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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for ALDH1A2 |
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Phenotypic Information for ALDH1A2(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: ALDH1A2 |
Familial Cancer Database: ALDH1A2 |
* 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/ |
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KEGG_RETINOL_METABOLISM |
Mutations for ALDH1A2 |
* 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 ALDH1A2 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 |
BG231914 | PNPO | 14 | 163 | 17 | 46025502 | 46025651 | ALDH1A2 | 161 | 457 | 15 | 58245801 | 58246097 | |
BM677567 | ALDH1A2 | 18 | 204 | 15 | 58245627 | 58245813 | IGFBP5 | 199 | 634 | 2 | 217541019 | 217541455 |
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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 |   |   |   |   |   |   |   | 1 |   |   |   |   |   | 1 |   |   | |||
GAIN (# sample) | 1 |   |   |   |   |   |   |   | 1 |   |   |   |   |   | 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=57) | (# total SNVs=16) |
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(# total SNVs=0) | (# total SNVs=0) |
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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 |
chr15:58302898-58302898 | p.R148* | 3 |
chr15:58256130-58256130 | p.R347C | 2 |
chr15:58287308-58287308 | p.E175K | 2 |
chr15:58256142-58256142 | p.R343W | 2 |
chr15:58287313-58287313 | p.R173I | 2 |
chr15:58285176-58285176 | p.L217L | 2 |
chr15:58253334-58253334 | p.? | 2 |
chr15:58357797-58357797 | p.A18T | 2 |
chr15:58256196-58256196 | p.R325C | 2 |
chr15:58306099-58306099 | p.D107G | 2 |
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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 | 2 | 1 | 1 | 18 | 3 |   | 4 |   | 1 |   |   | 8 | 5 |   |   | 1 | 15 | 9 |   | 8 |
# mutation | 2 | 1 | 1 | 17 | 3 |   | 4 |   | 1 |   |   | 9 | 4 |   |   | 1 | 15 | 11 |   | 12 |
nonsynonymous SNV | 1 | 1 | 1 | 15 | 2 |   | 4 |   | 1 |   |   | 8 | 4 |   |   | 1 | 10 | 7 |   | 9 |
synonymous SNV | 1 |   |   | 2 | 1 |   |   |   |   |   |   | 1 |   |   |   |   | 5 | 4 |   | 3 |
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 |
chr15:58357797 | p.A18T,ALDH1A2 | 2 |
chr15:58306099 | p.V47I,ALDH1A2 | 2 |
chr15:58247467 | p.R251C,ALDH1A2 | 2 |
chr15:58285260 | p.M399I,ALDH1A2 | 2 |
chr15:58302913 | p.P93P,ALDH1A2 | 2 |
chr15:58256130 | p.H24R,ALDH1A2 | 2 |
chr15:58357778 | p.D11G,ALDH1A2 | 2 |
chr15:58287308 | p.E79K,ALDH1A2 | 2 |
chr15:58256142 | p.R8H,ALDH1A2 | 1 |
chr15:58302943 | p.A21V,ALDH1A2 | 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 ALDH1A2 |
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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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ALDH1A2,FAM227B,CDAN1,COPS2,CYP2C9,DTWD1,FLJ10038, GALK2,HAUS2,HK1,LRRC57,ICE2,PIGB,BLOC1S6, PRTG,RSL24D1,SPANXD,SPATA5L1,SUPV3L1,TCTN3,VPS26A | ALDH1A2,ANO4,BSX,CDK15,COL1A2,COL3A1,COL5A2, COL6A6,DBX2,DCHS1,KCNA1,MAP1A,NGF,NID1, NPC1L1,OR5M8,THBS2,TNFRSF8,TRPC5,WBSCR17,WNT2 | ||||
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ALDH1A2,BOLL,CHRM4,CRISP1,CYMP,EPHA8,FGF5, HTR1B,ITLN1,KDELR3,MAGEB10,PCDHAC1,POTEC,PRSS41, RBP3,SEPT12,SLC2A10,SPINK4,ST8SIA2,TBC1D2,ZNF488 | ALDH1A2,ARMC4,CCDC144NL,CD300LG,CDH3,CHRDL2,CST11, DOC2B,FAM169B,FAP,FCN3,MARCO,P4HA3,SBSN, SPINK4,TIMP1,TNIP3, |
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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 ALDH1A2 |
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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 | aldehyde dehydrogenase 1 family, member A2 | approved; nutraceutical | NADH | ![]() | ![]() |
DB00162 | aldehyde dehydrogenase 1 family, member A2 | approved; nutraceutical | Vitamin A | ![]() | ![]() |
DB00755 | aldehyde dehydrogenase 1 family, member A2 | approved; nutraceutical; investigational | Tretinoin | ![]() | ![]() |
DB01907 | aldehyde dehydrogenase 1 family, member A2 | experimental | Nicotinamide-Adenine-Dinucleotide | ![]() | ![]() |
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Cross referenced IDs for ALDH1A2 |
* 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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