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 ADCY2
Basic gene info.Gene symbolADCY2
Gene nameadenylate cyclase 2 (brain)
SynonymsAC2|HBAC2
CytomapUCSC genome browser: 5p15.3
Genomic locationchr5 :7396342-7830194
Type of geneprotein-coding
RefGenesNM_020546.2,
Ensembl idENSG00000078295
Description3',5'-cyclic AMP synthetaseATP pyrophosphate-lyase 2adenylate cyclase IIadenylate cyclase type 2adenylate cyclase type IIadenylyl cyclase 2type II adenylate cyclase
Modification date20141207
dbXrefs MIM : 103071
HGNC : HGNC
Ensembl : ENSG00000078295
HPRD : 00052
Vega : OTTHUMG00000090476
ProteinUniProt: Q08462
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ADCY2
BioGPS: 108
Gene Expression Atlas: ENSG00000078295
The Human Protein Atlas: ENSG00000078295
PathwayNCI Pathway Interaction Database: ADCY2
KEGG: ADCY2
REACTOME: ADCY2
ConsensusPathDB
Pathway Commons: ADCY2
MetabolismMetaCyc: ADCY2
HUMANCyc: ADCY2
RegulationEnsembl's Regulation: ENSG00000078295
miRBase: chr5 :7,396,342-7,830,194
TargetScan: NM_020546
cisRED: ENSG00000078295
ContextiHOP: ADCY2
cancer metabolism search in PubMed: ADCY2
UCL Cancer Institute: ADCY2
Assigned class in ccmGDBA - This gene has a literature evidence and it belongs to cancer gene.
References showing role of ADCY2 in cancer cell metabolism1. Duerr EM, Mizukami Y, Ng A, Xavier RJ, Kikuchi H, et al. (2008) Defining molecular classifications and targets in gastroenteropancreatic neuroendocrine tumors through DNA microarray analysis. Endocr Relat Cancer 15: 243-256. doi: 10.1677/ERC-07-0194. go to article
2. O'Donnell PH, Stark AL, Gamazon ER, Wheeler HE, McIlwee BE, et al. (2012) Identification of novel germline polymorphisms governing capecitabine sensitivity. Cancer 118: 4063-4073. doi: 10.1002/cncr.26737. pmid: 3413892. go to article

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Phenotypic Information for ADCY2(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ADCY2
Familial Cancer Database: ADCY2
* 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 103071; gene.
Orphanet
DiseaseKEGG Disease: ADCY2
MedGen: ADCY2 (Human Medical Genetics with Condition)
ClinVar: ADCY2
PhenotypeMGI: ADCY2 (International Mouse Phenotyping Consortium)
PhenomicDB: ADCY2

Mutations for ADCY2
* 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
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'.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
ovaryADCY2chr575045707504590ADCY2chr574978777497897
ovaryADCY2chr575073007507320ADCY2chr575086187508638
ovaryADCY2chr575787397578759ADCY2chr575757687575788
ovaryADCY2chr576198767619896ADCY2chr576199767619996
pancreasADCY2chr577446357744655LOC729506chr583399728339992
skinADCY2chr577428537742853chr52792546027925460
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 ADCY2 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
CD365127ADCY2131621152004986152005135WBSCR1615367877445708574474444
AA303012ADCY241941152004982152005172LARP1B1943554129029633129029795
AW962618ADCY211881152004985152005172LARP1B1886594129029326129029795
AI079657DDB130138116106692361067031ADCY21305171152005067152006279
BM995008ADCY2171921152004982152005157ZFP36L218866824345000743450487
AA398583ADCY2565578275857827645SPACA362549173132264031324883
CN301511ADCY212571152005194152006274KCTD15252801193429135434298067
BM015985FAM65A1488166757620467576690ADCY24825601152004983152005064
CA441871ADCY2171611152004982152005126CNP154623174012391940125831
DR421898H1F01592223820156838202551ADCY25926591152004992152005059
CA309448ADCY2174871152004982152006276RNF19B48574013341383233415290
AA159721JUP16311173984760339847898ADCY23084061152006137152006235
BG338501ADCY226811152004981152009468DZIP1L6776993137813181137813203
BM968972SPOCK3164704167654535167654988ADCY24645711152004992152005098
BQ430032ADCY214701152004982152006275NOL647185693346204133462421
BF825732ADCY213901152005108152009434MYL12A3854671832478263247908
AI807187ADCY21831152004984152005066RBM3977498203432709234327512
BQ896787ADCY214001152005087152009422SH3BGRL340187912660658626607788
BU679228ADCY21242121152004986152005074TPRG11932213188876707188876816
CA450159COX6C143368100890377100904212ADCY23363971152004982152005043
BQ014524MRPS16272302107501066275010692ADCY23016461152005128152009409
DB313344ADCY211411152004984152005124TNKS2135535109362313193623530
AI809993ADCY21841152004983152005066RBM3978525203432709234327539
BE875453LTA4H10179129640014596407038ADCY21733341152004982152005144

