|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for PPOX |
Basic gene info. | Gene symbol | PPOX |
Gene name | protoporphyrinogen oxidase | |
Synonyms | PPO|V290M|VP | |
Cytomap | UCSC genome browser: 1q22 | |
Genomic location | chr1 :161136180-161141010 | |
Type of gene | protein-coding | |
RefGenes | NM_000309.3, NM_001122764.1, | |
Ensembl id | ENSG00000143224 | |
Description | - | |
Modification date | 20141219 | |
dbXrefs | MIM : 600923 | |
HGNC : HGNC | ||
Ensembl : ENSG00000143224 | ||
HPRD : 02953 | ||
Vega : OTTHUMG00000034342 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PPOX | |
BioGPS: 5498 | ||
Gene Expression Atlas: ENSG00000143224 | ||
The Human Protein Atlas: ENSG00000143224 | ||
Pathway | NCI Pathway Interaction Database: PPOX | |
KEGG: PPOX | ||
REACTOME: PPOX | ||
ConsensusPathDB | ||
Pathway Commons: PPOX | ||
Metabolism | MetaCyc: PPOX | |
HUMANCyc: PPOX | ||
Regulation | Ensembl's Regulation: ENSG00000143224 | |
miRBase: chr1 :161,136,180-161,141,010 | ||
TargetScan: NM_000309 | ||
cisRED: ENSG00000143224 | ||
Context | iHOP: PPOX | |
cancer metabolism search in PubMed: PPOX | ||
UCL Cancer Institute: PPOX | ||
Assigned class in ccmGDB | C |
Top |
Phenotypic Information for PPOX(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: PPOX |
Familial Cancer Database: PPOX |
* 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_PORPHYRIN_AND_CHLOROPHYLL_METABOLISM REACTOME_METABOLISM_OF_PORPHYRINS |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: PPOX |
MedGen: PPOX (Human Medical Genetics with Condition) | |
ClinVar: PPOX | |
Phenotype | MGI: PPOX (International Mouse Phenotyping Consortium) |
PhenomicDB: PPOX |
Mutations for PPOX |
* 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 PPOX 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 |
DC302335 | ELK1 | 2 | 87 | X | 47509894 | 47509979 | PPOX | 87 | 546 | 1 | 161144978 | 161146355 |
Other DBs for Structural Variants |
Top |
Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
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=31) | (# total SNVs=11) |
(# total SNVs=0) | (# 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 |
chr1:161138854-161138854 | p.R230C | 2 |
chr1:161139745-161139745 | p.L306L | 2 |
chr1:161136677-161136677 | p.G14S | 2 |
chr1:161140875-161140875 | p.G448A | 2 |
chr1:161138221-161138221 | p.? | 2 |
chr1:161140428-161140428 | p.W373R | 2 |
chr1:161140943-161140943 | p.L471M | 1 |
chr1:161138795-161138795 | p.Q210P | 1 |
chr1:161136930-161136930 | p.I43T | 1 |
chr1:161139704-161139704 | p.E293* | 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 | 5 | 2 |   | 6 |   |   | 1 |   |   |   |   | 3 | 1 | 3 | 1 |   | 4 | 4 | 1 | 4 |
# mutation | 6 | 2 |   | 6 |   |   | 1 |   |   |   |   | 3 | 1 | 2 | 1 |   | 4 | 4 | 1 | 4 |
nonsynonymous SNV | 3 | 2 |   | 5 |   |   |   |   |   |   |   | 3 | 1 | 1 | 1 |   | 3 | 2 | 1 |   |
synonymous SNV | 3 |   |   | 1 |   |   | 1 |   |   |   |   |   |   | 1 |   |   | 1 | 2 |   | 4 |
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 |
chr1:161137880 | p.T145I,PPOX | 2 |
chr1:161140536 | p.G102G,PPOX | 1 |
chr1:161137223 | p.G345R,PPOX | 1 |
chr1:161138933 | p.G111C,PPOX | 1 |
chr1:161140556 | p.G345E,PPOX | 1 |
chr1:161137244 | p.V365V,PPOX | 1 |
chr1:161138959 | p.F149C,PPOX | 1 |
chr1:161140705 | p.G381G,PPOX | 1 |
chr1:161137269 | p.A150T,PPOX | 1 |
chr1:161139480 | p.H409Y,PPOX | 1 |
Other DBs for Point Mutations |
Copy Number for PPOX 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 PPOX |
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 |
BOLA1,C1orf35,RRNAD1,CLK2,DPM3,INO80E,KLHDC9, MRPL55,MTX1,NDUFS2,NIT1,PMF1,PMVK,PPOX, LAMTOR2,SCAMP3,TSTD1,UFC1,USF1,USP21,ZNF692 | ADCK4,ANAPC2,ATG4B,CCDC130,CCDC22,CDK10,CDK5RAP3, COQ4,CXXC1,FAM98C,FBXO44,GGA1,MOGS,NAT9, NDOR1,NOL12,OGFOD2,POMT1,PPOX,ZFYVE19,ZNF446 | ||||
ACBD6,B4GALT3,CLK2,DCAF8,HAX1,JTB,KLHDC9, LYSMD1,MRPL24,PI4KB,PMF1,PPOX,PSMD4,PYCR2, RCOR3,LAMTOR2,SCAMP3,SCNM1,UBQLN4,USP21,VPS72 | AGBL5,C12orf10,C1orf35,C1orf86,CPNE1,DPP7,DRG2, EIF3G,GRAMD1A,HEMK1,POLL,PPOX,RGL2,RNF166, SDR39U1,SNAP47,STK19,TAB1,THAP11,WBP1,WDR83 |
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 PPOX |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB00145 | protoporphyrinogen oxidase | approved; nutraceutical | Glycine |
Top |
Cross referenced IDs for PPOX |
* 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 @ |