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 SLC25A6
Basic gene info.Gene symbolSLC25A6
Gene namesolute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 6
Synonyms2|3|AAC3|ANT|ANT 2|ANT 3|ANT3|ANT3Y
CytomapUCSC genome browser: Xp22.32 and Yp11.3
Genomic locationchrX :1505044-1511039
Type of geneprotein-coding
RefGenesNM_001636.3,
Ensembl idENSG00000169100
DescriptionADP,ATP carrier proteinADP,ATP carrier protein 3ADP,ATP carrier protein, liverADP/ATP translocase 3ADP/ATP translocator of liveradenine nucleotide translocator 3solute carrier family 25 member 6
Modification date20141207
dbXrefs MIM : 300151
MIM : 403000
HGNC : HGNC
HPRD : 02461
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SLC25A6
BioGPS: 293
Gene Expression Atlas: ENSG00000169100
The Human Protein Atlas: ENSG00000169100
PathwayNCI Pathway Interaction Database: SLC25A6
KEGG: SLC25A6
REACTOME: SLC25A6
ConsensusPathDB
Pathway Commons: SLC25A6
MetabolismMetaCyc: SLC25A6
HUMANCyc: SLC25A6
RegulationEnsembl's Regulation: ENSG00000169100
miRBase: chrX :1,505,044-1,511,039
TargetScan: NM_001636
cisRED: ENSG00000169100
ContextiHOP: SLC25A6
cancer metabolism search in PubMed: SLC25A6
UCL Cancer Institute: SLC25A6
Assigned class in ccmGDBC

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Phenotypic Information for SLC25A6(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: SLC25A6
Familial Cancer Database: SLC25A6
* 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_INTEGRATION_OF_ENERGY_METABOLISM
REACTOME_METABOLISM_OF_PROTEINS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: SLC25A6
MedGen: SLC25A6 (Human Medical Genetics with Condition)
ClinVar: SLC25A6
PhenotypeMGI: SLC25A6 (International Mouse Phenotyping Consortium)
PhenomicDB: SLC25A6

Mutations for SLC25A6
* 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 SLC25A6 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=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=19)
Stat. for Synonymous SNVs
(# total SNVs=14)
Stat. for Deletions
(# total SNVs=2)
Stat. for Insertions
(# total SNVs=0)
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
chr23:1506318-1506318p.?3
chr23:1505546-1505546p.G284fs*142
chr23:1505571-1505571p.A274E2
chr23:1505534-1505534p.F286F2
chr23:1508411-1508411p.T107T2
chr23:1508415-1508415p.H106R1
chr23:1506203-1506203p.R236R1
chr23:1510867-1510867p.F12L1
chr23:1508156-1508156p.F192F1
chr23:1505553-1505553p.R280L1

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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=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample21  1 111  61   34 7
# mutation21  1 111  61   35 8
nonsynonymous SNV1      11  51   25 4
synonymous SNV11  1 1    1    1  4
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:1505571p.F286F2
chrX:1505534p.R280L2
chrX:1505553p.A274E2
chrX:1505554p.A274T1
chrX:1508207p.A86A1
chrX:1508554p.K268R1
chrX:1508278p.F82L1
chrX:1508593p.T252T1
chrX:1505572p.Y81Y1
chrX:1508329p.T252M1

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 SLC25A6 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 SLC25A6

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

VPS51___IFT46,DUS3L,MAP2K2,MBD3,PPAN,RPL10,RPL11,
RPL13A,RPL18,RPL27A,RPL37A,RPLP0,RPLP2,RPS10,
RPS14,RPS15,RPS19,RPS8,RPS9,SLC25A6,UBXN1
APRT,TEN1,DNPH1,EEF1D,EEF2,FAU,MLST8,
NFKBIL1,PRKCSH,RAC3,RPL19,RPL35,RPL8,RPS16,
RPS9,SLC25A6,TCF25,TIMM13,TUFM,UBXN1,ZNF581

ASMTL,DHRSX,EIF2S3,GNB2L1,MRPS24,NDUFB11,PPP2R3B,
PQBP1,RPL10,RPL12,RPL13,RPL23A,RPL29,RPL38,
RPL7A,RPS23,RPS2,RPS4X,RPS9,SLC25A6,UXT
ATP5G2,ATPAF2,BCKDHA,CUTA,ECSIT,EEF1G,EIF3D,
EIF3F,ERCC1,GLTSCR2,GNB2L1,NOB1,PEX10,RPL13,
RPL18,RPL28,RPL3,RPS15,RPS2,SLC25A6,TRAPPC6A
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 SLC25A6
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
DB00720solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 6approved; investigationalClodronate


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Cross referenced IDs for SLC25A6
* 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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