Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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Gene Summary

Phenotypic Information (metabolism pathway, cancer, disease, phenome)

Mutations: SVs, CNVs, SNVs

Gene expression: GE, Protein, DEGE, CNV vs GE

Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG

Pharmacological Information: Drug-Gene Network

Cross referenced IDs

Gene Summary for FBXO6
Basic gene info.Gene symbolFBXO6
Gene nameF-box protein 6
SynonymsFBG2|FBS2|FBX6|Fbx6b
CytomapUCSC genome browser: 1p36.22
Genomic locationchr1 :11724149-11734409
Type of geneprotein-coding
RefGenesNM_018438.5,
Ensembl idENSG00000116663
DescriptionF-box only protein 6F-box protein FBG2F-box protein Fbx6F-box protein that recognizes sugar chains 2F-box/G-domain protein 2
Modification date20141207
dbXrefs MIM : 605647
HGNC : HGNC
Ensembl : ENSG00000116663
HPRD : 07291
Vega : OTTHUMG00000002229
ProteinUniProt: Q9NRD1
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_FBXO6
BioGPS: 26270
Gene Expression Atlas: ENSG00000116663
The Human Protein Atlas: ENSG00000116663
PathwayNCI Pathway Interaction Database: FBXO6
KEGG: FBXO6
REACTOME: FBXO6
ConsensusPathDB
Pathway Commons: FBXO6
MetabolismMetaCyc: FBXO6
HUMANCyc: FBXO6
RegulationEnsembl's Regulation: ENSG00000116663
miRBase: chr1 :11,724,149-11,734,409
TargetScan: NM_018438
cisRED: ENSG00000116663
ContextiHOP: FBXO6
cancer metabolism search in PubMed: FBXO6
UCL Cancer Institute: FBXO6
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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Phenotypic Information for FBXO6(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: FBXO6
Familial Cancer Database: FBXO6
* This gene is included in those cancer gene databases.

.

Oncogene 1

Tumor Suppressor gene 2

Cancer Gene Census 3

CancerGenes 4

Network of Cancer Gene 5

Significant driver gene in

Therapeutic Vulnerabilities in Cancer1

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/

check002.gifMetabolic Pathway Description
REACTOME_METABOLISM_OF_PROTEINS

check002.gifOthers
OMIM 605647; gene.
Orphanet
DiseaseKEGG Disease: FBXO6
MedGen: FBXO6 (Human Medical Genetics with Condition)
ClinVar: FBXO6
PhenotypeMGI: 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.

check002.gifStructural Variants in COSMIC: go to COSMIC mutation histogram
There's no structural variation information in COSMIC data for this gene.

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows FBXO6 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BQ181126FBXO642311172845911728478GPR10818691967300666730117

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

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check002.gifCopy 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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check002.gifSNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation

 : Non-synonymous mutation, : Synonymous mutation, Circle size denotes number of samples.
Maximum mutation count=2

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=14)
Stat. for Synonymous SNVs
(# total SNVs=3)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=1)
There's no deleted snv.

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check002.gifTop 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 positionMutation(aa)Unique sampleID count
chr1:11728803-11728803p.A30S2
chr1:11728894-11728894p.R60Q2
chr1:11731999-11731999p.S143F1
chr1:11733831-11733831p.E269K1
chr1:11728776-11728776p.L21V1
chr1:11732027-11732027p.G152G1
chr1:11732060-11732060p.P163P1
chr1:11728849-11728849p.R45Q1
chr1:11733336-11733336p.F171S1
chr1:11728882-11728882p.R56H1

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check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample 2 4  1      1  12 4
# mutation 2 4  1      1  12 4
nonsynonymous SNV 1 4         1  12 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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check002.gifTop 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 PositionMutation(aa)Unique sampleID count
chr1:11728803p.A30T2
chr1:11733372p.R56H1
chr1:11733419p.R60P1
chr1:11728882p.L81L1
chr1:11733437p.D123E1
chr1:11728894p.E138K1
chr1:11733741p.S143F1
chr1:11728956p.G152G1
chr1:11733805p.P163P1
chr1:11731405p.F171S1

check002.gifOther DBs for Point Mutations
Point Mutation Table of Ensembl: go to Ensembl variation table
Mutation of cBioPortal: go to cBioPortal's Cross-cancer alteration summary

check002.gifCopy 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

check002.gifGene 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.

check002.gifDifferential 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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check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


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Gene-Gene Network Information
check002.gifCo-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

: Open all plots for all cancer types

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
check002.gifCo-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

: Open all plots for all cancer types

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check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

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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

: Open all cross reference information



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