TissGeneSummary for KRT4 |
Gene summary |
Basic gene information | Gene symbol | KRT4 |
Gene name | keratin 4 | |
Synonyms | CK-4|CK4|CYK4|K4|WSN1 | |
Cytomap | UCSC genome browser: 12q13.13 | |
Type of gene | protein-coding | |
RefGenes | NM_002272.3, | |
Description | cytokeratin 4keratin, type II cytoskeletal 4type-II keratin Kb4 | |
Modification date | 20141207 | |
dbXrefs | MIM : 123940 | |
HGNC : HGNC | ||
Ensembl : ENSG00000170477 | ||
HPRD : 00478 | ||
Vega : OTTHUMG00000169800 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_KRT4 | |
BioGPS: 3851 | ||
Pathway | NCI Pathway Interaction Database: KRT4 | |
KEGG: KRT4 | ||
REACTOME: KRT4 | ||
Pathway Commons: KRT4 | ||
Context | iHOP: KRT4 | |
ligand binding site mutation search in PubMed: KRT4 | ||
UCL Cancer Institute: KRT4 | ||
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) | Esophagus | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | ESCA | |
Reference showing the relevant tissue of KRT4 | ||
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 KRT4 |
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 |
LUSC | 2.255788421 | 5.114100186 | -2.858311765 | 2.91E-07 | 7.76E-07 |
HNSC | 5.071365347 | 12.15497465 | -7.083609302 | 1.82E-11 | 4.36E-10 |
LUAD | 0.106889165 | 5.363240889 | -5.256351724 | 7.44E-26 | 3.55E-24 |
PRAD | 1.038873979 | 3.01868744 | -1.979813462 | 0.000196 | 0.000771944 |
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TissGene-miRNA for KRT4 |
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 KRT4 |
TissGeneSNV for KRT4 |
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.R491Q | SKCM | 2 |
p.R49Q | SKCM | 2 |
p.Y513C | LUSC | 1 |
p.E342D | UCEC | 1 |
p.G120E | SKCM | 1 |
p.R282H | UCEC | 1 |
p.R374H | STAD | 1 |
p.T176M | COAD | 1 |
p.G475R | SKCM | 1 |
p.S32F | SKCM | 1 |
p.S64C | PAAD | 1 |
p.E139K | STAD | 1 |
p.G152E | LUSC | 1 |
p.R475C | PRAD | 1 |
p.S560I | OV | 1 |
p.D470Y | UCEC | 1 |
p.D17G | BRCA | 1 |
p.S70L | SKCM | 1 |
p.L129P | STAD | 1 |
p.K216R | KIRC | 1 |
p.G481A | LUAD | 1 |
p.R234C | COAD | 1 |
p.R491* | PRAD | 1 |
p.D27N | SKCM | 1 |
p.R300H | STAD | 1 |
p.S490F | SKCM | 1 |
p.R134Q | COAD | 1 |
p.E390K | SKCM | 1 |
p.G171S | SKCM | 1 |
p.M361I | SKCM | 1 |
p.G28V | LUAD | 1 |
p.A223V | STAD | 1 |
p.S72C | BLCA | 1 |
p.G131W | UCEC | 1 |
p.G95D | SKCM | 1 |
p.P121L | SARC | 1 |
p.G548E | HNSC | 1 |
p.K335T | STAD | 1 |
p.G13E | SKCM | 1 |
p.R83* | UCEC | 1 |
p.G131E | SKCM | 1 |
p.S564F | SKCM | 1 |
p.R270K | SARC | 1 |
p.R49Q | UCEC | 1 |
p.G131R | SKCM | 1 |
p.R494H | LUAD | 1 |
p.R270M | UCEC | 1 |
p.G71D | SKCM | 1 |
p.R491* | HNSC | 1 |
p.R124K | UCEC | 1 |
p.R401H | COAD | 1 |
p.R212H | STAD | 1 |
p.P195L | LGG | 1 |
p.R234H | BLCA | 1 |
p.T194N | GBM | 1 |
p.G15R | HNSC | 1 |
