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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for ALDH9A1 |
Basic gene info. | Gene symbol | ALDH9A1 |
Gene name | aldehyde dehydrogenase 9 family, member A1 | |
Synonyms | ALDH4|ALDH7|ALDH9|E3|TMABADH | |
Cytomap | UCSC genome browser: 1q23.1 | |
Genomic location | chr1 :165631448-165667900 | |
Type of gene | protein-coding | |
RefGenes | NM_000696.3, | |
Ensembl id | ENSG00000143149 | |
Description | 4-trimethylaminobutyraldehyde dehydrogenaseR-aminobutyraldehyde dehydrogenasealdehyde dehydrogenase (NAD+)aldehyde dehydrogenase E3 isozymealdehyde dehydrogenase family 9 member A1gamma-aminobutyraldehyde dehydrogenase | |
Modification date | 20141207 | |
dbXrefs | MIM : 602733 | |
HGNC : HGNC | ||
Ensembl : ENSG00000143149 | ||
HPRD : 04109 | ||
Vega : OTTHUMG00000034677 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_ALDH9A1 | |
BioGPS: 223 | ||
Gene Expression Atlas: ENSG00000143149 | ||
The Human Protein Atlas: ENSG00000143149 | ||
Pathway | NCI Pathway Interaction Database: ALDH9A1 | |
KEGG: ALDH9A1 | ||
REACTOME: ALDH9A1 | ||
ConsensusPathDB | ||
Pathway Commons: ALDH9A1 | ||
Metabolism | MetaCyc: ALDH9A1 | |
HUMANCyc: ALDH9A1 | ||
Regulation | Ensembl's Regulation: ENSG00000143149 | |
miRBase: chr1 :165,631,448-165,667,900 | ||
TargetScan: NM_000696 | ||
cisRED: ENSG00000143149 | ||
Context | iHOP: ALDH9A1 | |
cancer metabolism search in PubMed: ALDH9A1 | ||
UCL Cancer Institute: ALDH9A1 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for ALDH9A1(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: ALDH9A1 |
Familial Cancer Database: ALDH9A1 |
* This gene is included in those cancer gene databases. |
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/ |
Metabolic Pathway Description | |
KEGG_GLYCOLYSIS_GLUCONEOGENESIS KEGG_ASCORBATE_AND_ALDARATE_METABOLISM KEGG_FATTY_ACID_METABOLISM KEGG_ARGININE_AND_PROLINE_METABOLISM KEGG_HISTIDINE_METABOLISM KEGG_TRYPTOPHAN_METABOLISM KEGG_BETA_ALANINE_METABOLISM KEGG_GLYCEROLIPID_METABOLISM KEGG_PYRUVATE_METABOLISM KEGG_PROPANOATE_METABOLISM KEGG_BUTANOATE_METABOLISM REACTOME_METABOLISM_OF_AMINO_ACIDS_AND_DERIVATIVES |
Mutations for ALDH9A1 |
* 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. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
- Statistics for Tissue and Mutation type | Top |
- 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'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
breast | ALDH9A1 | chr1 | 165665141 | 165665141 | LOC440700 | chr1 | 165676691 | 165676691 |
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) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows ALDH9A1 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 |
DB232654 | LOC100507412 | 1 | 75 | ? | 109138 | 109212 | ALDH9A1 | 76 | 538 | 1 | 165652216 | 165667799 | |
BP391559 | ALDH9A1 | 16 | 304 | 1 | 165636545 | 165638556 | PSAP | 305 | 500 | 10 | 73576307 | 73576501 |
Other DBs for Structural Variants |
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Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample | 2 |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   | |||
GAIN (# sample) | 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) |
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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=26) | (# total SNVs=12) |
(# total SNVs=1) | (# total SNVs=0) |
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Top 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 position | Mutation(aa) | Unique sampleID count |
chr1:165652307-165652307 | p.N99S | 3 |
chr1:165649774-165649774 | p.P223S | 2 |
chr1:165652225-165652225 | p.S126S | 2 |
chr1:165664526-165664526 | p.R73H | 2 |
chr1:165638635-165638635 | p.F304C | 1 |
chr1:165667703-165667703 | p.V7V | 1 |
chr1:165636578-165636578 | p.T415T | 1 |
chr1:165638645-165638645 | p.L301I | 1 |
chr1:165632326-165632326 | p.T482T | 1 |
chr1:165649797-165649797 | p.T215I | 1 |
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SNV Counts per Each Loci in TCGA data |
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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 | 2 |   | 5 |   |   | 2 |   | 2 |   |   | 4 | 3 |   |   |   | 5 | 3 |   | 7 |
# mutation | 1 | 2 |   | 5 |   |   | 2 |   | 2 |   |   | 5 | 3 |   |   |   | 4 | 4 |   | 7 |
nonsynonymous SNV | 1 | 1 |   | 3 |   |   | 2 |   | 1 |   |   | 3 | 2 |   |   |   | 2 | 3 |   | 3 |
synonymous SNV |   | 1 |   | 2 |   |   |   |   | 1 |   |   | 2 | 1 |   |   |   | 2 | 1 |   | 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]) |
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Top 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 Position | Mutation(aa) | Unique sampleID count |
chr1:165652225 | p.S150S | 2 |
chr1:165636673 | p.L325F | 1 |
chr1:165649797 | p.G146G | 1 |
chr1:165664528 | p.G315D | 1 |
chr1:165638193 | p.S126S | 1 |
chr1:165649814 | p.N314N | 1 |
chr1:165664630 | p.A116V | 1 |
chr1:165638560 | p.G280E | 1 |
chr1:165649900 | p.E96D | 1 |
chr1:165632326 | p.L279L | 1 |
Other DBs for Point Mutations |
Copy Number for ALDH9A1 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 ALDH9A1 |
Gene 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. |
Differential 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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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-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 |
ALDH9A1,ARV1,ATP1A1,BLZF1,CDC73,GGPS1,MANSC1, NCSTN,NLRP11,PEX11B,PRUNE,RFWD2,RIT1,SCYL3, STX6,TADA1,TIPRL,TMCO1,TROVE2,UAP1,YY1AP1 | ABCD2,ACO1,ACSL1,ADRBK2,ALDH9A1,GPAM,GYG2, HEPACAM,LPL,SLC25A51,MARC1,MARC2,MTHFD1,OXCT1, PDE3B,PEX19,PTPLB,RTN3,SIK2,TSPAN3,YBX2 | ||||
ALDH9A1,CDC73,COG2,ENSA,FH,GOLPH3L,IARS2, ILF2,NDUFS2,NUP133,PEX11B,PRUNE,RAB4A,SDHC, SRP9,TADA1,TATDN3,TFB2M,TIPRL,TMCO1,TSNAX | ADD3,ALDH9A1,ARHGAP18,BDH2,BPHL,DDC,DEGS2, FGGY,GLOD4,GPR160,LOC201651,NT5DC1,PCBP2,PEBP1, PGAP2,PLIN2,RNF141,SLC16A10,TIGD2,UGT2A3,VPS35 |
Co-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 |
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Interacting Genes (from Pathway Commons) |
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Pharmacological Information for ALDH9A1 |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB00157 | aldehyde dehydrogenase 9 family, member A1 | approved; nutraceutical | NADH | ||
DB01907 | aldehyde dehydrogenase 9 family, member A1 | experimental | Nicotinamide-Adenine-Dinucleotide | ||
DB00145 | aldehyde dehydrogenase 9 family, member A1 | approved; nutraceutical | Glycine |
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Cross referenced IDs for ALDH9A1 |
* 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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