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 ADO
Basic gene info.Gene symbolADO
Gene name2-aminoethanethiol (cysteamine) dioxygenase
SynonymsC10orf22
CytomapUCSC genome browser: 10q21.3
Genomic locationchr10 :64564515-64568239
Type of geneprotein-coding
RefGenesNM_032804.5,
Ensembl idENSG00000181915
Description2-aminoethanethiol dioxygenasecysteamine (2-aminoethanethiol) dioxygenase (ADO)cysteamine dioxygenase
Modification date20141207
dbXrefs MIM : 611392
HGNC : HGNC
Ensembl : ENSG00000181915
HPRD : 12566
Vega : OTTHUMG00000018306
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ADO
BioGPS: 84890
Gene Expression Atlas: ENSG00000181915
The Human Protein Atlas: ENSG00000181915
PathwayNCI Pathway Interaction Database: ADO
KEGG: ADO
REACTOME: ADO
ConsensusPathDB
Pathway Commons: ADO
MetabolismMetaCyc: ADO
HUMANCyc: ADO
RegulationEnsembl's Regulation: ENSG00000181915
miRBase: chr10 :64,564,515-64,568,239
TargetScan: NM_032804
cisRED: ENSG00000181915
ContextiHOP: ADO
cancer metabolism search in PubMed: ADO
UCL Cancer Institute: ADO
Assigned class in ccmGDBC

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

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

Mutations for ADO
* 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 ADO related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
CA392397ADO1880106456724964567311ADO73419106456674464567090

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=13)
Stat. for Synonymous SNVs
(# total SNVs=9)
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
chr10:64564892-64564892p.G25W5
chr10:64565563-64565563p.L248L3
chr10:64564934-64564934p.P39A3
chr10:64564964-64564964p.E49K1
chr10:64565522-64565522p.S235P1
chr10:64565000-64565000p.L61V1
chr10:64565011-64565011p.E64E1
chr10:64565598-64565598p.G260A1
chr10:64565099-64565099p.D94N1
chr10:64565611-64565611p.P264P1

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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
# sample   11      12   1 1 
# mutation   11      12   1 1 
nonsynonymous SNV           12   1 1 
synonymous SNV   11               
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
chr10:64564912p.D94N1
chr10:64565000p.L121F1
chr10:64565099p.R189R1
chr10:64565180p.D216Y1
chr10:64565386p.G260A1
chr10:64565465p.S31S1
chr10:64565598p.L61V1

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 ADO 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 ADO

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

ADO,ANK3,FAM213A,METTL21C,CCDC6,CCNJ,CDK1,
CSTF2T,HAUS2,JMJD1C,NRBF2,PARG,PPA1,RTKN2,
SAR1A,SH2D4B,SUPV3L1,TFAM,TSPAN14,UBE2D1,VPS26A
ADO,ALG2,ASF1A,C12orf29,C3orf38,SMIM15,CBX3,
CISD2,EIF4E,GOLPH3L,POGLUT1,MRPL42,C7orf73,PTGES3,
RAB14,RNF2,RWDD4,SCOC,SEH1L,TIPRL,TXNDC9

ADO,ASCC1,ADIRF,CA6,CACNG6,CCK,DDX50,
DGCR5,ECD,FBXO2,FGF19,GAS6-AS2,HGFAC,NRBF2,
PAK7,SLIT1,SOHLH1,SPDYC,TCHH,TEX19,ZNF735
AASDHPPT,ADO,AEBP2,ALG9,ALKBH8,ARID5B,CDK17,
CLCC1,LMCD1,MATR3,MCPH1,MOB1B,NAA25,NAB1,
NUFIP1,RANBP6,TGFBR1,TRMT5,TWISTNB,WDR36,ZNF146
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 ADO


There's no related Drug.
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Cross referenced IDs for ADO
* 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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