p.R143Q | UCEC | 1 |
p.G181R | SKCM | 1 |
p.S362T | PAAD | 1 |
p.E213K | STAD | 1 |
p.F222L | KIRC | 1 |
p.R49Q | BLCA | 1 |
p.F148L | KIRC | 1 |
p.R401C | COAD | 1 |
p.E399Q | HNSC | 1 |
p.K261T | STAD | 1 |
p.R321K | SKCM | 1 |
p.S306I | PRAD | 1 |
p.L55P | STAD | 1 |
p.S138C | PAAD | 1 |
p.L403M | KIRC | 1 |
p.V62A | STAD | 1 |
p.N232I | LUAD | 1 |
p.S267T | KIRP | 1 |
p.R300H | UCS | 1 |
p.S288T | PAAD | 1 |
p.V256E | KIRP | 1 |
p.R593G | MESO | 1 |
p.E228K | SKCM | 1 |
p.C116F | OV | 1 |
p.D433N | COAD | 1 |
p.R138H | STAD | 1 |
p.G46E | SKCM | 1 |
p.F225L | BLCA | 1 |
p.D507V | UCEC | 1 |
p.V330E | KIRP | 1 |
p.G419C | LUAD | 1 |
p.S142A | BRCA | 1 |
p.L209V | LUAD | 1 |
p.A66T | LIHC | 1 |
p.G57R | SKCM | 1 |
p.R69Q | COAD | 1 |
p.A149V | STAD | 1 |
p.D303G | HNSC | 1 |
p.R401C | PRAD | 1 |
p.S340L | SKCM | 1 |
p.K142R | KIRC | 1 |
p.R366L | LUAD | 1 |
p.R374H | UCS | 1 |
p.P121L | SKCM | 1 |
p.S108Y | LUAD | 1 |
p.R49P | OV | 1 |
p.R308H | BLCA | 1 |
p.G48D | HNSC | 1 |
p.R83P | CESC | 1 |
p.L275F | SKCM | 1 |
p.R395K | SKCM | 1 |
p.E465* | OV | 1 |
p.S193T | KIRP | 1 |
p.N344S | SKCM | 1 |
p.G107E | SKCM | 1 |
p.G87A | KICH | 1 |
p.G122D | HNSC | 1 |
p.P121S | SARC | 1 |
p.R22K | SKCM | 1 |
p.G46R | SKCM | 1 |
p.A149V | SKCM | 1 |
p.R308H | UCEC | 1 |
p.A35V | SKCM | 1 |
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TissGeneCNV for KRT4 |
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 KRT4 |
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 | DA761972 | S100A9-KRT4 | chr1:153333215 | chr12:53200524 | |
Chimerdb3.0 | ChiTaRs | NA | DA441162 | TSTD2-KRT4 | chr9:100368571 | chr12:53207410 | |
Chimerdb3.0 | ChiTaRs | NA | DA442077 | TSTD2-KRT4 | chr9:100368571 | chr12:53207455 | |
Chimerdb3.0 | ChiTaRs | NA | AW872714 | ITPRIP-KRT4 | chr10:106081556 | chr12:53200333 | |
Chimerdb3.0 | ChiTaRs | NA | AW238296 | KRT4-KRT4 | chr12:53200681 | chr12:53200341 | |
Chimerdb3.0 | ChiTaRs | NA | BF000870 | KRT4-KRT4 | chr12:53200681 | chr12:53200368 | |
Chimerdb3.0 | ChiTaRs | NA | BF592421 | KRT4-KRT4 | chr12:53200576 | chr12:53200593 | |
Chimerdb3.0 | ChiTaRs | NA | BF592632 | KRT4-KRT4 | chr12:53200576 | chr12:53200609 | |
Chimerdb3.0 | ChiTaRs | NA | AW265272 | KRT4-KRT4 | chr12:53200470 | chr12:53200638 | |
Chimerdb3.0 | ChiTaRs | NA | AW872697 | KRT4-KRT4 | chr12:53200681 | chr12:53200333 | |
Chimerdb3.0 | ChiTaRs | NA | DB325356 | KRT4-S100A9 | chr12:53200693 | chr1:153330832 | |
Chimerdb3.0 | ChiTaRs | NA | AW440166 | KRT4-KRT4 | chr12:53200681 | chr12:53200335 | |
Chimerdb3.0 | ChiTaRs | NA | BI850664 | KRT4-KRT4 | chr12:53200516 | chr12:53200521 | |
Chimerdb3.0 | FusionScan | HNSC | TCGA-CV-6935-11A | S100A9-KRT4 | In-Frame | chr1:153330909 | chr12:53202203 |
