|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for FBXL3 |
Top |
Phenotypic Information for FBXL3(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: FBXL3 |
Familial Cancer Database: FBXL3 |
* 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 | |
REACTOME_METABOLISM_OF_PROTEINS |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: FBXL3 |
MedGen: FBXL3 (Human Medical Genetics with Condition) | |
ClinVar: FBXL3 | |
Phenotype | MGI: FBXL3 (International Mouse Phenotyping Consortium) |
PhenomicDB: FBXL3 |
Mutations for FBXL3 |
* 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 |
- Statistics for Tissue and Mutation type | Top |
- For Inter-chromosomal Variations |
There's no inter-chromosomal structural variation. |
- For Intra-chromosomal Variations |
* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
haematopoietic_and_lymphoid_tissue | FBXL3 | chr13 | 77579527 | 77579527 | FBXL3 | chr13 | 77579527 | 77579527 |
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows FBXL3 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 |
BG291321 | FBXL3 | 1 | 280 | 13 | 77580631 | 77580911 | IER3IP1 | 275 | 677 | 18 | 44682458 | 44702716 | |
AI739608 | FBXL3 | 1 | 203 | 13 | 77600494 | 77600695 | C20orf27 | 198 | 377 | 20 | 3734200 | 3734379 | |
BF591154 | FBXL3 | 1 | 151 | 13 | 77600494 | 77600644 | C20orf27 | 146 | 347 | 20 | 3734178 | 3734379 |
Other DBs for Structural Variants |
Top |
Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   |   | |||
GAIN (# sample) |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   |   | |||
LOSS (# sample) |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |   |
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract) |
Top |
SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
|
Top |
Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=36) | (# total SNVs=9) |
(# total SNVs=4) | (# total SNVs=1) |
Top |
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 |
chr13:77581683-77581683 | p.L295fs*25 | 6 |
chr13:77592810-77592810 | p.S132S | 2 |
chr13:77595767-77595767 | p.R77* | 2 |
chr13:77581367-77581367 | p.D400E | 2 |
chr13:77589660-77589660 | p.S176L | 2 |
chr13:77595785-77595785 | p.H71Y | 2 |
chr13:77589714-77589714 | p.S158Y | 2 |
chr13:77581638-77581639 | p.T311fs*23 | 1 |
chr13:77595895-77595895 | p.C34S | 1 |
chr13:77581883-77581883 | p.E228E | 1 |
Top |
SNV Counts per Each Loci in TCGA data |
|
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 |   | 1 |   | 7 |   |   | 1 |   | 3 |   |   | 2 | 2 |   |   |   | 2 | 4 |   | 5 |
# mutation |   | 1 |   | 8 |   |   | 1 |   | 3 |   |   | 2 | 2 |   |   |   | 2 | 5 |   | 5 |
nonsynonymous SNV |   | 1 |   | 6 |   |   | 1 |   | 2 |   |   | 2 |   |   |   |   | 1 | 2 |   | 5 |
synonymous SNV |   |   |   | 2 |   |   |   |   | 1 |   |   |   | 2 |   |   |   | 1 | 3 |   |   |
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]) |
Top |
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 |
chr13:77589590 | p.T199T | 2 |
chr13:77595986 | p.P264S | 1 |
chr13:77581627 | p.R56W | 1 |
chr13:77589613 | p.R256H | 1 |
chr13:77581687 | p.C34S | 1 |
chr13:77589622 | p.R251Q | 1 |
chr13:77581760 | p.G4R | 1 |
chr13:77589659 | p.V250A | 1 |
chr13:77581289 | p.S237R | 1 |
chr13:77581777 | p.P426P | 1 |
Other DBs for Point Mutations |
Copy Number for FBXL3 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] |
Top |
Gene Expression for FBXL3 |
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)) |
Top |
CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
Top |
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 |
ABHD13,AKAP11,CREBRF,CLN5,COG6,DIS3,DIXDC1, ELF1,FBXL3,FCHO2,HBP1,GPALPP1,MYCBP2,NDFIP2, NHLRC3,PDS5B,PIBF1,RBM26,SUCLA2,TRIM13,VPS36 | C16orf52,CGGBP1,FAM8A1,FBXL3,FCHO2,FMR1,GABPA, IKZF5,LEMD3,LIN7C,MIER1,PCGF5,PCNP,PRKAA1, RAB33B,RNF38,STAM2,THAP5,TMED7,TROVE2,ZMYND11 |
ABHD13,CLN5,COG6,DIS3,ELF1,FBXL3,FNDC3A, GPALPP1,MBNL2,MED4,N4BP2L2,NDFIP2,PIBF1,RCBTB1, RNF219,TGDS,TM9SF2,UBL3,UFM1,VPS36,WBP4 | ACADM,GINM1,CHMP5,DAZAP2,EAPP,FBXL3,GNG12, GRAMD3,ITCH,LRRC19,NDFIP2,PECR,PPM1A,RIOK3, SRI,STXBP3,TAT,SLC35G1,TMEM50A,TMEM56,VTA1 |
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 |
Top |
Interacting Genes (from Pathway Commons) |
Top |
Pharmacological Information for FBXL3 |
There's no related Drug. |
Top |
Cross referenced IDs for FBXL3 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @ |