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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PRPS1L1 |
Basic gene info. | Gene symbol | PRPS1L1 |
Gene name | phosphoribosyl pyrophosphate synthetase 1-like 1 | |
Synonyms | PRPS1|PRPS3|PRPSL|PRS-III | |
Cytomap | UCSC genome browser: 7p21.1 | |
Genomic location | chr7 :18066399-18067486 | |
Type of gene | protein-coding | |
RefGenes | NM_175886.2, | |
Ensembl id | ENSG00000229937 | |
Description | PRPS1-like 1phosphoribosyl pyrophosphate synthase 1-like 1phosphoribosyl pyrophosphate synthase IIIphosphoribosylpyrophosphate synthetase subunit IIIribose-phosphate diphosphokinase catalytic chain IIIribose-phosphate pyrophosphokinase 3ribose-phosp | |
Modification date | 20141207 | |
dbXrefs | MIM : 611566 | |
HGNC : HGNC | ||
Ensembl : ENSG00000229937 | ||
HPRD : 17914 | ||
Vega : OTTHUMG00000152742 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PRPS1L1 | |
BioGPS: 221823 | ||
Gene Expression Atlas: ENSG00000229937 | ||
The Human Protein Atlas: ENSG00000229937 | ||
Pathway | NCI Pathway Interaction Database: PRPS1L1 | |
KEGG: PRPS1L1 | ||
REACTOME: PRPS1L1 | ||
ConsensusPathDB | ||
Pathway Commons: PRPS1L1 | ||
Metabolism | MetaCyc: PRPS1L1 | |
HUMANCyc: PRPS1L1 | ||
Regulation | Ensembl's Regulation: ENSG00000229937 | |
miRBase: chr7 :18,066,399-18,067,486 | ||
TargetScan: NM_175886 | ||
cisRED: ENSG00000229937 | ||
Context | iHOP: PRPS1L1 | |
cancer metabolism search in PubMed: PRPS1L1 | ||
UCL Cancer Institute: PRPS1L1 | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for PRPS1L1(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: PRPS1L1 |
Familial Cancer Database: PRPS1L1 |
* This gene is included in those cancer gene databases. |
Oncogene 1 | Significant driver gene in |
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/ |
Metabolic Pathway Description | |
KEGG_PURINE_METABOLISM REACTOME_METABOLISM_OF_CARBOHYDRATES |
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. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
There's no structural variation information in COSMIC data for this gene. |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows PRPS1L1 related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
Other DBs for Structural Variants |
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Copy 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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SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
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Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=37) | (# total SNVs=14) |
(# total SNVs=1) | (# total SNVs=0) |
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Top 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 position | Mutation(aa) | Unique sampleID count |
chr7:18067082-18067082 | p.S108S | 3 |
chr7:18067214-18067214 | p.N64N | 3 |
chr7:18066621-18066621 | p.N262T | 2 |
chr7:18067044-18067044 | p.A121V | 2 |
chr7:18066766-18066766 | p.R214C | 2 |
chr7:18066528-18066528 | p.S293F | 2 |
chr7:18067222-18067222 | p.E62K | 2 |
chr7:18067383-18067383 | p.S8N | 2 |
chr7:18067234-18067234 | p.S58G | 2 |
chr7:18066519-18066519 | p.L296H | 2 |
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SNV Counts per Each Loci in TCGA data |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample |   |   |   | 5 | 3 |   | 4 |   | 2 |   |   | 5 | 4 | 2 |   | 1 | 19 | 4 |   | 5 |
# mutation |   |   |   | 5 | 3 |   | 4 |   | 2 |   |   | 5 | 4 | 2 |   | 1 | 21 | 4 |   | 7 |
nonsynonymous SNV |   |   |   | 3 | 2 |   | 4 |   | 2 |   |   | 4 | 3 | 2 |   | 1 | 13 | 3 |   | 5 |
synonymous SNV |   |   |   | 2 | 1 |   |   |   |   |   |   | 1 | 1 |   |   |   | 8 | 1 |   | 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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Top 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 Position | Mutation(aa) | Unique sampleID count |
chr7:18066766 | p.N64N | 2 |
chr7:18067261 | p.E62K | 2 |
chr7:18067044 | p.A121V | 2 |
chr7:18067214 | p.R214C | 2 |
chr7:18067222 | p.R49S | 2 |
chr7:18066759 | p.M281V | 1 |
chr7:18067234 | p.V168V | 1 |
chr7:18066979 | p.A80S | 1 |
chr7:18066558 | p.N273I | 1 |
chr7:18067130 | p.E161K | 1 |
Other DBs for Point Mutations |
Copy 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 |
Gene 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. |
Differential 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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CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
Co-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 |
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 |
Co-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 |
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Interacting Genes (from Pathway Commons) |
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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 |
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