TissGDB

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	TissGeneSummary
	TissGeneExp
	TissGene-miRNA
	TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions
	TissGeneNet
	TissGeneProg
	TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for KRT13

Gene summary

Basic gene information	Gene symbol	KRT13
	Gene name	keratin 13
	Synonyms	CK13\|K13\|WSN2
	Cytomap	UCSC genome browser: 17q21.2
	Type of gene	protein-coding
	RefGenes	NM_002274.3, NM_153490.2,
	Description	CK-13cytokeratin 13cytokeratin-13keratin, type I cytoskeletal 13keratin-13
	Modification date	20141207
dbXrefs	MIM : 148065
	HGNC : HGNC
	Ensembl : ENSG00000171401
	HPRD : 01016
	Vega : OTTHUMG00000133434
Protein	UniProt: go to UniProt's Cross Reference DB Table
Expression	CleanEX: HS_KRT13
	BioGPS: 3860
Pathway	NCI Pathway Interaction Database: KRT13
	KEGG: KRT13
	REACTOME: KRT13
	Pathway Commons: KRT13
Context	iHOP: KRT13
	ligand binding site mutation search in PubMed: KRT13
	UCL Cancer Institute: KRT13
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 KRT13
Description by TissGene annotations	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:0007010	cytoskeleton organization	21371075
GO:0007010	cytoskeleton organization	21371075

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TissGeneExp for KRT13

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
HNSC	7.408382387	12.54701727	-5.138634884	5.05E-08	5.24E-07
LUAD	-2.237616931	-0.152304862	-2.085312069	1.09E-08	4.87E-08
THCA	-1.669323565	-3.36762187	1.698298305	7.76E-06	2.57E-05
PRAD	1.001264766	4.017149382	-3.015884615	3.07E-06	1.96E-05
LUSC	4.959748552	0.528354435	4.431394118	3.96E-09	1.29E-08
KICH	-5.025496311	-3.676244311	-1.349252	0.0108	0.019336474

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TissGene-miRNA for KRT13

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 KRT13

TissGeneSNV for KRT13

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.E249K	SKCM	2
p.D91N	SKCM	2
p.D113N	STAD	2
p.R201C	LGG	2
p.E217G	SKCM	1
p.S7N	PRAD	1
p.R163W	STAD	1
p.E230K	SKCM	1
p.A343V	STAD	1
p.R137H	COAD	1
p.G63C	UCEC	1
p.A206V	SKCM	1
p.R201C	GBM	1
p.I321T	STAD	1
p.R137C	STAD	1
p.R287G	KIRC	1
p.T348M	STAD	1
p.E410K	HNSC	1
p.E245Q	BLCA	1
p.R456H	OV	1
p.V49M	UCEC	1
p.T309S	KIRP	1
p.R201H	GBM	1
p.A414D	COAD	1
p.G25E	SKCM	1
p.D216H	LIHC	1
p.M262I	SKCM	1
p.E160D	SKCM	1
p.L215V	KIRC	1
p.V122G	BLCA	1
p.G74E	SKCM	1
p.R326H	LUSC	1
p.E230K	UCEC	1
p.L125M	STAD	1
p.K395Q	UCEC	1
p.Y156C	LUAD	1
p.S337F	SKCM	1
p.W139*	LUAD	1
p.W139*	STAD	1
p.G256R	HNSC	1
p.S153N	SKCM	1
p.S147G	THYM	1
p.M390L	LUSC	1
p.S337F	LAML	1
p.S440F	ESCA	1
p.E279K	SKCM	1
p.R201H	UCEC	1
p.G48S	PAAD	1
p.S117F	SKCM	1
p.T348M	KIRP	1
p.L360R	LUSC	1
p.D151Y	LUAD	1
p.Q143L	KIRP	1
p.R326H	LGG	1
p.T309N	LIHC	1
p.G40V	LUSC	1
p.R272C	BLCA	1
p.A403T	HNSC	1
p.R201C	LIHC	1
p.W139X	STAD	1
p.D151N	SKCM	1
p.V49M	COAD	1
p.G418D	COAD	1
p.R272S	PRAD	1
p.R201H	STAD	1
p.R456C	COAD	1
p.E160K	SKCM	1
p.R326S	LUAD	1
p.R272C	GBM	1
p.L69F	UCEC	1

