Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

Home

Search

Download

 Statistics

Help

About Us

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 NAMPT
Basic gene info.Gene symbolNAMPT
Gene namenicotinamide phosphoribosyltransferase
Synonyms1110035O14Rik|PBEF|PBEF1|VF|VISFATIN
CytomapUCSC genome browser: 7q22.3
Genomic locationchr7 :105888731-105925638
Type of geneprotein-coding
RefGenesNM_005746.2,
NM_182790.1,
Ensembl idENSG00000105835
DescriptionNAmPRTasepre-B cell-enhancing factorpre-B-cell colony enhancing factor 1pre-B-cell colony-enhancing factor 1
Modification date20141222
dbXrefs MIM : 608764
HGNC : HGNC
Ensembl : ENSG00000105835
HPRD : 09938
Vega : OTTHUMG00000140388
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_NAMPT
BioGPS: 10135
Gene Expression Atlas: ENSG00000105835
The Human Protein Atlas: ENSG00000105835
PathwayNCI Pathway Interaction Database: NAMPT
KEGG: NAMPT
REACTOME: NAMPT
ConsensusPathDB
Pathway Commons: NAMPT
MetabolismMetaCyc: NAMPT
HUMANCyc: NAMPT
RegulationEnsembl's Regulation: ENSG00000105835
miRBase: chr7 :105,888,731-105,925,638
TargetScan: NM_005746
cisRED: ENSG00000105835
ContextiHOP: NAMPT
cancer metabolism search in PubMed: NAMPT
UCL Cancer Institute: NAMPT
Assigned class in ccmGDBC

Top
Phenotypic Information for NAMPT(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: NAMPT
Familial Cancer Database: NAMPT
* 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_NICOTINATE_AND_NICOTINAMIDE_METABOLISM
REACTOME_METABOLISM_OF_VITAMINS_AND_COFACTORS

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

Mutations for NAMPT
* 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
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'.
- 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
ovaryNAMPTchr7105923276105923296NAMPTchr7105923379105923399
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 NAMPT related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
DA677790NOP581662203142842203142907NAMPT675777105913009105925426
BQ335321PLD52502741242370111242370136NAMPT2634687105917540105925393
DB135958NAMPT34567105913035105925396CD694455501299076649907769
BF874906NAMPT251577105906073105906205UBE2H1504897129554703129555042
BE940024NAMPT212767105907376105907632NAMPT2744767105907180105907382
BQ355873ZBTB202803003114424119114424139NAMPT2826137105891622105891952

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

Top
check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample 1    1   1      
GAIN (# sample) 1        1      
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)

Top
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

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=32)
Stat. for Synonymous SNVs
(# total SNVs=10)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.There's no inserted snv.

Top
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
chr7:105909679-105909679p.L176S3
chr7:105904020-105904020p.E263K2
chr7:105909680-105909680p.L176L2
chr7:105904030-105904030p.K259K2
chr7:105908954-105908954p.T233T1
chr7:105893543-105893543p.R429*1
chr7:105913026-105913026p.T133P1
chr7:105917476-105917476p.L70fs*11
chr7:105902108-105902108p.K339E1
chr7:105908967-105908967p.K229T1

Top
check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=4

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample11 91 2 2  431  12 4
# mutation11 81 2 2  431  12 4
nonsynonymous SNV11 41 2 1  331  12 3
synonymous SNV   4    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])

Top
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
chr7:105904030p.L176S2
chr7:105909679p.L176L2
chr7:105909680p.A286V2
chr7:105903950p.K259K2
chr7:105904020p.E444Q1
chr7:105912982p.K423R1
chr7:105893480p.P421R1
chr7:105913022p.I171M1
chr7:105893498p.V413L1
chr7:105908954p.S155S1

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 NAMPT 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 NAMPT

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

: Open all plots for all cancer types


Top
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

ACSL1,AKR1B15,ATP13A4,EYS,CCDC71L,FUT3,GRAMD2,
HIF1A,IDI1,LBP,MYOM2,NAMPT,PNLIPRP3,RLN3,
RNASE11,RNASE12,SC5D,SRD5A1,STRA8,VLDLR,WDR91
AKIRIN1,CLDN1,COQ10B,DDX3X,ELF1,ETS2,KLF6,
LDLR,MAPK1IP1L,MCL1,NAMPT,PDE12,PER2,PIGA,
PNPLA8,RNF19A,SERPINB8,SGMS2,SLC25A32,TSC22D2,ZBTB21

CAPZA2,CCL20,CSF3,CXCL1,CXCL2,CXCL3,CXCL6,
CCDC71L,HIF1A,IFNGR1,NAMPT,NFKBIA,NFKBIZ,PADI4,
PI15,RAP1B,SOCS3,SOD2,TNFAIP1,TNFAIP3,UHRF1BP1L
ANKRD22,DNAJB11,HNRNPF,IL13RA2,LILRA5,LSM12,NAMPT,
NCOA7,NMI,NUS1,PDIA6,POMP,PPA1,PSMA1,
PSMA3,PSMB2,RPN1,SOD2,TIMM17A,TMED7,TSPAN8
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

Top
check002.gifInteracting Genes (from Pathway Commons)

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

Top
Pharmacological Information for NAMPT
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB00627nicotinamide phosphoribosyltransferaseapproved; nutraceutical; investigationalNiacin
DB00412nicotinamide phosphoribosyltransferaseapproved; investigationalRosiglitazone


Top
Cross referenced IDs for NAMPT
* 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



Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @
Site Policies | State of Texas