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 FBXL5
Basic gene info.Gene symbolFBXL5
Gene nameF-box and leucine-rich repeat protein 5
SynonymsFBL4|FBL5|FLR1
CytomapUCSC genome browser: 4p15.32
Genomic locationchr4 :15606006-15657035
Type of geneprotein-coding
RefGenesNM_001193534.1,
NM_001193535.1,NM_012161.3,NR_036464.1,
Ensembl idENSG00000118564
DescriptionF-box protein FBL4/FBL5F-box protein FBL5F-box/LRR-repeat protein 5p45SKP2-like protein
Modification date20141207
dbXrefs MIM : 605655
HGNC : HGNC
Ensembl : ENSG00000118564
HPRD : 05739
Vega : OTTHUMG00000097097
ProteinUniProt: Q9UKA1
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_FBXL5
BioGPS: 26234
Gene Expression Atlas: ENSG00000118564
The Human Protein Atlas: ENSG00000118564
PathwayNCI Pathway Interaction Database: FBXL5
KEGG: FBXL5
REACTOME: FBXL5
ConsensusPathDB
Pathway Commons: FBXL5
MetabolismMetaCyc: FBXL5
HUMANCyc: FBXL5
RegulationEnsembl's Regulation: ENSG00000118564
miRBase: chr4 :15,606,006-15,657,035
TargetScan: NM_001193534
cisRED: ENSG00000118564
ContextiHOP: FBXL5
cancer metabolism search in PubMed: FBXL5
UCL Cancer Institute: FBXL5
Assigned class in ccmGDBB - This gene belongs to cancer gene.

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Phenotypic Information for FBXL5(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: FBXL5
Familial Cancer Database: FBXL5
* 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 605655; gene.
605655; gene.
Orphanet
DiseaseKEGG Disease: FBXL5
MedGen: FBXL5 (Human Medical Genetics with Condition)
ClinVar: FBXL5
PhenotypeMGI: FBXL5 (International Mouse Phenotyping Consortium)
PhenomicDB: FBXL5

Mutations for FBXL5
* 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 FBXL5 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
T18548PXT1395863640185136401870FBXL54814941560681015606911

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
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample      1          
GAIN (# sample)                 
LOSS (# sample)      1          
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)

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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=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=48)
Stat. for Synonymous SNVs
(# total SNVs=8)
Stat. for Deletions
(# total SNVs=2)
Stat. for Insertions
(# total SNVs=0)
There's no inserted 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
chr4:15627285-15627285p.W480C3
chr4:15626978-15626978p.D583Y2
chr4:15632339-15632339p.E281A2
chr4:15626989-15626989p.P579L2
chr4:15627406-15627406p.S440C2
chr4:15627042-15627042p.S561S2
chr4:15627436-15627436p.A430V2
chr4:15627206-15627206p.M507V2
chr4:15626935-15626935p.G597V1
chr4:15629584-15629584p.H322R1

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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
# sample14 42  1 1 21   35 11
# mutation14 42  1 1 31   35 12
nonsynonymous SNV 3 32  1 1 31   35 9
synonymous SNV11 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])

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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
chr4:15626978p.D582Y,FBXL52
chr4:15627107p.Q161E,FBXL51
chr4:15627568p.E484A,FBXL51
chr4:15607351p.C159C,FBXL51
chr4:15640266p.W479C,FBXL51
chr4:15627133p.I150V,FBXL51
chr4:15629638p.E690K,FBXL51
chr4:15607391p.P476H,FBXL51
chr4:15640297p.M139I,FBXL51
chr4:15627231p.Q676H,FBXL51

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 FBXL5 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 FBXL5

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

CASC4,CPEB2,CSNK1G3,DCTN4,FBXL17,FBXL5,GIN1,
KIAA0232,LRBA,NDFIP1,NUDT12,PJA2,PLA2G12A,POLK,
SCAMP1,SEPSECS,TADA2B,TAPT1,TBC1D9,TMED7,WDR19
AZI2,BCAP29,PQLC2L,CAV2,COL4A3BP,DDHD2,EIF4E3,
FBXL5,GBE1,GPR180,OSBPL1A,PCYOX1,PEX19,PPP2R5A,
PPP3R1,PPP6C,PRKAR2B,RTN3,SLC25A16,UBA2,VAMP3

ARL6IP5,BBS4,CGRRF1,COPS4,EID1,FBXL5,FCHO2,
GPR34,HCFC2,LEPROT,LY96,MIER1,RAB8B,RAP1A,
RAP1B,RNF11,SGCB,SNX6,STX12,TBC1D19,TINF2
ARMC1,BTF3L4,FAM204A,C11orf58,BRK1,COPS2,DNAJC8,
SMIM11,FBXL5,FUNDC2,MANBAL,PCGF6,PCNP,PFDN1,
RWDD1,SNAPIN,SNX3,TCEAL8,UBE2Q2,ZCRB1,ZNF32
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 FBXL5


There's no related Drug.
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Cross referenced IDs for FBXL5
* 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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