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 # sample3111  4 12 4  10  1
GAIN (# sample)3111    11 4  9  1
LOSS (# sample)      4 1    3   
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=8

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=217)
Stat. for Synonymous SNVs
(# total SNVs=82)
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
chr5:7802364-7802364p.V888I6
chr5:7709361-7709361p.R480H4
chr5:7757684-7757715p.?4
chr5:7695919-7695919p.P308P4
chr5:7520914-7520914p.A158T4
chr5:7789859-7789859p.N858N3
chr5:7789868-7789868p.P861P3
chr5:7802454-7802454p.E918K3
chr5:7789879-7789879p.A865G3
chr5:7766890-7766890p.L729V3

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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=7

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample1541393 17 32 421615  927120
# mutation1541403 19 22 492214  928128
nonsynonymous SNV9  263 17 12 271711  613 19
synonymous SNV64114  2 1  2253  31519
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
chr5:7802364p.V888I5
chr5:7709334p.A158T3
chr5:7706890p.N381N3
chr5:7520914p.R471L3
chr5:7709400p.R493H2
chr5:7727285p.L851L2
chr5:7698384p.I336L2
chr5:7520955p.R853R2
chr5:7766897p.S743N2
chr5:7520986p.N858N2

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 ADCY2 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 ADCY2

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

ACAN,ADCY2,ANGPT1,NPR3,CHST3,CLEC18A,CREB3L2,
FGFBP2,HAS2-AS1,ITM2C,KCNK5,LOC158376,OR2S2,PALM2,
PAPD7,PRELP,SOX6,STK38L,TRPV4,WWP2,WWTR1
ACHE,ADCY2,AMPD1,BEST3,CALML6,CMYA5,DUSP26,
FLJ41941,HHATL,KLHL38,MB,MYADML2,MYLK3,MYOZ2,
PKIA,RYR1,SMTNL2,SRPK3,SYNPO2L,TXLNB,UGT3A1

ADAMTSL3,ADCY2,ANKRD35,CALD1,CRISPLD1,DZIP1,ELN,
FERMT2,GUCY1A3,HSD17B6,KANK2,LOC399959,MEIS1,MRVI1,
MSRB3,NCAM2,PALLD,PRDM6,RNF150,SLC24A3,ZEB1
ADAMTSL3,ADCY2,APBB1,ARHGEF4,DTX3,EPM2A,ARHGEF25,
HAND2,JAM3,LIMS2,MAB21L2,MEIS1,MEIS2,NEXN,
NXN,PACSIN3,PDZRN3,PDZRN4,PGM5,RBPMS,RBPMS2
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 ADCY2
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link
ChemistryChEMBL CHEMBL2097167; -.
Organism-specific databasesPharmGKB PA24561; -.
Organism-specific databasesCTD 108; -.

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB02587adenylate cyclase 2 (brain)experimentalForskolin
DB06843adenylate cyclase 2 (brain)experimental2',5'-DIDEOXY-ADENOSINE 3'-MONOPHOSPHATE
DB00938adenylate cyclase 2 (brain)approvedSalmeterol


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Cross referenced IDs for ADCY2
* 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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