Chimerdb3.0 | FusionScan | ESCA | TCGA-IG-A625-01A | FUT11-KRT4 | In-Frame | chr10:75533573 | chr12:53204600 |
Chimerdb3.0 | TopHat-Fusion | STAD | TCGA-IC-A6RE-11A5 | S100A9-KRT4 | CDS-3'UTR | chr1:153333186 | chr12:53200369 |
Chimerdb3.0 | TopHat-Fusion | STAD | TCGA-IC-A6RE-11A5 | S100A9-KRT4 | 3'UTR-CDS | chr1:153333422 | chr12:53200942 |
Chimerdb3.0 | TopHat-Fusion | STAD | TCGA-IC-A6RE-11A5 | S100A9-KRT4 | 3'UTR-3'UTR | chr1:153333452 | chr12:53200509 |
Chimerdb3.0 | TopHat-Fusion | STAD | TCGA-IC-A6RE-11A5 | S100A9-KRT4 | 3'UTR-3'UTR | chr1:153333469 | chr12:53200518 |
Chimerdb3.0 | TopHat-Fusion | STAD | TCGA-IC-A6RE-11A5 | S100A9-KRT4 | 3'UTR-CDS | chr1:153333323 | chr12:53207543 |
Chimerdb3.0 | TopHat-Fusion | HNSC | TCGA-CV-7245-11A | S100A9-KRT4 | CDS-3'UTR | chr1:153333173 | chr12:53200407 |
Chimerdb3.0 | TopHat-Fusion | HNSC | TCGA-CV-6962-11A | S100A9-KRT4 | CDS-3'UTR | chr1:153333162 | chr12:53200681 |
Chimerdb3.0 | TopHat-Fusion | HNSC | TCGA-CV-6962-11A | S100A9-KRT4 | 3'UTR-CDS | chr1:153333394 | chr12:53201501 |
Chimerdb3.0 | TopHat-Fusion | HNSC | TCGA-CR-7393-01A | KRT4-S100A9 | 3'UTR-CDS | chr12:53200733 | chr1:153333149 |
Chimerdb3.0 | TopHat-Fusion | CESC | TCGA-DS-A1OB-01A | KRT5-KRT4 | In-Frame | chr12:52911723 | chr12:53203250 |
Chimerdb3.0 | TopHat-Fusion | STAD | TCGA-IC-A6RE-11A5 | S100A9-KRT4 | Out-of-Frame | chr1:153333259 | chr12:53207640 |
Chimerdb3.0 | TopHat-Fusion | STAD | TCGA-IC-A6RE-11A5 | S100A9-KRT4 | In-Frame | chr1:153333160 | chr12:53203261 |
Chimerdb3.0 | TopHat-Fusion | STAD | TCGA-IC-A6RE-11A5 | S100A9-KRT4 | Out-of-Frame | chr1:153333297 | chr12:53207674 |
Chimerdb3.0 | TopHat-Fusion | HNSC | TCGA-CV-7177-11A | S100A9-KRT4 | Out-of-Frame | chr1:153333152 | chr12:53207650 |
Chimerdb3.0 | TopHat-Fusion | HNSC | TCGA-CV-7177-11A | KRT7-KRT4 | Out-of-Frame | chr12:52639355 | chr12:53201531 |
Chimerdb3.0 | TopHat-Fusion | HNSC | TCGA-CV-7103-11A | S100A9-KRT4 | CDS-5'UTR | chr1:153333159 | chr12:53207847 |
Chimerdb3.0 | TopHat-Fusion | HNSC | TCGA-CV-6962-11A | KRT4-S100A9 | Out-of-Frame | chr12:53205548 | chr1:153333128 |
Chimerdb3.0 | TopHat-Fusion | HNSC | TCGA-CR-7393-01A | S100A9-KRT4 | In-Frame | chr1:153330835 | chr12:53203253 |
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TissGeneNet for KRT4 |
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 KRT4 |
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 KRT4 |
TissGeneDrug for KRT4 |
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 KRT4 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C1721005 | Leukokeratosis, Hereditary Mucosal | 6 | BeFree,CLINVAR,CTD_human |
umls:C0279626 | Squamous cell carcinoma of esophagus | 2 | BeFree |
umls:C0011616 | Contact Dermatitis | 1 | CTD_human |
umls:C4011926 | WHITE SPONGE NEVUS 1 | 1 | MGD,UNIPROT |