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 PRPS1L1
Basic gene info.Gene symbolPRPS1L1
Gene namephosphoribosyl pyrophosphate synthetase 1-like 1
SynonymsPRPS1|PRPS3|PRPSL|PRS-III
CytomapUCSC genome browser: 7p21.1
Genomic locationchr7 :18066399-18067486
Type of geneprotein-coding
RefGenesNM_175886.2,
Ensembl idENSG00000229937
DescriptionPRPS1-like 1phosphoribosyl pyrophosphate synthase 1-like 1phosphoribosyl pyrophosphate synthase IIIphosphoribosylpyrophosphate synthetase subunit IIIribose-phosphate diphosphokinase catalytic chain IIIribose-phosphate pyrophosphokinase 3ribose-phosp
Modification date20141207
dbXrefs MIM : 611566
HGNC : HGNC
Ensembl : ENSG00000229937
HPRD : 17914
Vega : OTTHUMG00000152742
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PRPS1L1
BioGPS: 221823
Gene Expression Atlas: ENSG00000229937
The Human Protein Atlas: ENSG00000229937
PathwayNCI Pathway Interaction Database: PRPS1L1
KEGG: PRPS1L1
REACTOME: PRPS1L1
ConsensusPathDB
Pathway Commons: PRPS1L1
MetabolismMetaCyc: PRPS1L1
HUMANCyc: PRPS1L1
RegulationEnsembl's Regulation: ENSG00000229937
miRBase: chr7 :18,066,399-18,067,486
TargetScan: NM_175886
cisRED: ENSG00000229937
ContextiHOP: PRPS1L1
cancer metabolism search in PubMed: PRPS1L1
UCL Cancer Institute: PRPS1L1
Assigned class in ccmGDBC

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Phenotypic Information for PRPS1L1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: PRPS1L1
Familial Cancer Database: PRPS1L1
* 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_PURINE_METABOLISM
REACTOME_METABOLISM_OF_CARBOHYDRATES

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: PRPS1L1
MedGen: PRPS1L1 (Human Medical Genetics with Condition)
ClinVar: PRPS1L1
PhenotypeMGI: PRPS1L1 (International Mouse Phenotyping Consortium)
PhenomicDB: PRPS1L1

Mutations for PRPS1L1
* 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 PRPS1L1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a

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=37)
Stat. for Synonymous SNVs
(# total SNVs=14)
Stat. for Deletions
(# total SNVs=1)
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
chr7:18067082-18067082p.S108S3
chr7:18067214-18067214p.N64N3
chr7:18066766-18066766p.R214C2
chr7:18066528-18066528p.S293F2
chr7:18067222-18067222p.E62K2
chr7:18067383-18067383p.S8N2
chr7:18067234-18067234p.S58G2
chr7:18066519-18066519p.L296H2
chr7:18067044-18067044p.A121V2
chr7:18066621-18066621p.N262T2

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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
# sample   53 4 2  542 1194 5
# mutation   53 4 2  542 1214 7
nonsynonymous SNV   32 4 2  432 1133 5
synonymous SNV   21      11   81 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
chr7:18066766p.N64N2
chr7:18067261p.E62K2
chr7:18067044p.A121V2
chr7:18067214p.R214C2
chr7:18067222p.R49S2
chr7:18066980p.I159I1
chr7:18067168p.M73I1
chr7:18066565p.C265R1
chr7:18067241p.E157D1
chr7:18067020p.I72F1

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 PRPS1L1 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 PRPS1L1

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

ATP5L2,DPP3,FLJ44635,GH1,HCN2,KCNJ2,MAP3K3,
MRPL11,PC,PELI3,PRPS1L1,RCE1,RNFT1,RPL31P11,
RPS6KB1,SMARCD2,STRADA,SUCNR1,SYT12,TCAM1P,ZDHHC24
ATP11AUN,C7orf71,CGB2,DEFB125,GH2,GNG8,HDGFL1,
HELT,IAPP,IFNA5,KRTAP13-2,LHX9,OR10J5,OR2M3,
PRDM7,PRPS1L1,PSG8,SLC17A3,SLC6A19,SNORA59B,TAS2R13

ANXA2P3,CSNK1A1L,EIF3IP1,FLJ44635,HSP90B3P,LOC100132831,LOC341056,
LOC442308,LOC649330,LOC723972,NME2P1,POTEM,PA2G4P4,PIN1P1,
POTEF,PRPS1L1,RPL19P12,RPL31P11,SBF1P1,UBE2NL,WBP11P1
ACSL3,ACTL8,ATP12A,BACE2,TDRP,CLINT1,GAPDHS,
IL19,KIR2DL1,LPCAT2,NEK6,PLA2G2A,POTEC,PRPS1L1,
PRSS22,RAB27B,SLC10A7,SLC16A14,SLC38A5,TMEM173,ZNF486
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 PRPS1L1


There's no related Drug.
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Cross referenced IDs for PRPS1L1
* 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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