TissGeneSummary for PM20D1 |
Gene summary |
Basic gene information | Gene symbol | PM20D1 |
Gene name | peptidase M20 domain containing 1 | |
Synonyms | Cps1 | |
Cytomap | UCSC genome browser: 1q32.1 | |
Type of gene | protein-coding | |
RefGenes | NM_152491.4, | |
Description | peptidase M20 domain-containing protein 1probable carboxypeptidase PM20D1 | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000162877 | ||
HPRD : 08133 | ||
Vega : OTTHUMG00000035999 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PM20D1 | |
BioGPS: 148811 | ||
Pathway | NCI Pathway Interaction Database: PM20D1 | |
KEGG: PM20D1 | ||
REACTOME: PM20D1 | ||
Pathway Commons: PM20D1 | ||
Context | iHOP: PM20D1 | |
ligand binding site mutation search in PubMed: PM20D1 | ||
UCL Cancer Institute: PM20D1 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | ||
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | PancreasSkin | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | PAADSKCM | |
Reference showing the relevant tissue of PM20D1 | ||
Description by TissGene annotations |
* 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 |
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TissGeneExp for PM20D1 |
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 |
KIRC | -0.440140757 | 2.021366188 | -2.461506944 | 1.83E-09 | 5.95E-09 |
KICH | -1.86638059 | 0.84671941 | -2.7131 | 1.55E-05 | 4.71E-05 |
KIRP | -0.788020965 | 2.600841535 | -3.3888625 | 6.62E-07 | 3.52E-06 |
BRCA | -1.609891853 | 0.128893235 | -1.738785088 | 2.64E-21 | 2.08E-20 |
LUSC | -1.636242472 | -0.126134629 | -1.510107843 | 6.31E-08 | 1.82E-07 |
LIHC | -1.94216659 | -0.80022459 | -1.141942 | 3.54E-06 | 1.69E-05 |
STAD | -0.75771784 | 0.343997785 | -1.101715625 | 0.0154 | 0.048103611 |
HNSC | -2.096222636 | -1.09215752 | -1.004065116 | 0.0188 | 0.042089552 |
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TissGene-miRNA for PM20D1 |
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 PM20D1 |
TissGeneSNV for PM20D1 |
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.R48S | LUAD | 1 |
p.V6I | COAD | 1 |
p.D157N | SKCM | 1 |
p.A75T | UCEC | 1 |
p.S418F | BLCA | 1 |
p.D459N | UCEC | 1 |
p.P62T | PRAD | 1 |
p.R175S | LUSC | 1 |
p.E47K | SKCM | 1 |
p.P88S | SKCM | 1 |
p.V399I | STAD | 1 |
p.Q111* | SKCM | 1 |
p.R146H | STAD | 1 |
p.E422K | SKCM | 1 |
p.T415A | COAD | 1 |
p.Y82H | LUAD | 1 |
p.E278K | SKCM | 1 |
p.T21P | PAAD | 1 |
p.R322M | COAD | 1 |
p.E145K | LUAD | 1 |
p.R24K | SKCM | 1 |
p.S30R | LGG | 1 |
p.H498Y | BLCA | 1 |
p.P40H | UCEC | 1 |
p.T491R | ACC | 1 |
p.N442Y | UCEC | 1 |
p.R326I | READ | 1 |
p.Q111X | SKCM | 1 |
p.E484Q | HNSC | 1 |
p.S68Y | COAD | 1 |
p.A474S | BRCA | 1 |
p.R413C | STAD | 1 |
p.P62L | STAD | 1 |
p.G268D | THYM | 1 |
p.V101M | SKCM | 1 |
p.P261L | THCA | 1 |
p.V101M | READ | 1 |
p.D114N | SKCM | 1 |
p.H84R | COAD | 1 |
p.S25L | UCEC | 1 |
p.M1K | KIRC | 1 |
p.L499P | THYM | 1 |
p.D459Y | UCEC | 1 |
p.R146C | LUSC | 1 |
p.V6F | LGG | 1 |
p.A124T | STAD | 1 |
p.G346R | COAD | 1 |
p.S113L | SARC | 1 |
p.H33Y | COAD | 1 |
p.V22I | LUSC | 1 |
p.V210I | UCEC | 1 |
p.R4W | LGG | 1 |
p.V101M | UCEC | 1 |
p.T293S | LIHC | 1 |
p.N246S | STAD | 1 |
p.N434S | UCEC | 1 |
p.D225Y | UCEC | 1 |
p.S41C | BRCA | 1 |
p.S431Y | COAD | 1 |
p.V399I | HNSC | 1 |
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TissGeneCNV for PM20D1 |
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 PM20D1 |
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 |
TCGAfusionPortal | PRADA | GBM | TCGA-19-2619-01A | NUCKS1-PM20D1 | In-frame | Chr1:205719085 | Chr1:205811017 |
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TissGeneNet for PM20D1 |
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 PM20D1 |
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 PM20D1 |
TissGeneDrug for PM20D1 |
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 PM20D1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0751753 | Carbamoyl-Phosphate Synthase I Deficiency Disease | 4 | BeFree |
umls:C2239176 | Liver carcinoma | 3 | BeFree |
umls:C0023903 | Liver neoplasms | 2 | BeFree |
umls:C0010414 | Infection by Cryptococcus neoformans | 1 | BeFree |
umls:C0025362 | Mental Retardation | 1 | BeFree |
umls:C0030567 | Parkinson Disease | 1 | GAD |
umls:C0038454 | Cerebrovascular accident | 1 | BeFree |
umls:C0154246 | Urea Cycle Disorders, Inborn | 1 | BeFree |
umls:C0279000 | Liver and Intrahepatic Biliary Tract Carcinoma | 1 | BeFree |
umls:C0345904 | Malignant neoplasm of liver | 1 | BeFree |
umls:C0520459 | Necrotizing Enterocolitis | 1 | BeFree |
umls:C1512409 | Hepatocarcinogenesis | 1 | BeFree |