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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for FBXO6 |
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Phenotypic Information for FBXO6(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: FBXO6 |
Familial Cancer Database: FBXO6 |
* 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 | |
REACTOME_METABOLISM_OF_PROTEINS |
Others | |
OMIM | 605647; gene. |
Orphanet | |
Disease | KEGG Disease: FBXO6 |
MedGen: FBXO6 (Human Medical Genetics with Condition) | |
ClinVar: FBXO6 | |
Phenotype | MGI: FBXO6 (International Mouse Phenotyping Consortium) |
PhenomicDB: FBXO6 |
Mutations for FBXO6 |
* 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 FBXO6 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 |
BQ181126 | FBXO6 | 4 | 23 | 1 | 11728459 | 11728478 | GPR108 | 18 | 69 | 19 | 6730066 | 6730117 |
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=14) | (# total SNVs=3) |
(# total SNVs=0) | (# 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 |
chr1:11728803-11728803 | p.A30S | 2 |
chr1:11728894-11728894 | p.R60Q | 2 |
chr1:11731358-11731358 | p.D109fs*41 | 1 |
chr1:11733437-11733438 | p.Q206fs*>89 | 1 |
chr1:11731405-11731405 | p.D123E | 1 |
chr1:11733741-11733741 | p.T239A | 1 |
chr1:11731448-11731448 | p.E138K | 1 |
chr1:11733830-11733830 | p.S268S | 1 |
chr1:11731999-11731999 | p.S143F | 1 |
chr1:11733831-11733831 | p.E269K | 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 |   | 4 |   |   | 1 |   |   |   |   |   |   | 1 |   |   | 1 | 2 |   | 4 |
# mutation |   | 2 |   | 4 |   |   | 1 |   |   |   |   |   |   | 1 |   |   | 1 | 2 |   | 4 |
nonsynonymous SNV |   | 1 |   | 4 |   |   |   |   |   |   |   |   |   | 1 |   |   | 1 | 2 |   | 3 |
synonymous SNV |   | 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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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 |
chr1:11728803 | p.A30T | 2 |
chr1:11732027 | p.L81L | 1 |
chr1:11732060 | p.D123E | 1 |
chr1:11733336 | p.E138K | 1 |
chr1:11733372 | p.S143F | 1 |
chr1:11733419 | p.G152G | 1 |
chr1:11728882 | p.P163P | 1 |
chr1:11733437 | p.F171S | 1 |
chr1:11728894 | p.L183H | 1 |
chr1:11733741 | p.E199K | 1 |
Other DBs for Point Mutations |
Copy Number for FBXO6 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 FBXO6 |
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 |
AGTRAP,APOL1,APOL2,APOL3,BATF2,ETV7,FBXO6, HLA-A,HLA-B,HLA-F,IFI30,IL18BP,IRF1,ISG20, LOC400759,PSMB10,PSMB8,PSMB9,PSME2,TAP1,UBE2L6 | ANAPC11,BABAM1,AP5S1,COPS7A,FBXO6,GPS1,HMGCL, LSM10,MAF1,MRPL16,MRPS11,NDUFA13,NDUFB7,NDUFS8, PSEN2,PSMB5,PSMB6,PSMC3,PSMD4,TACO1,WBSCR16 |
APOL2,BATF2,CD74,ETV7,FBXO6,GBP1,HLA-DMA, IFI35,IFIT3,IL15RA,IRF1,ISG15,PARP9,PSMB10, PSMB8,PSMB9,PSME1,PSME2,RARRES3,TAP1,UBE2L6 | APOBEC3G,APOL3,APOL4,CASP1,CCDC109B,CD274,CXCL11, DRAM1,FBXO6,FCGR1A,FCGR1B,FCGR1C,HAPLN3,IDO1, IFIT3,IL15RA,LYPD5,NMI,PDCD1LG2,TNFSF13B,UBE2L6 |
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 FBXO6 |
There's no related Drug. |
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Cross referenced IDs for FBXO6 |
* 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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