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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for UGT2A3 |
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Phenotypic Information for UGT2A3(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: UGT2A3 |
Familial Cancer Database: UGT2A3 |
* This gene is included in those cancer gene databases. |
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Oncogene 1 | Significant driver gene in GBM 6, |
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, 6 http://www.sciencedirect.com/science/article/pii/S0092867413012087, 7Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/ |
Metabolic Pathway Description | |
KEGG_ASCORBATE_AND_ALDARATE_METABOLISM KEGG_STARCH_AND_SUCROSE_METABOLISM KEGG_RETINOL_METABOLISM KEGG_PORPHYRIN_AND_CHLOROPHYLL_METABOLISM KEGG_METABOLISM_OF_XENOBIOTICS_BY_CYTOCHROME_P450 KEGG_DRUG_METABOLISM_CYTOCHROME_P450 KEGG_DRUG_METABOLISM_OTHER_ENZYMES |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: UGT2A3 |
MedGen: UGT2A3 (Human Medical Genetics with Condition) | |
ClinVar: UGT2A3 | |
Phenotype | MGI: UGT2A3 (International Mouse Phenotyping Consortium) |
PhenomicDB: UGT2A3 |
Mutations for UGT2A3 |
* 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 |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows UGT2A3 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 |
Other DBs for Structural Variants |
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Copy 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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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=58) | (# total SNVs=15) |
(# total SNVs=2) | (# total SNVs=1) |
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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 |
chr4:69817080-69817080 | p.T133T | 3 |
chr4:69795746-69795746 | p.R457* | 3 |
chr4:69817092-69817092 | p.I129I | 3 |
chr4:69817217-69817217 | p.E88K | 3 |
chr4:69795577-69795577 | p.S513F | 2 |
chr4:69795715-69795715 | p.R467H | 2 |
chr4:69796941-69796941 | p.G339E | 2 |
chr4:69817093-69817093 | p.I129T | 2 |
chr4:69811101-69811101 | p.E263K | 2 |
chr4:69795685-69795685 | p.A477V | 2 |
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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 | 3 |   | 1 | 13 | 5 |   | 4 |   | 5 |   |   | 10 | 7 | 3 |   |   | 19 | 5 |   | 5 |
# mutation | 3 |   | 1 | 12 | 5 |   | 4 |   | 5 |   |   | 12 | 8 | 3 |   |   | 23 | 5 |   | 6 |
nonsynonymous SNV | 3 |   | 1 | 11 | 5 |   | 4 |   | 4 |   |   | 10 | 6 | 3 |   |   | 18 | 3 |   | 5 |
synonymous SNV |   |   |   | 1 |   |   |   |   | 1 |   |   | 2 | 2 |   |   |   | 5 | 2 |   | 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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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 |
chr4:69817092 | p.I129I | 3 |
chr4:69816835 | p.E263Q | 2 |
chr4:69795577 | p.R428T | 2 |
chr4:69795617 | p.S513F | 2 |
chr4:69817093 | p.A500T | 2 |
chr4:69796285 | p.I129T | 2 |
chr4:69811101 | p.S215L | 2 |
chr4:69795685 | p.A477V | 2 |
chr4:69817217 | p.E88K | 2 |
chr4:69796941 | p.G339E | 2 |
Other DBs for Point Mutations |
Copy Number for UGT2A3 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 UGT2A3 |
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 |
APCS,APOA1,APOA2,APOA4,C8A,CATSPER1,CCNE1, F2,FABP1,ITIH1,PABPC1L2B,PLG,SERPINA10,SERPINA7, SLC17A2,SLC2A2,SLITRK4,SPP2,SULT2A1,TM4SF5,UGT2A3 | AGXT2,CCR6,CGB2,DEFB125,GH2,HDGFL1,HELT, HOXC12,LHX9,MAGEB1,OR10J5,OR2M3,PSG8,RAET1L, SLC17A3,SLC6A19,TCAM1P,TP53TG5,TPI1P3,UGT2A3,WFDC8 |
CHRNA2,DLX6AS,GDF10,GPR83,GPR98,KCTD16,KNG1, KRT36,KRT37,KRT38,LCN10,MYL3,NAV2,NIPAL4, OR10G9,OR10S1,TGM5,TMPRSS6,UGT2A3,UGT2B7,UNC13C | ABHD14B,ACBD5,ADD3,AMT,ARHGAP18,AUH,BPHL, MPC2,SMIM19,CENPV,CMBL,CYP2R1,ECI1,FGGY, GLOD4,GPR160,PGAP2,RARS2,SUCLG1,TOM1L1,UGT2A3 |
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 UGT2A3 |
There's no related Drug. |
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Cross referenced IDs for UGT2A3 |
* 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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