Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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 FUK
Basic gene info.Gene symbolFUK
Gene namefucokinase
Synonyms1110046B12Rik
CytomapUCSC genome browser: 16q22.1
Genomic locationchr16 :70488497-70514177
Type of geneprotein-coding
RefGenesNM_145059.2,
Ensembl idENSG00000157353
DescriptionL-fucose kinase
Modification date20141207
dbXrefs MIM : 608675
HGNC : HGNC
Ensembl : ENSG00000157353
HPRD : 16365
Vega : OTTHUMG00000074085
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_FUK
BioGPS: 197258
Gene Expression Atlas: ENSG00000157353
The Human Protein Atlas: ENSG00000157353
PathwayNCI Pathway Interaction Database: FUK
KEGG: FUK
REACTOME: FUK
ConsensusPathDB
Pathway Commons: FUK
MetabolismMetaCyc: FUK
HUMANCyc: FUK
RegulationEnsembl's Regulation: ENSG00000157353
miRBase: chr16 :70,488,497-70,514,177
TargetScan: NM_145059
cisRED: ENSG00000157353
ContextiHOP: FUK
cancer metabolism search in PubMed: FUK
UCL Cancer Institute: FUK
Assigned class in ccmGDBC

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Phenotypic Information for FUK(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: FUK
Familial Cancer Database: FUK
* 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
KEGG_FRUCTOSE_AND_MANNOSE_METABOLISM
KEGG_AMINO_SUGAR_AND_NUCLEOTIDE_SUGAR_METABOLISM

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: FUK
MedGen: FUK (Human Medical Genetics with Condition)
ClinVar: FUK
PhenotypeMGI: FUK (International Mouse Phenotyping Consortium)
PhenomicDB: FUK

Mutations for FUK
* 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

- Statistics for Tissue and Mutation typeTop
- 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'.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
ovaryFUKchr167051085570510875FUKchr167050735770507377
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)

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows FUK related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BE147710FUK14189167051129270511468PARD3182384103468202934682233
DB451208FUK1409167048832870497624DNMT3B407477203139024031390310

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=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=46)
Stat. for Synonymous SNVs
(# total SNVs=18)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=1)

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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
chr16:70506907-70506907p.P476P3
chr16:70509652-70509652p.E875Q2
chr16:70497629-70497629p.N62N2
chr16:70506488-70506488p.F462F2
chr16:70502792-70502792p.R235H2
chr16:70512475-70512475p.A951S2
chr16:70508837-70508837p.R767Q2
chr16:70509291-70509291p.V806M2
chr16:70500143-70500143p.D132H1
chr16:70504972-70504972p.L389L1

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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=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample33 14  2    652126517
# mutation33 12  2    652126516
nonsynonymous SNV22 7  1    4211 3216
synonymous SNV11 5  1    231 233  
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
chr16:70508837p.R767Q3
chr16:70502792p.R235H2
chr16:70506488p.F462F2
chr16:70501860p.R218R1
chr16:70513276p.G414G1
chr16:70504931p.E1041D1
chr16:70508202p.R35R1
chr16:70497655p.A233V1
chr16:70502786p.R418C1
chr16:70513502p.I1058I1

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 FUK 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 FUK

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

ACD,ACSF3,ENKD1,CENPT,CHMP1A,COG4,COG8,
DHODH,DHX38,DUS2,EDC4,ELMO3,FUK,KATNB1,
MLYCD,PRMT7,SPATA2L,SPG7,TCF25,THAP11,VPS4A
CC2D1A,DEAF1,DGCR2,DNAL4,CRACR2B,ELMO3,EPS8L2,
FUK,FZR1,GTF3C5,HMG20B,NDOR1,PAK4,PHLDB3,
SGSM3,SLC12A9,TAB1,TRIM28,TSEN54,NELFA,ZNF408

ACSF3,ANO9,AXIN1,CDK10,COG4,EDC4,ESRP2,
FBXO31,FUK,GPR56,MLYCD,MTHFSD,PRMT7,QPRT,
RAB40C,SPG7,SPIRE2,TAF1C,TELO2,TSC2,WDR59
BDH1,PROSER2,CC2D1A,CES3,DDR1,FOXD2,FUK,
GFOD2,GRN,HES1,IHH,LDLRAP1,PFKL,PLA2G6,
PPFIA3,PWWP2B,RNF44,SCAP,STK11,TRPM4,ZBTB7C
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 FUK


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