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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PRPS2 |
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Phenotypic Information for PRPS2(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: PRPS2 |
Familial Cancer Database: PRPS2 |
* 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 |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: PRPS2 |
MedGen: PRPS2 (Human Medical Genetics with Condition) | |
ClinVar: PRPS2 | |
Phenotype | MGI: PRPS2 (International Mouse Phenotyping Consortium) |
PhenomicDB: PRPS2 |
Mutations for PRPS2 |
* 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 PRPS2 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 |
CD358573 | PRPS2 | 24 | 141 | X | 12831016 | 12831135 | PRPS2 | 136 | 766 | X | 12826240 | 12826843 | |
BE767033 | PRPS2 | 1 | 187 | X | 12841738 | 12842248 | PRPS2 | 184 | 294 | X | 12841610 | 12841720 |
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=34) | (# total SNVs=11) |
(# total SNVs=0) | (# total SNVs=1) |
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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 |
chr23:12817486-12817486 | p.A95T | 2 |
chr23:12817405-12817405 | p.M68L | 2 |
chr23:12840882-12840882 | p.S308S | 1 |
chr23:12828183-12828183 | p.A150T | 1 |
chr23:12809739-12809739 | p.? | 1 |
chr23:12837706-12837706 | p.R204Q | 1 |
chr23:12838868-12838868 | p.V270V | 1 |
chr23:12817462-12817462 | p.A87S | 1 |
chr23:12840909-12840909 | p.P317P | 1 |
chr23:12828192-12828192 | p.Q153* | 1 |
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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 | 1 | 1 | 1 | 4 | 1 |   | 1 |   | 2 |   |   | 5 | 2 |   | 1 |   | 3 | 3 | 1 | 4 |
# mutation | 1 | 1 | 1 | 5 | 1 |   | 1 |   | 2 |   |   | 5 | 2 |   | 1 |   | 3 | 3 | 1 | 7 |
nonsynonymous SNV | 1 | 1 | 1 | 5 | 1 |   | 1 |   | 2 |   |   | 3 | 1 |   |   |   | 2 | 3 |   | 5 |
synonymous SNV |   |   |   |   |   |   |   |   |   |   |   | 2 | 1 |   | 1 |   | 1 |   | 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 |
chrX:12817486 | p.G212G,PRPS2 | 2 |
chrX:12828249 | p.A175T,PRPS2 | 2 |
chrX:12837722 | p.A95T,PRPS2 | 2 |
chrX:12837742 | p.A112T,PRPS2 | 1 |
chrX:12817472 | p.G123W,PRPS2 | 1 |
chrX:12828159 | p.D213D,PRPS2 | 1 |
chrX:12837763 | p.A124T,PRPS2 | 1 |
chrX:12828215 | p.A219V,PRPS2 | 1 |
chrX:12837794 | p.A124V,PRPS2 | 1 |
chrX:12817518 | p.A226V,PRPS2 | 1 |
Other DBs for Point Mutations |
Copy Number for PRPS2 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 PRPS2 |
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 |
TEX30,CEP55,FANCB,GMPS,GPR180,KHDRBS3,KIAA1804, KIF4A,KLHL15,MSH2,MSL3,NCAPG,NDC80,PDHA1, POLA1,PPP1CB,PRPS2,SCML2,SKA1,TTK,YES1 | AHCY,ASTN2,C2orf15,COL4A6,GINS2,HS6ST2,KDM1A, LPAR3,MARCKSL1,MIPEP,NETO2,NIPSNAP1,NONO,NPM1, PAICS,PGM2,PRMT6,PRPS2,SMPDL3B,SOX4,WNT4 |
APOO,BRCC3,ERCC6L,FAM104B,FANCB,HCCS,HPRT1, CMC4,PDHA1,PGRMC1,JADE3,PIGA,POLA1,PRDX4, PRPS2,RBBP7,SCML1,SCML2,SMS,SUV39H1,VBP1 | ARMC10,ASB9,CA8,CREB3L4,CYP39A1,DCLRE1A,EI24, EIF4EBP1,FAIM,KCTD14,MRPS27,NUPR1,PIAS2,PM20D2, PPAT,PRPS2,SLPI,SPAG16,TMED3,VKORC1L1,WDR41 |
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 PRPS2 |
There's no related Drug. |
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Cross referenced IDs for PRPS2 |
* 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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