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 ADCY9
Basic gene info.Gene symbolADCY9
Gene nameadenylate cyclase 9
SynonymsAC9
CytomapUCSC genome browser: 16p13.3
Genomic locationchr16 :4012649-4166186
Type of geneprotein-coding
RefGenesNM_001116.3,
Ensembl idENSG00000162104
DescriptionATP pyrophosphate-lyase 9adenylate cyclase type 9adenylate cyclase type IXadenylyl cyclase 9type IX ATP pyrophosphate-lyase
Modification date20141207
dbXrefs MIM : 603302
HGNC : HGNC
Ensembl : ENSG00000162104
HPRD : 04489
Vega : OTTHUMG00000177612
ProteinUniProt: O60503
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ADCY9
BioGPS: 115
Gene Expression Atlas: ENSG00000162104
The Human Protein Atlas: ENSG00000162104
PathwayNCI Pathway Interaction Database: ADCY9
KEGG: ADCY9
REACTOME: ADCY9
ConsensusPathDB
Pathway Commons: ADCY9
MetabolismMetaCyc: ADCY9
HUMANCyc: ADCY9
RegulationEnsembl's Regulation: ENSG00000162104
miRBase: chr16 :4,012,649-4,166,186
TargetScan: NM_001116
cisRED: ENSG00000162104
ContextiHOP: ADCY9
cancer metabolism search in PubMed: ADCY9
UCL Cancer Institute: ADCY9
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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Phenotypic Information for ADCY9(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ADCY9
Familial Cancer Database: ADCY9
* 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_INTEGRATION_OF_ENERGY_METABOLISM

check002.gifOthers
OMIM 603302; gene.
603302; gene.
Orphanet
DiseaseKEGG Disease: ADCY9
MedGen: ADCY9 (Human Medical Genetics with Condition)
ClinVar: ADCY9
PhenotypeMGI: ADCY9 (International Mouse Phenotyping Consortium)
PhenomicDB: ADCY9

Mutations for ADCY9
* 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
ovaryADCY9chr1640825024082522ADCY9chr1640980164098036
ovaryADCY9chr1641149264114946ADCY9chr1641171404117160
pancreasADCY9chr1641442714144291chr1641669214166941
pancreasADCY9chr1641574924157512ADCY9chr1641020764102096
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 ADCY9 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BF871520ADCY91681640990444099111BGN59160X152774633152774735
BF854283ADCY991731641593744159539CTDSPL17145533802533238025616

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
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample4     5   1      
GAIN (# sample)3         1      
LOSS (# sample)1     5          
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)

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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=119)
Stat. for Synonymous SNVs
(# total SNVs=50)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=1)

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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
chr16:4042225-4042225p.S710L3
chr16:4016009-4016009p.E1277K3
chr16:4165432-4165432p.P4P3
chr16:4029168-4029168p.P876P3
chr16:4163814-4163814p.E544K2
chr16:4164270-4164270p.E392*2
chr16:4016218-4016218p.Q1207L2
chr16:4016686-4016686p.S1051F2
chr16:4164273-4164273p.E391K2
chr16:4015908-4015908p.R1310R2

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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=5

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample393255 4132 939121516316
# mutation393235 5142 939121619328
nonsynonymous SNV382154 4 31 635 198322
synonymous SNV 1181 1111 3 411711 6
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
chr16:4029168p.P876P4
chr16:4163814p.S710L3
chr16:4042225p.E544K3
chr16:4164273p.S632S2
chr16:4016169p.A929A2
chr16:4042224p.M1197V2
chr16:4043500p.S710S2
chr16:4015908p.R1310R2
chr16:4027524p.A126T2
chr16:4016249p.E391K2

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 ADCY9 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 ADCY9

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

ABAT,ADCY9,APBB2,CA12,COG7,COQ7,CREBBP,
EPB41L5,GLYR1,C5AR2,KIAA0556,MARVELD2,MKL2,PDPK1,
JADE2,RAB11FIP3,SRRM2,ZNF174,ZSCAN32,ZNF552,ZNF91
ACTC1,ADCY9,AKAP6,BVES,C20orf166-AS1,CAND2,CEP85,
FLNC,GATS,HSPA2,JPH2,LOC389333,MEF2D,MUSTN1,
NEXN,PLN,PRKG1,SGCA,SPEG,SVIL,TPM2

ADCY9,AHDC1,AHNAK,AKAP13,CIC,CREBBP,CRYBG3,
FRY,GBF1,HSPG2,IL6ST,KIAA0226,KIAA0247,LHFPL2,
NDST1,NFIC,RAPGEF1,PEAK1,SKI,TLN1,ZMIZ1
ADCY9,AGPAT3,ARHGEF11,ATG9A,ATP6V0A1,BAG6,CDC42BPB,
DENND1A,AGO1,FAT1,ARHGAP35,LAMP1,LRP5,NFE2L1,
OGDH,RNF123,SEMA6A,SORT1,TGOLN2,TRAK1,UBR4
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 ADCY9
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
ChemistryChEMBL CHEMBL2097167; -.
ChemistryChEMBL CHEMBL2097167; -.
Organism-specific databasesPharmGKB PA30; -.
Organism-specific databasesPharmGKB PA30; -.
Organism-specific databasesCTD 115; -.
Organism-specific databasesCTD 115; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB01064adenylate cyclase 9approvedIsoproterenol
DB00938adenylate cyclase 9approvedSalmeterol


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Cross referenced IDs for ADCY9
* 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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