TissGeneSummary for PIPOX |
Gene summary |
Basic gene information | Gene symbol | PIPOX |
Gene name | pipecolic acid oxidase | |
Synonyms | LPIPOX | |
Cytomap | UCSC genome browser: 17q11.2 | |
Type of gene | protein-coding | |
RefGenes | NM_016518.2, | |
Description | L-pipecolate oxidaseL-pipecolic acid oxidasePSOperoxisomal sarcosine oxidase | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000179761 | ||
HPRD : 17853 | ||
Vega : OTTHUMG00000132679 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PIPOX | |
BioGPS: 51268 | ||
Pathway | NCI Pathway Interaction Database: PIPOX | |
KEGG: PIPOX | ||
REACTOME: PIPOX | ||
Pathway Commons: PIPOX | ||
Context | iHOP: PIPOX | |
ligand binding site mutation search in PubMed: PIPOX | ||
UCL Cancer Institute: PIPOX | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | TiGER,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | KidneyLiver | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | KIRC,KIRP,KICHLIHC | |
Reference showing the relevant tissue of PIPOX | ||
Description by TissGene annotations | Risk TissGene in RFS Fused withTSGene |
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C. |
Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
GO ID | GO term | PubMed ID | GO:0033514 | L-lysine catabolic process to acetyl-CoA via L-pipecolate | 10642506 | GO:0055114 | oxidation-reduction process | 10642506 | GO:0033514 | L-lysine catabolic process to acetyl-CoA via L-pipecolate | 10642506 | GO:0055114 | oxidation-reduction process | 10642506 |
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TissGeneExp for PIPOX |
Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01) |
Gene expressions across normal tissues of GTEx data (GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct) - Here, we shows the matched tissue types only among our 28 cancer types. |
Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1)) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) |
- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
PRAD | -1.132345611 | 0.400927466 | -1.533273077 | 6.37E-14 | 4.92E-12 |
HNSC | -1.233769627 | -2.66846265 | 1.434693023 | 7.47E-06 | 4.39E-05 |
KICH | -2.461509534 | 2.867282466 | -5.328792 | 4.41E-10 | 3.05E-09 |
KIRP | 0.387352466 | 4.570568091 | -4.183215625 | 2.36E-09 | 2.06E-08 |
LIHC | 6.339318466 | 8.019786466 | -1.680468 | 2.44E-06 | 1.20E-05 |
STAD | -0.964535034 | 0.520280591 | -1.484815625 | 0.0046 | 0.017992 |
KIRC | 1.843503855 | 3.424364966 | -1.580861111 | 0.00039 | 0.000768005 |
BLCA | -2.828687008 | -0.47950806 | -2.349178947 | 3.69E-05 | 0.000509724 |
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TissGene-miRNA for PIPOX |
Significantly anti-correlated miRNAs of TissGene across 28 cancer types (Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016) (TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21) (TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16) (Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25)) |
Cancer type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
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TissGeneMut for PIPOX |
TissGeneSNV for PIPOX |
nsSNV counts per each loci. Different colors of circles represent different cancer types. Circle size denotes number of samples. (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) * Click on the image to enlarge it in a new window. |
Somatic nucleotide variants of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of mutated samples) The numbers in parentheses are numbers of samples with mutation (nsSNVs). (TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.N131D | UCEC | 1 |
p.P212S | SKCM | 1 |
p.L7I | BLCA | 1 |
p.K196X | SKCM | 1 |
p.R211H | HNSC | 1 |
p.R163Q | STAD | 1 |
p.E99Q | KIRP | 1 |
p.W205S | GBM | 1 |
p.R163Q | BRCA | 1 |
p.R333H | UCEC | 1 |
p.P253S | SKCM | 1 |
p.G358E | ACC | 1 |
p.S365I | ESCA | 1 |
p.R128H | PRAD | 1 |
p.G172R | SKCM | 1 |
p.T185M | READ | 1 |
p.S192N | LIHC | 1 |
p.V226M | COAD | 1 |
p.A278S | SKCM | 1 |
p.L155F | SKCM | 1 |
p.R163X | COAD | 1 |
p.P135S | STAD | 1 |
p.D338Y | COAD | 1 |
p.R53Q | UCEC | 1 |
p.R66W | PRAD | 1 |
p.C319F | ESCA | 1 |
p.E263* | MESO | 1 |
p.E61K | SKCM | 1 |
p.K57R | LIHC | 1 |
p.G172E | SKCM | 1 |
p.L60M | SKCM | 1 |
p.R56Q | COAD | 1 |
p.E281K | BLCA | 1 |
p.P253L | SKCM | 1 |
p.K196* | SKCM | 1 |
p.Q194H | MESO | 1 |
p.R53W | DLBC | 1 |
p.Q208R | STAD | 1 |
p.A58V | LUAD | 1 |
p.S197N | SKCM | 1 |
p.S299R | HNSC | 1 |
p.R163* | UCEC | 1 |
p.R211H | BRCA | 1 |
p.Y321H | BLCA | 1 |
p.R45Q | LUSC | 1 |
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TissGeneCNV for PIPOX |
Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples) (TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16) |
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TissGeneFusions for PIPOX |
Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
Chimerdb3.0 | ChiTaRs | NA | AA704520 | SETD2-PIPOX | chr3:47139652 | chr17:27382101 | |
TCGAfusionPortal | PRADA | BRCA | TCGA-A2-A1FW-01A | GON4L-PIPOX | In-frame | Chr1:155791265 | Chr17:27371877 |
TCGAfusionPortal | PRADA | BRCA | TCGA-BH-A18G-01A | TAOK1-PIPOX | In-frame | Chr17:27794234 | Chr17:27371877 |
TCGAfusionPortal | PRADA | BRCA | TCGA-OL-A5RZ-01A | KSR1-PIPOX | In-frame | Chr17:25783900 | Chr17:27371877 |
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TissGeneNet for PIPOX |
Co-expressed gene networks based on protein-protein interaction data (CePIN) (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (PINA2 ppi data) |
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TissGeneProg for PIPOX |
Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image to enlarge it in a new window. |
Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types (TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16) (TCGA clinicalMatrix, phenotype data, version 2016-04-27) * Click on the image enlarge it in a new window. |
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TissGeneClin for PIPOX |
TissGeneDrug for PIPOX |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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TissGeneDisease for PIPOX |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0006142 | Malignant neoplasm of breast | 2 | BeFree |
umls:C0282528 | Peroxisomal Disorders | 2 | BeFree,CTD_human |
umls:C0678222 | Breast Carcinoma | 2 | BeFree |
umls:C0033578 | Prostatic Neoplasms | 1 | BeFree |
umls:C0033860 | Psoriasis | 1 | BeFree |
umls:C0279565 | Invasive Lobular Breast Carcinoma | 1 | BeFree |
umls:C0343055 | Generalized pustular psoriasis | 1 | BeFree |
umls:C1449563 | Cardiomyopathy, Familial Idiopathic | 1 | BeFree |
umls:C1832200 | Peroxisome biogenesis disorders | 1 | BeFree |