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 FPGT
Basic gene info.Gene symbolFPGT
Gene namefucose-1-phosphate guanylyltransferase
SynonymsGFPP
CytomapUCSC genome browser: 1p31.1
Genomic locationchr1 :74663895-74674148
Type of geneprotein-coding
RefGenesNM_001199328.2,
NM_001199329.2,NM_003838.4,
Ensembl idENSG00000254685
DescriptionGDP-L-fucose diphosphorylaseGDP-beta-L-fucose pyrophosphorylasefucose-1-phosphate guanyltransferase
Modification date20141207
dbXrefs MIM : 603609
HGNC : HGNC
Ensembl : ENSG00000254685
HPRD : 06790
Vega : OTTHUMG00000009571
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_FPGT
BioGPS: 8790
Gene Expression Atlas: ENSG00000254685
The Human Protein Atlas: ENSG00000254685
PathwayNCI Pathway Interaction Database: FPGT
KEGG: FPGT
REACTOME: FPGT
ConsensusPathDB
Pathway Commons: FPGT
MetabolismMetaCyc: FPGT
HUMANCyc: FPGT
RegulationEnsembl's Regulation: ENSG00000254685
miRBase: chr1 :74,663,895-74,674,148
TargetScan: NM_001199328
cisRED: ENSG00000254685
ContextiHOP: FPGT
cancer metabolism search in PubMed: FPGT
UCL Cancer Institute: FPGT
Assigned class in ccmGDBC

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

Mutations for FPGT
* 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 FPGT related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
NM6777215FPGT115017419821274208702TNNI3K151332817423538774544432
NM6777215FPGT114917419821274208702TNNI3K150278217423538774544432

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=5

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=56)
Stat. for Synonymous SNVs
(# total SNVs=17)
Stat. for Deletions
(# total SNVs=6)
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
chr1:74665364-74665364p.R33R2
chr1:74667047-74667047p.L99P2
chr1:74671407-74671407p.Y559C2
chr1:74670385-74670385p.D218E2
chr1:74670281-74670281p.D184N2
chr1:74670466-74670466p.P245P2
chr1:74671136-74671136p.M469V2
chr1:74670509-74670509p.D260N2
chr1:74665494-74665494p.D77Y2
chr1:74665362-74665362p.R33G2

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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
# sample6  9  3 2  47   33 7
# mutation6  9  3 2  47   33 7
nonsynonymous SNV4  8  3 2  24   22 5
synonymous SNV2  1       23   11 2
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
chr1:74671407p.Y572C,FPGT2
chr1:74671073p.M589I,FPGT1
chr1:74670283p.D222G1
chr1:74671393p.Q158H,FPGT1
chr1:74670700p.P223L1
chr1:74671075p.P461S,FPGT1
chr1:74670301p.F240L1
chr1:74670742p.P461P,FPGT1
chr1:74671111p.M249I1
chr1:74670318p.M473I,FPGT1

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 FPGT 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 FPGT

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

ANKRD13C,CHM,DNAJC16,FAM73A,FPGT,IPP,EFCAB14,
MIER1,NUDT12,PJA2,PKN2,POLK,SPATA6,SPG11,
STAM2,TMED7,TYW3,UEVLD,USP33,ZMYM6,ZNF484
ACAP2,C5orf24,C5orf51,CD46,CREB1,DPY19L4,FCHO2,
FMR1,FPGT,G2E3,GABPA,HERC4,PAPD4,PDCD6IP,
PRKAA1,RASA1,SLC30A5,STAM2,TM9SF3,TROVE2,WDR36

ABCD3,ALG6,ATP5F1,BCAS2,CAPZA1,TRMT13,FPGT,
GNG12,GTF2B,IPP,LRRC40,MIER1,OMA1,PIGK,
RPAP2,SCP2,SEP15,SNX7,TM2D1,TMED5,USP33
ATG5,TMEM251,C18orf32,C3orf38,FAM96A,FPGT,HINT1,
IRAK4,KRCC1,MRPS36,NXT2,PDCD10,PPA2,PPCS,
RFWD2,SDHD,SNX6,TMBIM4,TMEM68,TWF1,ZCCHC10
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 FPGT


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