|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PRUNE |
Basic gene info. | Gene symbol | PRUNE |
Gene name | prune exopolyphosphatase | |
Synonyms | DRES-17|DRES17|HTCD37 | |
Cytomap | UCSC genome browser: 1q21 | |
Genomic location | chr1 :150980972-151008189 | |
Type of gene | protein-coding | |
RefGenes | NM_021222.1, | |
Ensembl id | ENSG00000143363 | |
Description | Drosophila-related expressed sequence 17protein prune homolog | |
Modification date | 20141220 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000143363 | ||
HPRD : 15188 | ||
Vega : OTTHUMG00000035062 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PRUNE | |
BioGPS: 58497 | ||
Gene Expression Atlas: ENSG00000143363 | ||
The Human Protein Atlas: ENSG00000143363 | ||
Pathway | NCI Pathway Interaction Database: PRUNE | |
KEGG: PRUNE | ||
REACTOME: PRUNE | ||
ConsensusPathDB | ||
Pathway Commons: PRUNE | ||
Metabolism | MetaCyc: PRUNE | |
HUMANCyc: PRUNE | ||
Regulation | Ensembl's Regulation: ENSG00000143363 | |
miRBase: chr1 :150,980,972-151,008,189 | ||
TargetScan: NM_021222 | ||
cisRED: ENSG00000143363 | ||
Context | iHOP: PRUNE | |
cancer metabolism search in PubMed: PRUNE | ||
UCL Cancer Institute: PRUNE | ||
Assigned class in ccmGDB | C |
Top |
Phenotypic Information for PRUNE(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: PRUNE |
Familial Cancer Database: PRUNE |
* 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 |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: PRUNE |
MedGen: PRUNE (Human Medical Genetics with Condition) | |
ClinVar: PRUNE | |
Phenotype | MGI: PRUNE (International Mouse Phenotyping Consortium) |
PhenomicDB: PRUNE |
Mutations for PRUNE |
* 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 |
- Statistics for Tissue and Mutation type | Top |
- For Inter-chromosomal Variations |
There's no inter-chromosomal structural variation. |
- 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'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | PRUNE | chr1 | 151004346 | 151004366 | SETDB1 | chr1 | 150937204 | 150937224 |
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) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows PRUNE 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 |
BF984499 | PRUNE | 7 | 86 | 1 | 151008110 | 151008189 | PRUNE | 81 | 421 | 1 | 151007771 | 151008115 |
Other DBs for Structural Variants |
Top |
Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
Mutation type/ Tissue ID | brca | cns | cerv | endome | haematopo | kidn | Lintest | liver | lung | ns | ovary | pancre | prost | skin | stoma | thyro | urina | |||
Total # sample | 1 |   |   | 1 |   |   |   |   |   |   |   |   |   | 1 |   |   |   | |||
GAIN (# sample) | 1 |   |   | 1 |   |   |   |   |   |   |   |   |   | 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) |
Top |
SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
|
Top |
Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=28) | (# total SNVs=6) |
(# total SNVs=1) | (# total SNVs=0) |
Top |
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 |
chr1:150999788-150999788 | p.I253M | 3 |
chr1:151006557-151006557 | p.E403D | 2 |
chr1:150997194-150997194 | p.C148fs*5 | 2 |
chr1:151006578-151006578 | p.T410T | 2 |
chr1:150998065-150998065 | p.E199K | 2 |
chr1:150990303-150990303 | p.H19Y | 2 |
chr1:151006329-151006329 | p.T327T | 1 |
chr1:150999800-150999800 | p.L257F | 1 |
chr1:151006367-151006367 | p.L340R | 1 |
chr1:151006575-151006575 | p.P409P | 1 |
Top |
SNV Counts per Each Loci in TCGA data |
|
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 | 4 | 5 | 1 | 5 |   |   | 1 |   | 1 |   |   | 7 |   | 1 |   |   | 3 | 3 |   | 4 |
# mutation | 4 | 5 | 1 | 4 |   |   | 1 |   | 1 |   |   | 7 |   | 1 |   |   | 3 | 3 |   | 5 |
nonsynonymous SNV | 4 | 3 | 1 | 3 |   |   |   |   | 1 |   |   | 4 |   | 1 |   |   | 2 | 3 |   | 4 |
synonymous SNV |   | 2 |   | 1 |   |   | 1 |   |   |   |   | 3 |   |   |   |   | 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 |
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 |
chr1:151006557 | p.E403D | 2 |
chr1:151006578 | p.T410T | 2 |
chr1:151001306 | p.F205F | 1 |
chr1:151006549 | p.K349N | 1 |
chr1:150997991 | p.P206A | 1 |
chr1:151001309 | p.D364D | 1 |
chr1:150998051 | p.A221V | 1 |
chr1:151001376 | p.G397D | 1 |
chr1:150998085 | p.E231K | 1 |
chr1:151006312 | p.D401Y | 1 |
Other DBs for Point Mutations |
Copy Number for PRUNE 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 PRUNE |
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)) |
Top |
CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
Top |
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 |
APH1A,ARNT,BCL9,GATAD2B,GON4L,CERS2,LYSMD1, PEX11B,PI4KB,PIP5K1A,POGZ,PRUNE,RPRD2,SETDB1, SNX27,TADA1,TARS2,UBAP2L,VPS45,YY1AP1,ZNF687 | AMN1,FAM227B,CNOT7,COQ7,FBXO21,GPBP1L1,HSDL1, KIAA1191,LOC400027,MIOS,KAT7,OMA1,ORC4,PWARSN, PRUNE,RAB5B,SLC2A12,TADA1,TAF7,THAP9,WBP11 |
APH1A,DIEXF,C1orf43,COG2,DCAF8,DEDD,FBXO28, LYSMD1,NUP133,PEX19,PI4KB,POLR3C,PRUNE,RAB4A, SCYL3,TADA1,TIPRL,TOMM20,TSNAX,UFC1,VPS72 | ACTR1B,ASF1A,GPANK1,BTF3,C7orf25,CRBN,CRIPT, FAM175A,FBXO8,HBP1,ING4,KBTBD3,KIAA1191,KLHDC2, KLHDC3,PRUNE,TMEM159,TTC33,YPEL5,ZNF230,ZNF571 |
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 |
Top |
Interacting Genes (from Pathway Commons) |
Top |
Pharmacological Information for PRUNE |
There's no related Drug. |
Top |
Cross referenced IDs for PRUNE |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @ |