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 THTPA
Basic gene info.Gene symbolTHTPA
Gene namethiamine triphosphatase
SynonymsTHTP|THTPASE
CytomapUCSC genome browser: 14q11.2
Genomic locationchr14 :24025197-24028790
Type of geneprotein-coding
RefGenesNM_001126339.3,
NM_001256062.2,NM_001256321.2,NM_001256322.2,NM_001256323.2,
NM_024328.5,NR_023314.4,NR_046051.1,NR_046052.1,
Ensembl idENSG00000259431
Descriptionthiamine-triphosphatase
Modification date20141207
dbXrefs MIM : 611612
HGNC : HGNC
Ensembl : ENSG00000259431
HPRD : 15505
Vega : OTTHUMG00000172558
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_THTPA
BioGPS: 79178
Gene Expression Atlas: ENSG00000259431
The Human Protein Atlas: ENSG00000259431
PathwayNCI Pathway Interaction Database: THTPA
KEGG: THTPA
REACTOME: THTPA
ConsensusPathDB
Pathway Commons: THTPA
MetabolismMetaCyc: THTPA
HUMANCyc: THTPA
RegulationEnsembl's Regulation: ENSG00000259431
miRBase: chr14 :24,025,197-24,028,790
TargetScan: NM_001126339
cisRED: ENSG00000259431
ContextiHOP: THTPA
cancer metabolism search in PubMed: THTPA
UCL Cancer Institute: THTPA
Assigned class in ccmGDBC

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

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

Mutations for THTPA
* 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 THTPA related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
BF960308DSCAML13517311117362891117363029THTPA164301142402805224028189
BI036406MAN1C11412312603433326034445THTPA119323142402631524026519
BQ365373THTPA12210142402544924027998AP1G2205337142403399324034125

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)   1             
LOSS (# sample)                 
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=1

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=8)
Stat. for Synonymous SNVs
(# total SNVs=2)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.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
chr14:24027955-24027955p.R200H1
chr14:24026149-24026149p.G61G1
chr14:24027961-24027961p.R202Q1
chr14:24026160-24026160p.K65R1
chr14:24027979-24027979p.R208H1
chr14:24026219-24026219p.E85K1
chr14:24028017-24028017p.E221K1
chr14:24026241-24026241p.L92P1
chr14:24026245-24026245p.C93C1
chr14:24026298-24026298p.G111D1

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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=1

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample1  1    1    1 2 1 1
# mutation1  1    1    1 2 1 1
nonsynonymous SNV1  1    1    1 2 1  
synonymous SNV                   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
chr14:24026149p.R56Q,THTPA1
chr14:24026160p.D59Y,THTPA1
chr14:24026216p.G61G,THTPA1
chr14:24026241p.K65R,THTPA1
chr14:24026298p.A84T,THTPA1
chr14:24026387p.L92P,THTPA1
chr14:24027979p.G111D,THTPA1
chr14:24028017p.Q141E,THTPA1
chr14:24026133p.R118H,THTPA1
chr14:24026141p.E131K,THTPA1

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 THTPA 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 THTPA

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

AP1G2,C14orf93,DCAF11,FBP1,GHDC,GMPR2,HAUS4,
HOMEZ,HSD17B8,LRP10,MDP1,ZNF205-AS1,NEDD8,RAB17,
RBM23,RNF31,SDR39U1,THTPA,TINF2,TM9SF1,WDR25
AARS,ACAD9,ASCC2,BCAP31,CRELD1,GRHPR,HINT2,
HOOK2,IFI27L1,ITFG3,KLHL22,LOC729991,MRPL24,NME4,
POLR2L,PRR5,PSMD8,SNX17,THTPA,TST,UROD

AP4S1,APEX1,DNAAF2,TMEM251,C14orf119,CCDC71,CHMP4A,
GMPR2,LOC100009676,MDP1,MGAT2,NEDD8,NGDN,PSMB5,
RBM23,SCAF11___GEMIN2___ZEB2,THTPA,TINF2,TMEM55B,TOX4,TTC5
AIP,AMZ2,ARL2,BBS4,BCL7C,BOLA1,FAM216A,
C1orf54,C6orf1,CAMLG,CUEDC2,MPV17,MRPL40,MYL6B,
SNAPIN,SNRPN,THTPA,TMSB15B,TRMT112,UROD,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 THTPA


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