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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for MGST1 |
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Phenotypic Information for MGST1(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: MGST1 |
Familial Cancer Database: MGST1 |
* 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_GLUTATHIONE_METABOLISM KEGG_METABOLISM_OF_XENOBIOTICS_BY_CYTOCHROME_P450 KEGG_DRUG_METABOLISM_CYTOCHROME_P450 |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: MGST1 |
MedGen: MGST1 (Human Medical Genetics with Condition) | |
ClinVar: MGST1 | |
Phenotype | MGI: MGST1 (International Mouse Phenotyping Consortium) |
PhenomicDB: MGST1 |
Mutations for MGST1 |
* 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 MGST1 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 |
BM983802 | MGST1 | 16 | 296 | 12 | 16517058 | 16517338 | MGST1 | 290 | 517 | 12 | 16516731 | 16516958 | |
AI910757 | MGST1 | 1 | 270 | 12 | 16517070 | 16517339 | CRYZ | 263 | 369 | 1 | 75172662 | 75172876 | |
DB298359 | MGST1 | 1 | 110 | 12 | 16517237 | 16517343 | SRGAP2 | 93 | 578 | 1 | 206634771 | 206635257 |
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=16) | (# total SNVs=1) |
(# total SNVs=0) | (# 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 |
chr12:16510603-16510603 | p.R64Q | 4 |
chr12:16516725-16516725 | p.? | 2 |
chr12:16516847-16516847 | p.R114W | 1 |
chr12:16510612-16510612 | p.D67G | 1 |
chr12:16516861-16516861 | p.T118T | 1 |
chr12:16510620-16510620 | p.E70Q | 1 |
chr12:16516923-16516923 | p.G139V | 1 |
chr12:16510630-16510630 | p.R73H | 1 |
chr12:16516939-16516939 | p.M144I | 1 |
chr12:16516748-16516748 | p.E81* | 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 |   |   |   | 2 |   |   | 1 |   |   |   |   | 2 | 2 | 1 |   |   | 1 | 3 |   | 4 |
# mutation |   |   |   | 2 |   |   | 1 |   |   |   |   | 2 | 2 | 1 |   |   | 1 | 3 |   | 3 |
nonsynonymous SNV |   |   |   | 2 |   |   | 1 |   |   |   |   | 1 | 2 | 1 |   |   | 1 | 3 |   | 3 |
synonymous SNV |   |   |   |   |   |   |   |   |   |   |   | 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 |
chr12:16510603 | p.R64Q,MGST1 | 3 |
chr12:16510612 | p.L95F,MGST1 | 1 |
chr12:16510630 | p.P98P,MGST1 | 1 |
chr12:16516792 | p.A103V,MGST1 | 1 |
chr12:16516801 | p.A113V,MGST1 | 1 |
chr12:16516815 | p.M144I,MGST1 | 1 |
chr12:16507203 | p.Y154C,MGST1 | 1 |
chr12:16516845 | p.Q6L,MGST1 | 1 |
chr12:16507209 | p.M8T,MGST1 | 1 |
chr12:16516939 | p.M8I,MGST1 | 1 |
Other DBs for Point Mutations |
Copy Number for MGST1 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 MGST1 |
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 |
CMAS,DBI,DDX47,DERA,ERGIC2,G6PD,GGCT, IDH1,KMO,LPCAT3,MAGOHB,MGST1,MPHOSPH6,NDUFA9, PERP,PEX13,RAB1A,SRD5A1,SRD5A3,STRAP,TPI1 | ACO1,ASPH,FAM213A,PQLC2L,CAV1,CAV2,HRASLS5, ITGB1BP1,MGST1,MMD,PALM2-AKAP2,PGRMC2,PLIN1,PLOD2, PRKAR2B,PYGL,RTN3,SORBS1,TK2,TSPAN3,VKORC1L1 | ||||
ATP5C1,ATP5G3,ATP5J2,COX5A,DERA,ETFA,HADH, HINT1,MGST1,MRPL51,NDUFA12,NDUFA9,NUP37,PHB2, PHF5A,PPA2,TPI1,TWF1,UBE2N,UQCRQ,YARS2 | ADH1C,ARFIP1,ARL6IP1,CAAP1,MICU2,LHFPL3,MGST1, MIPEP,MRPS30,MTCH2,MYCBP,NUDT15,PDHX,PIGF, RTN4IP1,SCO1,SLC30A9,STEAP1,TMED5,TMX1,UQCRFS1 |
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 MGST1 |
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 |
DB00143 | microsomal glutathione S-transferase 1 | approved; nutraceutical | Glutathione |
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Cross referenced IDs for MGST1 |
* 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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