TissGeneSummary for TRIM42 |
Gene summary |
Basic gene information | Gene symbol | TRIM42 |
Gene name | tripartite motif containing 42 | |
Synonyms | PPP1R40 | |
Cytomap | UCSC genome browser: 3q23 | |
Type of gene | protein-coding | |
RefGenes | NM_152616.4, | |
Description | protein phosphatase 1, regulatory subunit 40tripartite motif-containing 42tripartite motif-containing protein 42 | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000155890 | ||
HPRD : 15559 | ||
Vega : OTTHUMG00000160170 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_TRIM42 | |
BioGPS: 287015 | ||
Pathway | NCI Pathway Interaction Database: TRIM42 | |
KEGG: TRIM42 | ||
REACTOME: TRIM42 | ||
Pathway Commons: TRIM42 | ||
Context | iHOP: TRIM42 | |
ligand binding site mutation search in PubMed: TRIM42 | ||
UCL Cancer Institute: TRIM42 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | HPA,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Testis | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | TGCT | |
Reference showing the relevant tissue of TRIM42 | ||
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 TRIM42 |
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 |
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TissGene-miRNA for TRIM42 |
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 TRIM42 |
TissGeneSNV for TRIM42 |
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.Q127K | LUAD | 2 |
p.M635I | HNSC | 1 |
p.L237F | SKCM | 1 |
p.R35W | STAD | 1 |
p.D658N | LUAD | 1 |
p.T460A | PRAD | 1 |
p.R94C | LUAD | 1 |
p.L504Q | LUAD | 1 |
p.C88F | ESCA | 1 |
p.D322N | SKCM | 1 |
p.E375Q | STAD | 1 |
p.A177V | COAD | 1 |
p.G501R | STAD | 1 |
p.T670P | STAD | 1 |
p.M515T | SKCM | 1 |
p.E130K | SKCM | 1 |
p.Y218* | BLCA | 1 |
p.E59Q | HNSC | 1 |
p.K369N | STAD | 1 |
p.E636K | SKCM | 1 |
p.R217G | LUAD | 1 |
p.P61T | LUAD | 1 |
p.R245C | PAAD | 1 |
p.A71V | BLCA | 1 |
p.G552C | THYM | 1 |
p.D192Y | LUAD | 1 |
p.R228H | STAD | 1 |
p.R245C | UCEC | 1 |
p.V601M | OV | 1 |
p.H267N | LUSC | 1 |
p.R498C | THYM | 1 |
p.R213H | STAD | 1 |
p.G234E | SARC | 1 |
p.R217P | HNSC | 1 |
p.S583F | SKCM | 1 |
p.Y574* | LUSC | 1 |
p.W623C | BLCA | 1 |
p.P645L | SKCM | 1 |
p.G570D | SKCM | 1 |
p.N36K | LUSC | 1 |
p.R231H | HNSC | 1 |
p.K447T | STAD | 1 |
p.S114F | SKCM | 1 |
p.D192N | READ | 1 |
p.Y574C | HNSC | 1 |
p.R255H | HNSC | 1 |
p.Q20X | THYM | 1 |
p.R107H | LGG | 1 |
p.C26Y | UCEC | 1 |
p.E357K | SKCM | 1 |
p.P645S | SKCM | 1 |
p.T459N | LUSC | 1 |
p.E332K | STAD | 1 |
p.M5L | BLCA | 1 |
p.R213H | PAAD | 1 |
p.Q458* | SKCM | 1 |
p.E2K | SKCM | 1 |
p.E167K | SKCM | 1 |
p.G557R | SKCM | 1 |
p.L165P | SARC | 1 |
p.S499F | SKCM | 1 |
p.P507L | SKCM | 1 |
p.D478Y | HNSC | 1 |
p.R245C | COAD | 1 |
p.R405G | COAD | 1 |
p.E634K | HNSC | 1 |
p.S156L | SKCM | 1 |
p.F312L | HNSC | 1 |
p.V276L | SKCM | 1 |
p.S632C | BRCA | 1 |
p.V7I | GBM | 1 |
p.R242C | COAD | 1 |
p.M539K | ESCA | 1 |
p.R377G | HNSC | 1 |
p.S537F | SKCM | 1 |
p.S536R | LUAD | 1 |
p.L86P | BRCA | 1 |
p.R373Q | SKCM | 1 |
p.F315L | ESCA | 1 |
p.R48Q | BLCA | 1 |
p.C76S | LUAD | 1 |
p.R97H | BLCA | 1 |
p.S268L | COAD | 1 |
p.V630M | COAD | 1 |
p.E422K | SKCM | 1 |
p.G234R | SARC | 1 |
p.S583T | SKCM | 1 |
p.Y44C | BLCA | 1 |
p.S536G | ESCA | 1 |
p.N663H | COAD | 1 |
p.S404F | PAAD | 1 |
p.D125H | BLCA | 1 |
p.L449M | LUAD | 1 |
p.T13A | READ | 1 |
p.D368Y | LUAD | 1 |
p.R94H | GBM | 1 |
p.E283K | BLCA | 1 |
p.R498H | UCEC | 1 |
p.M148I | LUAD | 1 |
p.A136T | LUAD | 1 |
p.E396K | LUAD | 1 |
p.E375* | OV | 1 |
p.S33* | BLCA | 1 |
p.S587N | COAD | 1 |
p.E34G | SKCM | 1 |
p.C67F | LUAD | 1 |
p.S339I | LUAD | 1 |
p.Y675F | READ | 1 |
p.S538Y | UCEC | 1 |
p.Q458X | SKCM | 1 |
p.R217C | READ | 1 |
p.E287K | CESC | 1 |
p.E221K | SKCM | 1 |
p.R297C | HNSC | 1 |
p.N683H | KIRP | 1 |
p.E207K | SKCM | 1 |
p.R107S | LUAD | 1 |
p.A340T | COAD | 1 |
p.Q174H | BRCA | 1 |
p.C169Y | LUSC | 1 |
p.Q585K | LUSC | 1 |
p.R48W | STAD | 1 |
p.E432Q | SKCM | 1 |
p.I291T | UCEC | 1 |
p.E283K | BRCA | 1 |
p.K202N | CESC | 1 |
p.V648L | LUAD | 1 |
p.E408K | SKCM | 1 |
p.R303L | LUAD | 1 |
p.R171Q | UCEC | 1 |
p.V440M | PRAD | 1 |
p.K704N | ESCA | 1 |
p.G528D | PAAD | 1 |
p.Q397H | BLCA | 1 |
p.S268L | ACC | 1 |
p.R250C | LGG | 1 |
p.D322E | LIHC | 1 |
p.R213H | HNSC | 1 |
p.V7I | PAAD | 1 |
p.S339R | LUAD | 1 |
p.N421I | READ | 1 |
p.Q239L | LIHC | 1 |
p.N72S | PRAD | 1 |
p.R97C | PAAD | 1 |
p.R657W | COAD | 1 |
p.W14* | LUSC | 1 |
p.E481K | CESC | 1 |
p.R217C | COAD | 1 |
p.R16T | BRCA | 1 |
p.I656L | STAD | 1 |
p.C625R | LIHC | 1 |
p.T514R | SKCM | 1 |
p.K431M | HNSC | 1 |
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TissGeneCNV for TRIM42 |
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 TRIM42 |
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 |
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TissGeneNet for TRIM42 |
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 TRIM42 |
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 TRIM42 |
TissGeneDrug for TRIM42 |
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 TRIM42 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0005586 | Bipolar Disorder | 1 | GWASCAT |
umls:C0026769 | Multiple Sclerosis | 1 | GAD |
umls:C0029925 | Ovarian Carcinoma | 1 | BeFree |
umls:C0040336 | Tobacco Use Disorder | 1 | GAD |
umls:C0677886 | Epithelial ovarian cancer | 1 | BeFree |