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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for GGT6 |
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Phenotypic Information for GGT6(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: GGT6 |
Familial Cancer Database: GGT6 |
* 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_TAURINE_AND_HYPOTAURINE_METABOLISM KEGG_SELENOAMINO_ACID_METABOLISM KEGG_GLUTATHIONE_METABOLISM KEGG_ARACHIDONIC_ACID_METABOLISM |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: GGT6 |
MedGen: GGT6 (Human Medical Genetics with Condition) | |
ClinVar: GGT6 | |
Phenotype | MGI: GGT6 (International Mouse Phenotyping Consortium) |
PhenomicDB: GGT6 |
Mutations for GGT6 |
* 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 GGT6 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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There's no copy number variation information in COSMIC data for this gene. |
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Stat. for Non-Synonymous SNVs (# total SNVs=19) | (# total SNVs=7) |
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(# total SNVs=0) | (# 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 |
chr17:4463699-4463699 | p.R40W | 2 |
chr17:4461748-4461748 | p.P316P | 2 |
chr17:4461366-4461366 | p.E444K | 2 |
chr17:4463786-4463786 | p.Q11* | 2 |
chr17:4462150-4462150 | p.L182L | 2 |
chr17:4462209-4462209 | p.R163S | 1 |
chr17:4461429-4461429 | p.E423K | 1 |
chr17:4463031-4463031 | p.G55G | 1 |
chr17:4461807-4461807 | p.R297C | 1 |
chr17:4462264-4462264 | p.G144G | 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 | 2 |   |   | 3 |   |   |   |   |   |   |   | 3 |   |   |   |   | 7 | 2 |   | 6 |
# mutation | 2 |   |   | 3 |   |   |   |   |   |   |   | 3 |   |   |   |   | 7 | 2 |   | 8 |
nonsynonymous SNV | 2 |   |   | 1 |   |   |   |   |   |   |   | 3 |   |   |   |   | 6 | 1 |   | 7 |
synonymous SNV |   |   |   | 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 |
chr17:4463042 | p.G52R,GGT6 | 2 |
chr17:4461567 | p.A300A,GGT6 | 1 |
chr17:4462209 | p.S298S,GGT6 | 1 |
chr17:4461605 | p.R297C,GGT6 | 1 |
chr17:4462341 | p.E264K,GGT6 | 1 |
chr17:4461729 | p.S256L,GGT6 | 1 |
chr17:4462916 | p.E253D,GGT6 | 1 |
chr17:4461796 | p.C455C,GGT6 | 1 |
chr17:4462998 | p.G248G,GGT6 | 1 |
chr17:4461331 | p.C455Y,GGT6 | 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 GGT6 |
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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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ACADVL,BNIPL,CCDC64B,CLN3,CRACR2B,EPS8L1,FAM46B, GGT6,GPS2,KIF1C,KRT7,MED11,OAZ3,PHF23, PLD2,RAB25,REEP6,RHBDF1,SPAG7,TRPV1,TSTD1 | AP1M2,ARFIP2,KDF1,CDC42BPG,CRB3,CREB3L4,DDR1, DLG3,ELMO3,ESRP2,FAM83H,GGT6,ILDR1,CAMSAP3, LLGL2,MAPK13,MARK2,NIPSNAP1,PRKCZ,RAB25,SPINT1 |
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ACAA2,ACADS,ACADVL,ATP8B1,LRRC75A,CLDN7,COX10, CPT2,GGT6,GPA33,ITM2C,LDHD,PAFAH2,PIGR, RILP,RPS6KA1,SLC44A4,TMEM102,TNFSF13,TNK1,TSPAN1 | ACSS2,CAPN1,CAPN5,CDCP1,CORO1B,GBA,GGT6, HIST1H3H,LLGL2,LSR,MARK2,MYD88,PEX26,PRSS8, RALY,ST14,TJP3,TMEM54,TPRN,WWP2,ZDHHC12 |
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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 GGT6 |
There's no related Drug. |
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Cross referenced IDs for GGT6 |
* 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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