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| TissGeneSummary for MSH4 |
 Gene summary |
| Basic gene information | Gene symbol | MSH4 |
| Gene name | mutS homolog 4 | |
| Synonyms | - | |
| Cytomap | UCSC genome browser: 1p31 | |
| Type of gene | protein-coding | |
| RefGenes | NM_002440.3, | |
| Description | hMSH4mutS protein homolog 4 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 602105 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000057468 | ||
| HPRD : 03658 | ||
| Vega : OTTHUMG00000009788 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_MSH4 | |
| BioGPS: 4438 | ||
| Pathway | NCI Pathway Interaction Database: MSH4 | |
| KEGG: MSH4 | ||
| REACTOME: MSH4 | ||
| Pathway Commons: MSH4 | ||
| Context | iHOP: MSH4 | |
| ligand binding site mutation search in PubMed: MSH4 | ||
| UCL Cancer Institute: MSH4 | ||
| 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) | Testis | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | TGCT | |
| Reference showing the relevant tissue of MSH4 | ||
| 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 MSH4 |
| 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) |
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| 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) |
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| 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. |
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| 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) |
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| - 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 |
| COAD | -1.170435636 | -2.265466405 | 1.095030769 | 0.00184 | 0.004995589 |
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| TissGene-miRNA for MSH4 |
| 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 MSH4 |
| TissGeneSNV for MSH4 |
| 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. |
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| 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) |
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| - nsSNVs sorted by frequency. |
| AAchange | Cancer type | # samples |
| p.E730K | UCEC | 3 |
| p.D510Y | UCEC | 2 |
| p.R910Q | UCEC | 2 |
| p.E825* | UCEC | 2 |
| p.K818N | UCEC | 2 |
| p.T395R | BLCA | 1 |
| p.K918N | UCEC | 1 |
| p.N442S | THYM | 1 |
| p.E639* | UCEC | 1 |
| p.Y829* | LUAD | 1 |
| p.E307* | STAD | 1 |
| p.P805S | SKCM | 1 |
| p.Q377E | OV | 1 |
| p.A74T | UCS | 1 |
| p.S704L | SKCM | 1 |
| p.R349* | HNSC | 1 |
| p.S12C | LUAD | 1 |
| p.R822I | UCEC | 1 |
| p.Q404X | SKCM | 1 |
| p.A260T | UCEC | 1 |
| p.I228T | HNSC | 1 |
| p.K933N | HNSC | 1 |
| p.E247K | BLCA | 1 |
| p.M740I | SKCM | 1 |
| p.I546L | LUSC | 1 |
| p.S658Y | UCEC | 1 |
| p.S584F | STAD | 1 |
| p.R714K | UCEC | 1 |
| p.S263I | LUAD | 1 |
| p.M683K | LUAD | 1 |
| p.A887V | COAD | 1 |
| p.R894S | UCEC | 1 |
| p.S400C | BLCA | 1 |
| p.D551G | LUAD | 1 |
| p.E863K | HNSC | 1 |
| p.E247G | READ | 1 |
| p.S20W | LUAD | 1 |
| p.R24L | LUAD | 1 |
| p.E660* | LUAD | 1 |
| p.S561F | LIHC | 1 |
| p.G844A | OV | 1 |
| p.S914G | HNSC | 1 |
| p.K417N | UCEC | 1 |
| p.P14L | SKCM | 1 |
| p.I911M | LIHC | 1 |
| p.S856* | HNSC | 1 |
| p.P71S | SKCM | 1 |
| p.D111Y | UCEC | 1 |
| p.F232S | CESC | 1 |
| p.P406L | SKCM | 1 |
| p.Q377* | LUAD | 1 |
| p.S20L | PAAD | 1 |
| p.I259K | LUSC | 1 |
| p.S212L | UCEC | 1 |
| p.L498F | SKCM | 1 |
| p.P925L | SKCM | 1 |
| p.E261K | CESC | 1 |
| p.L498I | READ | 1 |
| p.E170G | HNSC | 1 |
| p.E769K | BLCA | 1 |
| p.Y589D | READ | 1 |
| p.S566Y | UCEC | 1 |
| p.D111N | KIRP | 1 |
| p.E321* | LUAD | 1 |
| p.V388F | ESCA | 1 |
| p.I494V | HNSC | 1 |
| p.R368I | UCEC | 1 |
| p.E739* | UCEC | 1 |
| p.Q404* | SKCM | 1 |
| p.R350Q | READ | 1 |
| p.I209M | COAD | 1 |
| p.H333D | CESC | 1 |
| p.E863K | LUSC | 1 |
| p.E730K | SKCM | 1 |
| p.E605X | ESCA | 1 |
| p.A627D | BLCA | 1 |
| p.M173I | LUAD | 1 |
| p.V817I | LUSC | 1 |
| p.E507* | LUAD | 1 |
| p.E742* | OV | 1 |
| p.G536E | SKCM | 1 |
| p.K564N | UCEC | 1 |
| p.P39L | HNSC | 1 |
| p.P29S | SKCM | 1 |
| p.A448S | SARC | 1 |
| p.G140E | GBM | 1 |
| p.F245L | BLCA | 1 |
| p.I575V | LUAD | 1 |
| p.T735I | LUAD | 1 |
| p.M622I | LUAD | 1 |
| p.S44* | BLCA | 1 |
| p.T484N | KIRC | 1 |
| p.D923V | STAD | 1 |
| p.E507D | UCEC | 1 |
| p.S314L | HNSC | 1 |
| p.F336L | ESCA | 1 |
| p.S914N | COAD | 1 |
| p.I500K | LUAD | 1 |
| p.E742D | UCEC | 1 |
| p.S98L | HNSC | 1 |
| p.R350Q | UCEC | 1 |
| p.R714I | UCEC | 1 |
| p.G844E | ESCA | 1 |
| p.E605* | ESCA | 1 |
| p.L781I | LUAD | 1 |
| p.L204V | STAD | 1 |
| p.E849D | UCEC | 1 |
| p.Q397* | LUAD | 1 |
| p.Y505C | PAAD | 1 |
| p.N180K | STAD | 1 |
| p.A892S | BLCA | 1 |
| p.G172V | THYM | 1 |
| p.R910Q | SKCM | 1 |
| p.Q485H | UCEC | 1 |
| p.S271F | SKCM | 1 |
| p.I827N | COAD | 1 |
| p.A92P | LUAD | 1 |
| p.A861V | LIHC | 1 |
| p.F497Y | SKCM | 1 |
| p.M810V | LUAD | 1 |
| p.E321Q | CESC | 1 |
| p.A659S | SARC | 1 |
| p.E660V | LUAD | 1 |
| p.A899T | KIRP | 1 |
| p.G86V | KIRC | 1 |
| p.V563L | LUAD | 1 |
| p.K656N | GBM | 1 |
| p.P526S | SKCM | 1 |
| p.N674T | UCEC | 1 |
| p.X937Y | COAD | 1 |
| p.P925S | SKCM | 1 |
| p.Q377E | BLCA | 1 |
| p.S19* | BLCA | 1 |
| p.R457M | STAD | 1 |
| p.N319H | KIRP | 1 |
| p.R535G | BLCA | 1 |
| p.A448D | LUSC | 1 |
| p.K835M | LUAD | 1 |
| p.S314L | CESC | 1 |
| p.Y475C | UCEC | 1 |
| p.A174T | STAD | 1 |
| p.N191S | STAD | 1 |
| p.R110* | BRCA | 1 |
| p.K233N | THYM | 1 |
| p.E840D | COAD | 1 |
| p.E779K | LUAD | 1 |
| p.R352H | PRAD | 1 |
| p.S271F | LGG | 1 |
| p.P433S | SKCM | 1 |
| p.E307X | STAD | 1 |
| p.S12T | READ | 1 |
| p.T788A | MESO | 1 |
| p.K917N | UCEC | 1 |
| p.R391I | COAD | 1 |
| p.M737I | HNSC | 1 |
| p.L690F | LUSC | 1 |
| p.T570R | LUAD | 1 |
| p.S555P | STAD | 1 |
| p.M577I | LUAD | 1 |
| p.Y449* | UCEC | 1 |
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| TissGeneCNV for MSH4 |
| 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 MSH4 |
| 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 | BI024400 | MSH4-ZNF652 | chr1:76280770 | chr17:47437597 | |
| TCGAfusionPortal | PRADA | BRCA | TCGA-AC-A3QQ-01A | MSH4-RABGGTB | Out-of-frame | Chr1:76288266 | Chr1:76260898 |
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| TissGeneNet for MSH4 |
| 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) |
| BRCA (tumor) | BRCA (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| COAD (tumor) | COAD (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| HNSC (tumor) | HNSC (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| KICH (tumor) | KICH (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| KIRC (tumor) | KIRC (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| KIRP (tumor) | KIRP (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| LIHC (tumor) | LIHC (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| LUAD (tumor) | LUAD (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| LUSC (tumor) | LUSC (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| PRAD (tumor) | PRAD (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| STAD (tumor) | STAD (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| THCA (tumor) | THCA (normal) |
| MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (tumor) | MSH4, MLH1, MLH3, RAD51, RPA1, VBP1, MSH5 (normal) |
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| TissGeneProg for MSH4 |
| 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. |
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| 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. |
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| 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. |
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| 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 MSH4 |
| TissGeneDrug for MSH4 |
| 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 MSH4 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0004509 | Azoospermia | 1 | GAD |
| umls:C0006142 | Malignant neoplasm of breast | 1 | BeFree |
| umls:C0017636 | Glioblastoma | 1 | BeFree |
| umls:C0017638 | Glioma | 1 | BeFree |
| umls:C0027809 | Neurilemmoma | 1 | BeFree |
| umls:C0028960 | Oligospermia | 1 | GAD |
| umls:C0085215 | Ovarian Failure, Premature | 1 | BeFree,GAD |
| umls:C0334579 | Anaplastic astrocytoma | 1 | BeFree |
| umls:C0677886 | Epithelial ovarian cancer | 1 | GAD |
| umls:C0678222 | Breast Carcinoma | 1 | BeFree |
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