Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

Home

Search

Download

 Statistics

Help

About Us

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 ADA
Basic gene info.Gene symbolADA
Gene nameadenosine deaminase
Synonyms-
CytomapUCSC genome browser: 20q13.12
Genomic locationchr20 :43248162-43280376
Type of geneprotein-coding
RefGenesNM_000022.2,
Ensembl idENSG00000196839
Descriptionadenosine aminohydrolase
Modification date20141221
dbXrefs MIM : 608958
HGNC : HGNC
Ensembl : ENSG00000196839
HPRD : 00038
Vega : OTTHUMG00000033081
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ADA
BioGPS: 100
Gene Expression Atlas: ENSG00000196839
The Human Protein Atlas: ENSG00000196839
PathwayNCI Pathway Interaction Database: ADA
KEGG: ADA
REACTOME: ADA
ConsensusPathDB
Pathway Commons: ADA
MetabolismMetaCyc: ADA
HUMANCyc: ADA
RegulationEnsembl's Regulation: ENSG00000196839
miRBase: chr20 :43,248,162-43,280,376
TargetScan: NM_000022
cisRED: ENSG00000196839
ContextiHOP: ADA
cancer metabolism search in PubMed: ADA
UCL Cancer Institute: ADA
Assigned class in ccmGDBC

Top
Phenotypic Information for ADA(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ADA
Familial Cancer Database: ADA
* 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_PURINE_METABOLISM
REACTOME_METABOLISM_OF_NUCLEOTIDES
REACTOME_PURINE_METABOLISM

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

Mutations for ADA
* 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
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'.
- 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
ovaryADAchr204325489943254919ADAchr204325505843255078
pancreasADAchr204327324643273266ZSWIM3chr204448840544488425
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 ADA related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AW085123KIAA0430172201161570503515705064ADA182204204326694643266968

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

Top
check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample1     2       2  
GAIN (# sample)1     2       2  
LOSS (# sample)                 
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract)

Top
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

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=21)
Stat. for Synonymous SNVs
(# total SNVs=14)
Stat. for Deletions
(# total SNVs=2)
Stat. for Insertions
(# total SNVs=0)
There's no inserted snv.

Top
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
chr20:43251662-43251662p.E222K3
chr20:43257798-43257798p.I36I3
chr20:43280227-43280227p.D8N3
chr20:43248488-43248488p.G360E2
chr20:43264866-43264866p.?2
chr20:43251728-43251728p.?2
chr20:43255177-43255177p.G94G2
chr20:43251493-43251493p.R253W2
chr20:43254247-43254247p.K147N1
chr20:43248478-43248478p.L363L1

Top
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
# sample13 6  2 11 4 1 137 5
# mutation13 7  2 11 4 1 137 5
nonsynonymous SNV 2 5  1  1 2 1 114 1
synonymous SNV11 3  1 1  2    23 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])

Top
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
chr20:43257798p.I36I3
chr20:43255112p.L252M2
chr20:43251496p.E222K2
chr20:43251662p.P116H2
chr20:43264897p.I22M1
chr20:43248478p.L363L1
chr20:43251230p.N250N1
chr20:43254247p.D19D1
chr20:43264906p.G352V1
chr20:43248963p.K232M1

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 ADA 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]

Top
Gene Expression for ADA

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

: Open all plots for all cancer types


Top
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

ADAL,CASC4,PRIMPOL,CSNK1G3,DCTN4,IQCH,LCMT2,
MFAP1,FAN1,MYO5C,BLOC1S6,PPIP5K1,RFX7,RTF1,
SPG11,TP53BP1,TUBGCP4,UBE3A,UBR1,VPS39,ZSCAN29
ACAT1,ADAL,ATPAF1,DLD,ETFDH,MTFR1L,HADHB,
KLHL31,NDUFS1,NNT,NRD1,PARK2,PDHX,PHYH,
PPP3CB,RRAGD,SOX6,SUCLA2,UBR3,ZAK,ZYG11B

ADAL,AQR,DPH6,VWA9,COPS2,EIF2AK4,EIF3J,
LCMT2,LRRC57,FAN1,NDNL2,PARP16,PDCD7,PEX12,
RTF1,TRPM7,TUBGCP5,UBE3A,USP8,ZNF770,ZSCAN29
ABCA11P,ADAL,AIMP1,ATF1,BRIX1,C1orf109,C5orf28,
TRMT13,FAM133B,GNL3,IMMP1L,ITGB3BP,GPALPP1,KRR1,
NHP2L1,PIBF1,PRMT3,SNRNP27,TASP1,TMEM182,TRMT12
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

Top
check002.gifInteracting Genes (from Pathway Commons)

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

Top
Pharmacological Information for ADA
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
DB00552adenosine deaminaseapproved; investigationalPentostatin
DB00975adenosine deaminaseapprovedDipyridamole
DB02096adenosine deaminaseexperimentalFR221647
DB02472adenosine deaminaseexperimental6-Hydroxy-7,8-Dihydro Purine Nucleoside
DB02616adenosine deaminaseexperimentalFR117016
DB02830adenosine deaminaseexperimentalFR236913
DB03015adenosine deaminaseexperimental6-Hydroxy-1,6-Dihydro Purine Nucleoside
DB03220adenosine deaminaseexperimentalFR233623
DB03370adenosine deaminaseexperimentalFR239087
DB03572adenosine deaminaseexperimentalFR230513
DB04218adenosine deaminaseexperimental1-Deaza-Adenosine
DB04440adenosine deaminaseexperimentalPurine Riboside
DB07711adenosine deaminaseexperimental(2S,3R)-3-(6-amino-9H-purin-9-yl)nonan-2-ol
DB07783adenosine deaminaseexperimental1-((1R)-1-(HYDROXYMETHYL)-3-{6-[(3-PHENYLPROPANOYL)AMINO]-1H-INDOL-1-YL}PROPYL)-1H-IMIDAZOLE-4-CARBOXAMIDE
DB07785adenosine deaminaseexperimental1-{(1R,2S)-2-HYDROXY-1-[2-(2-NAPHTHYLOXY)ETHYL]PROPYL}-1H-IMIDAZONE-4-CARBOXAMIDE
DB07786adenosine deaminaseexperimental1-((1R,2S)-1-{2-[2-(4-CHLOROPHENYL)-1,3-BENZOXAZOL-7-YL]ETHYL}-2-HYDROXYPROPYL)-1H-IMIDAZOLE-4-CARBOXAMIDE
DB00173adenosine deaminaseapproved; nutraceuticalAdenine
DB00563adenosine deaminaseapprovedMethotrexate
DB00640adenosine deaminaseapproved; investigationalAdenosine


Top
Cross referenced IDs for ADA
* 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



Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @
Site Policies | State of Texas