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 ADH7
Basic gene info.Gene symbolADH7
Gene namealcohol dehydrogenase 7 (class IV), mu or sigma polypeptide
SynonymsADH4
CytomapUCSC genome browser: 4q23-q24
Genomic locationchr4 :100333417-100356667
Type of geneprotein-coding
RefGenesNM_000673.4,
NM_001166504.1,
Ensembl idENSG00000196344
Descriptionalcohol dehydrogenase VIIalcohol dehydrogenase class 4 mu/sigma chainalcohol dehydrogenase class IV mu/sigma chainalcohol dehydrogenase-7class IV sigma-1 alcohol dehydrogenaseclass IV sigmasigma alcohol dehydrogenasegastric alcohol dehydrogenaseret
Modification date20141222
dbXrefs MIM : 600086
HGNC : HGNC
Ensembl : ENSG00000196344
HPRD : 02515
Vega : OTTHUMG00000159318
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ADH7
BioGPS: 131
Gene Expression Atlas: ENSG00000196344
The Human Protein Atlas: ENSG00000196344
PathwayNCI Pathway Interaction Database: ADH7
KEGG: ADH7
REACTOME: ADH7
ConsensusPathDB
Pathway Commons: ADH7
MetabolismMetaCyc: ADH7
HUMANCyc: ADH7
RegulationEnsembl's Regulation: ENSG00000196344
miRBase: chr4 :100,333,417-100,356,667
TargetScan: NM_000673
cisRED: ENSG00000196344
ContextiHOP: ADH7
cancer metabolism search in PubMed: ADH7
UCL Cancer Institute: ADH7
Assigned class in ccmGDBC

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Phenotypic Information for ADH7(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ADH7
Familial Cancer Database: ADH7
* 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_GLYCOLYSIS_GLUCONEOGENESIS
KEGG_FATTY_ACID_METABOLISM
KEGG_TYROSINE_METABOLISM
KEGG_RETINOL_METABOLISM
KEGG_METABOLISM_OF_XENOBIOTICS_BY_CYTOCHROME_P450
KEGG_DRUG_METABOLISM_CYTOCHROME_P450

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: ADH7
MedGen: ADH7 (Human Medical Genetics with Condition)
ClinVar: ADH7
PhenotypeMGI: ADH7 (International Mouse Phenotyping Consortium)
PhenomicDB: ADH7

Mutations for ADH7
* 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 ADH7 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=39)
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
chr4:100340263-100340263p.S293T2
chr4:100349726-100349726p.K73M2
chr4:100349034-100349034p.E166K2
chr4:100349263-100349263p.N122D2
chr4:100349053-100349053p.T159T2
chr4:100349278-100349278p.R117C2
chr4:100348964-100348964p.S189F2
chr4:100349074-100349074p.F152F2
chr4:100341923-100341923p.F210L2
chr4:100350697-100350697p.R50C2

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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=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample 3 92 1    51   15322
# mutation 3 82 1    61   16323
nonsynonymous SNV 3 51 1    41   11323
synonymous SNV   31      2    5   
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
chr4:100341923p.S189F,ADH72
chr4:100349074p.R50C,ADH72
chr4:100348964p.F210L,ADH72
chr4:100350697p.F152F,ADH72
chr4:100349108p.R141K,ADH72
chr4:100356224p.D316N,ADH71
chr4:100349017p.G191E,ADH71
chr4:100340194p.S127S,ADH71
chr4:100349246p.P307S,ADH71
chr4:100341927p.R117C,ADH71

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 ADH7 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 ADH7

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

ADH7,AKR1B10,AKR1C1,ALDH3A1,C12orf54,C1orf110,CYP4F11,
CYP4F3,FBP2,FOXE1,GBP6,IL36A,NAPSA,SFTPA1,
SFTPA2,SFTPB,TMPRSS11B,TMPRSS11BNL,TMPRSS11D,TMPRSS11F,UPK1B
ADH7,AKR1B10,ALDH3A1,CAPNS2,CYP4F3,GJB6,KRT13,
KRT4,KRT6A,KRT78,KRTDAP,SERPINB11,SOX2,SPRR1A,
SPRR1B,SPRR2A,SPRR2D,SPRR3,TMPRSS11D,UGT1A7,UPK1B

ADH7,APLN,BTBD18,C15orf32,C15orf54,C5orf46,SUGCT,
CCDC102B,CHRNA9,COL23A1,CXADRP3,CYTL1,GRIK3,MMP9,
NETO1,PPEF1,RFX8,RHO,SLC6A1,SYCE1,ZP4
ADH7,AMTN,C6orf15,CT83,PRR32,DUSP13,GAGE12J,
KRT13,KRT34,KRT6A,KRT6C,KRTAP4-7,LCE1F,LCE4A,
SERPINB13,SERPINB3,SERPINB4,SSX1,SSX2,TMPRSS11A,UGT2A1
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 ADH7
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
DB00157alcohol dehydrogenase 7 (class IV), mu or sigma polypeptideapproved; nutraceuticalNADH
DB01907alcohol dehydrogenase 7 (class IV), mu or sigma polypeptideexperimentalNicotinamide-Adenine-Dinucleotide
DB00898alcohol dehydrogenase 7 (class IV), mu or sigma polypeptideapprovedEthanol


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Cross referenced IDs for ADH7
* 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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