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TissGeneCNV for KRT13

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 KRT13

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	AW265336	KRT13-KRT13		chr17:39657421	chr17:39657255
Chimerdb3.0	ChiTaRs	NA	CV318384	KRT13-KRT13		chr17:39659624	chr17:39658995
Chimerdb3.0	ChiTaRs	NA	DA448093	KRT13-GDI2		chr17:39661864	chr10:5842561
Chimerdb3.0	ChiTaRs	NA	DB013482	RPL27-KRT13		chr17:41154938	chr17:39661739
Chimerdb3.0	ChiTaRs	NA	CV314810	KRT13-KRT13		chr17:39657838	chr17:39657595
Chimerdb3.0	ChiTaRs	NA	DA764817	KRT13-MUC21		chr17:39661864	chr6:2248357
Chimerdb3.0	ChiTaRs	NA	BF734819	KRT13-FAM63B		chr17:39658715	chr15:59068312
Chimerdb3.0	ChiTaRs	NA	AW265406	KRT13-KRT13		chr17:39657454	chr17:39657452
Chimerdb3.0	FusionScan	ESCA	TCGA-2H-A9GJ-01A	KRT13-GDI2	Out-of-Frame	chr17:39658625	chr10:5808115
Chimerdb3.0	FusionScan	ESCA	TCGA-L5-A4OF-01A	KRT13-TIMM22	In-Frame	chr17:39658938	chr17:902751
Chimerdb3.0	FusionScan	ESCA	TCGA-L5-A4OF-01A	TRPV1-KRT13	Out-of-Frame	chr17:3474817	chr17:39659064
Chimerdb3.0	TopHat-Fusion	CESC	TCGA-DS-A5RQ-01A	KRT5-KRT13	3'UTR-CDS	chr12:52908449	chr17:39661541
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-7103-11A	DSP-KRT13	3'UTR-CDS	chr6:7586550	chr17:39661602
Chimerdb3.0	TopHat-Fusion	LUSC	TCGA-33-A5GW-01A	KRT13-KRT15	5'UTR-CDS	chr17:39661846	chr17:39671940
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-7177-11A	KRT13-MUC21	Out-of-Frame	chr17:39661409	chr6:30955224
Chimerdb3.0	TopHat-Fusion	CESC	TCGA-EA-A3QE-01A	PCBD2-KRT13	Out-of-Frame	chr5:134262839	chr17:39661635
Chimerdb3.0	TopHat-Fusion	CESC	TCGA-DS-A1OB-01A	PCBD2-KRT13	Out-of-Frame	chr5:134262840	chr17:39661588
Chimerdb3.0	TopHat-Fusion	CESC	TCGA-DS-A1OB-01A	PCBD2-KRT13	Out-of-Frame	chr5:134262845	chr17:39661519
Chimerdb3.0	TopHat-Fusion	CESC	TCGA-DS-A1OB-01A	PCBD2-KRT13	Out-of-Frame	chr5:134262852	chr17:39661596
Chimerdb3.0	TopHat-Fusion	CESC	TCGA-EA-A3QE-01A	PCBD2-KRT13	Out-of-Frame	chr5:134263503	chr17:39661635
Chimerdb3.0	TopHat-Fusion	CESC	TCGA-EA-A3HR-01A	PCBD2-KRT13	In-Frame	chr5:134260444	chr17:39661590
Chimerdb3.0	TopHat-Fusion	CESC	TCGA-EA-A3HR-01A	PCBD2-KRT13	In-Frame	chr5:134260444	chr17:39661614
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-7103-11A	KRT13-KRT15	In-Frame	chr17:39659047	chr17:39672221
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-6962-11A	KRT13-KRT6A	In-Frame	chr17:39659202	chr12:52882251
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-6962-11A	S100A9-KRT13	In-Frame	chr1:153333272	chr17:39661620
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-6962-11A	S100A9-KRT13	In-Frame	chr1:153333302	chr17:39661561
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-6962-11A	PCBD2-KRT13	Out-of-Frame	chr5:134260149	chr17:39661627
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-6962-11A	PCBD2-KRT13	In-Frame	chr5:134262391	chr17:39661625
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-6962-11A	PCBD2-KRT13	Out-of-Frame	chr5:134263532	chr17:39661591
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-6962-11A	PCBD2-KRT13	Out-of-Frame	chr5:134263532	chr17:39661615
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-6955-01A	SPRR1A-KRT13	Out-of-Frame	chr1:152957944	chr17:39661626
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-6955-01A	SPRR1B-KRT13	In-Frame	chr1:153005059	chr17:39661626
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-6961-11A	S100A9-KRT13	In-Frame	chr1:153333272	chr17:39661620
Chimerdb3.0	TopHat-Fusion	HNSC	TCGA-CV-6961-11A	KRT13-KRT16	Out-of-Frame	chr17:39658791	chr17:39767127

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TissGeneNet for KRT13

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)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

COAD (tumor)	COAD (normal)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

HNSC (tumor)	HNSC (normal)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

KICH (tumor)	KICH (normal)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

KIRC (tumor)	KIRC (normal)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

KIRP (tumor)	KIRP (normal)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

LIHC (tumor)	LIHC (normal)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

LUAD (tumor)	LUAD (normal)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

LUSC (tumor)	LUSC (normal)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

PRAD (tumor)	PRAD (normal)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

STAD (tumor)	STAD (normal)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

THCA (tumor)	THCA (normal)
KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (tumor)	KRT13, CAND1, CUL5, CUL2, APC, CUL4B, CUL3, CUL1, COPS5, NEDD8, KRT7 (normal)

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TissGeneProg for KRT13

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 KRT13

TissGeneDrug for KRT13

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 KRT13

Disease information associated with TissGene
(DisGeNet, 2016-06-01)

Disease ID	Disease name	# pubmeds	Source
umls:C1721005	Leukokeratosis, Hereditary Mucosal	7	BeFree,CTD_human
umls:C0007137	Squamous cell carcinoma	4	BeFree
umls:C4014321	WHITE SPONGE NEVUS 2	4	UNIPROT
umls:C0153381	Malignant neoplasm of mouth	2	BeFree
umls:C0220641	Lip and Oral Cavity Carcinoma	2	BeFree
umls:C0279626	Squamous cell carcinoma of esophagus	2	BeFree,CTD_human
umls:C0001418	Adenocarcinoma	1	LHGDN
umls:C0006142	Malignant neoplasm of breast	1	BeFree
umls:C0023531	Leukoplakia	1	BeFree
umls:C0026277	Mixed Salivary Gland Tumor	1	BeFree
umls:C0027627	Neoplasm Metastasis	1	BeFree
umls:C0151546	Oral Cavity Carcinoma	1	BeFree
umls:C0279628	Adenocarcinoma Of Esophagus	1	BeFree
umls:C0596263	Carcinogenesis	1	BeFree
umls:C0677055	CARCINOMA OF VULVA	1	BeFree
umls:C0678222	Breast Carcinoma	1	BeFree