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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for ADH4 |
Basic gene info. | Gene symbol | ADH4 |
Gene name | alcohol dehydrogenase 4 (class II), pi polypeptide | |
Synonyms | ADH-2|HEL-S-4 | |
Cytomap | UCSC genome browser: 4q22 | |
Genomic location | chr4 :100044832-100065449 | |
Type of gene | protein-coding | |
RefGenes | NM_000670.3, | |
Ensembl id | ENSG00000198099 | |
Description | alcohol dehydrogenase 4alcohol dehydrogenase class II pi chainaldehyde reductaseepididymis secretory protein Li 4 | |
Modification date | 20141207 | |
dbXrefs | MIM : 103740 | |
HGNC : HGNC | ||
Ensembl : ENSG00000198099 | ||
HPRD : 00068 | ||
Vega : OTTHUMG00000161227 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_ADH4 | |
BioGPS: 127 | ||
Gene Expression Atlas: ENSG00000198099 | ||
The Human Protein Atlas: ENSG00000198099 | ||
Pathway | NCI Pathway Interaction Database: ADH4 | |
KEGG: ADH4 | ||
REACTOME: ADH4 | ||
ConsensusPathDB | ||
Pathway Commons: ADH4 | ||
Metabolism | MetaCyc: ADH4 | |
HUMANCyc: ADH4 | ||
Regulation | Ensembl's Regulation: ENSG00000198099 | |
miRBase: chr4 :100,044,832-100,065,449 | ||
TargetScan: NM_000670 | ||
cisRED: ENSG00000198099 | ||
Context | iHOP: ADH4 | |
cancer metabolism search in PubMed: ADH4 | ||
UCL Cancer Institute: ADH4 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for ADH4(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: ADH4 |
Familial Cancer Database: ADH4 |
* This gene is included in those cancer gene databases. |
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Oncogene 1 | Significant driver gene in |
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/ |
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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 |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: ADH4 |
MedGen: ADH4 (Human Medical Genetics with Condition) | |
ClinVar: ADH4 | |
Phenotype | MGI: ADH4 (International Mouse Phenotyping Consortium) |
PhenomicDB: ADH4 |
Mutations for ADH4 |
* 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. |
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There's no structural variation information in COSMIC data for this gene. |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows ADH4 related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
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Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample |   | 1 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | |||
GAIN (# sample) |   | 1 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | |||
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) |
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Stat. for Non-Synonymous SNVs (# total SNVs=27) | (# total SNVs=3) |
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(# total SNVs=1) | (# total SNVs=1) |
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* 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 position | Mutation(aa) | Unique sampleID count |
chr4:100060214-100060214 | p.I116I | 2 |
chr4:100047784-100047784 | p.K360R | 2 |
chr4:100063841-100063841 | p.V37I | 2 |
chr4:100057780-100057780 | p.G140E | 2 |
chr4:100048414-100048414 | p.I309V | 1 |
chr4:100062801-100062802 | p.A51E | 1 |
chr4:100052879-100052879 | p.G207R | 1 |
chr4:100065369-100065369 | p.G2V | 1 |
chr4:100047780-100047780 | p.I361I | 1 |
chr4:100048473-100048474 | p.T289fs*16 | 1 |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample | 1 |   | 1 | 2 |   |   | 4 |   |   |   |   | 6 | 3 | 1 |   | 2 | 12 | 4 | 1 | 2 |
# mutation | 1 |   | 1 | 2 |   |   | 4 |   |   |   |   | 6 | 3 | 1 |   | 2 | 11 | 4 | 1 | 3 |
nonsynonymous SNV |   |   | 1 | 2 |   |   | 3 |   |   |   |   | 4 | 3 | 1 |   | 1 | 10 | 3 | 1 | 3 |
synonymous SNV | 1 |   |   |   |   |   | 1 |   |   |   |   | 2 |   |   |   | 1 | 1 | 1 |   |   |
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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* 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 Position | Mutation(aa) | Unique sampleID count |
chr4:100057780 | p.G140E | 2 |
chr4:100052703 | p.L351L | 1 |
chr4:100057789 | p.G187G | 1 |
chr4:100047780 | p.K20N | 1 |
chr4:100063887 | p.D349V | 1 |
chr4:100052734 | p.R174K | 1 |
chr4:100062705 | p.A15T | 1 |
chr4:100047812 | p.K345I | 1 |
chr4:100063890 | p.S150R | 1 |
chr4:100052797 | p.V7F | 1 |
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* 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. |
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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 ADH4 |
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* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
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* 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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* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
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* 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 |
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ADH4,ASPRV1,C1orf68,FGF19,FLG2,KRT1,LCE1A, LCE1B,LCE1C,LCE1D,LCE1E,LCE1F,LCE2B,LCE2C, LCE2D,LCE4A,LCE5A,LCE6A,LOR,PHYHIP,PTGS2 | ADH4,BCHE,CACNG3,CBLN4,CDC20B,EPHA5,GLIS3, GOLGA8G,GRIN3A,KERA,KRT12,KRT20,LSAMP,MAGEC1, OR2T11,OR5M11,OR6C65,OR6C76,OR6N2,TTTY23,MAP3K19 | ||||
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ABCC11,ADH4,ADH6,C10orf67,C17orf78,CCL25,ACKR4___CX3CR1, CD70,CDC20B,CDH16,GPD1,GSTM4,LPO,MTTP, PRAP1,RBP2,RBPJL,SERPINA7,SLC28A1,SOAT2,TEKT1 | ADH4,AGMAT,AIMP2,MPC1,CELA3A,DNAJB1,DUSP21, FAM195A,FLAD1,HSD17B8,IAPP,KPNA7,LGALS3,NDUFB9, NMNAT1,NPY1R,NPY5R,PSG1,PSG4,SLC25A33,VCY |
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* 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 |
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Pharmacological Information for ADH4 |
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DB Category | DB Name | DB's ID and Url link |
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* Gene Centered Interaction Network. |
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* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB00157 | alcohol dehydrogenase 4 (class II), pi polypeptide | approved; nutraceutical | NADH | ![]() | ![]() |
DB01907 | alcohol dehydrogenase 4 (class II), pi polypeptide | experimental | Nicotinamide-Adenine-Dinucleotide | ![]() | ![]() |
DB03559 | alcohol dehydrogenase 4 (class II), pi polypeptide | experimental | Cyclohexylformamide | ![]() | ![]() |
DB00898 | alcohol dehydrogenase 4 (class II), pi polypeptide | approved | Ethanol | ![]() | ![]() |
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Cross referenced IDs for ADH4 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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