | 38478196 |
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) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows SLC16A8 related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
Other DBs for Structural Variants |
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Copy 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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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=18) | (# total SNVs=10) |
(# total SNVs=0) | (# total SNVs=0) |
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Top 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 position | Mutation(aa) | Unique sampleID count |
chr22:38477342-38477342 | p.R235W | 11 |
chr22:38474460-38474460 | p.A484T | 2 |
chr22:38474554-38474554 | p.S452S | 2 |
chr22:38477930-38477930 | p.L108L | 2 |
chr22:38478767-38478767 | p.A38A | 1 |
chr22:38474456-38474456 | p.R485Q | 1 |
chr22:38476983-38476983 | p.G354G | 1 |
chr22:38478818-38478818 | p.V21V | 1 |
chr22:38477014-38477014 | p.G344D | 1 |
chr22:38478831-38478831 | p.W17* | 1 |
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SNV Counts per Each Loci in TCGA data |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample |   | 1 |   | 5 |   |   | 1 |   | 1 |   |   |   |   |   |   |   | 3 | 3 |   |   |
# mutation |   | 1 |   | 6 |   |   | 1 |   | 1 |   |   |   |   |   |   |   | 3 | 3 |   |   |
nonsynonymous SNV |   |   |   | 4 |   |   | 1 |   |   |   |   |   |   |   |   |   | 2 | 1 |   |   |
synonymous SNV |   | 1 |   | 2 |   |   |   |   | 1 |   |   |   |   |   |   |   | 1 | 2 |   |   |
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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Top 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 Position | Mutation(aa) | Unique sampleID count |
chr22:38474460 | p.A484T | 2 |
chr22:38474456 | p.R485Q | 1 |
chr22:38478710 | p.G449G | 1 |
chr22:38478818 | p.V429V | 1 |
chr22:38474563 | p.G424R | 1 |
chr22:38474623 | p.P396P | 1 |
chr22:38474640 | p.A374V | 1 |
chr22:38476857 | p.A362A | 1 |
chr22:38476924 | p.G354G | 1 |
chr22:38476959 | p.R341C | 1 |
Other DBs for Point Mutations |
Copy 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 |
Gene 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. |
Differential 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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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-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 |
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 |
Co-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 |
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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for SLC16A8 |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB00119 | solute carrier family 16, member 8 (monocarboxylic acid transporter 3) | approved; nutraceutical | Pyruvic 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 |
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