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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for FPGT |
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Phenotypic Information for FPGT(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: FPGT |
Familial Cancer Database: FPGT |
* This gene is included in those cancer gene databases. |
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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_FRUCTOSE_AND_MANNOSE_METABOLISM KEGG_AMINO_SUGAR_AND_NUCLEOTIDE_SUGAR_METABOLISM |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: FPGT |
MedGen: FPGT (Human Medical Genetics with Condition) | |
ClinVar: FPGT | |
Phenotype | MGI: FPGT (International Mouse Phenotyping Consortium) |
PhenomicDB: FPGT |
Mutations for FPGT |
* 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 FPGT 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 |
NM6777215 | FPGT | 1 | 150 | 1 | 74198212 | 74208702 | TNNI3K | 151 | 3328 | 1 | 74235387 | 74544432 | |
NM6777215 | FPGT | 1 | 149 | 1 | 74198212 | 74208702 | TNNI3K | 150 | 2782 | 1 | 74235387 | 74544432 |
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=56) | (# total SNVs=17) |
(# total SNVs=6) | (# 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 |
chr1:74670466-74670466 | p.P245P | 2 |
chr1:74671136-74671136 | p.M469V | 2 |
chr1:74670509-74670509 | p.D260N | 2 |
chr1:74665494-74665494 | p.D77Y | 2 |
chr1:74665362-74665362 | p.R33G | 2 |
chr1:74670342-74670342 | p.G204E | 2 |
chr1:74671308-74671308 | p.R526H | 2 |
chr1:74667006-74667006 | p.N85N | 2 |
chr1:74665364-74665364 | p.R33R | 2 |
chr1:74667047-74667047 | p.L99P | 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 | 6 |   |   | 9 |   |   | 3 |   | 2 |   |   | 4 | 7 |   |   |   | 3 | 3 |   | 7 |
# mutation | 6 |   |   | 9 |   |   | 3 |   | 2 |   |   | 4 | 7 |   |   |   | 3 | 3 |   | 7 |
nonsynonymous SNV | 4 |   |   | 8 |   |   | 3 |   | 2 |   |   | 2 | 4 |   |   |   | 2 | 2 |   | 5 |
synonymous SNV | 2 |   |   | 1 |   |   |   |   |   |   |   | 2 | 3 |   |   |   | 1 | 1 |   | 2 |
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 |
chr1:74671407 | p.Y572C,FPGT | 2 |
chr1:74670818 | p.M171L | 1 |
chr1:74670196 | p.V336V | 1 |
chr1:74671207 | p.N529D,FPGT | 1 |
chr1:74670360 | p.V177V | 1 |
chr1:74670826 | p.I350M | 1 |
chr1:74670203 | p.A538V,FPGT | 1 |
chr1:74671277 | p.T178T | 1 |
chr1:74670412 | p.L353F | 1 |
chr1:74670892 | p.R539H,FPGT | 1 |
Other DBs for Point Mutations |
Copy Number for FPGT 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 FPGT |
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 |
ANKRD13C,CHM,DNAJC16,FAM73A,FPGT,IPP,EFCAB14, MIER1,NUDT12,PJA2,PKN2,POLK,SPATA6,SPG11, STAM2,TMED7,TYW3,UEVLD,USP33,ZMYM6,ZNF484 | ACAP2,C5orf24,C5orf51,CD46,CREB1,DPY19L4,FCHO2, FMR1,FPGT,G2E3,GABPA,HERC4,PAPD4,PDCD6IP, PRKAA1,RASA1,SLC30A5,STAM2,TM9SF3,TROVE2,WDR36 |
ABCD3,ALG6,ATP5F1,BCAS2,CAPZA1,TRMT13,FPGT, GNG12,GTF2B,IPP,LRRC40,MIER1,OMA1,PIGK, RPAP2,SCP2,SEP15,SNX7,TM2D1,TMED5,USP33 | ATG5,TMEM251,C18orf32,C3orf38,FAM96A,FPGT,HINT1, IRAK4,KRCC1,MRPS36,NXT2,PDCD10,PPA2,PPCS, RFWD2,SDHD,SNX6,TMBIM4,TMEM68,TWF1,ZCCHC10 |
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 FPGT |
There's no related Drug. |
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Cross referenced IDs for FPGT |
* 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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