TissGDB

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

TissGeneSummary for ZMAT4

Gene summary

Basic gene information	Gene symbol	ZMAT4
	Gene name	zinc finger, matrin-type 4
	Synonyms	-
	Cytomap	UCSC genome browser: 8p11.21
	Type of gene	protein-coding
	RefGenes	NM_001135731.1, NM_024645.2,
	Description	zinc finger matrin-type protein 4zinc finger, matrin type 4
	Modification date	20141207
dbXrefs	HGNC : HGNC
	Ensembl : ENSG00000165061
	HPRD : 07837
	Vega : OTTHUMG00000164049
Protein	UniProt: go to UniProt's Cross Reference DB Table
Expression	CleanEX: HS_ZMAT4
	BioGPS: 79698
Pathway	NCI Pathway Interaction Database: ZMAT4
	KEGG: ZMAT4
	REACTOME: ZMAT4
	Pathway Commons: ZMAT4
Context	iHOP: ZMAT4
	ligand binding site mutation search in PubMed: ZMAT4
	UCL Cancer Institute: ZMAT4
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)	Thyroid glandEye
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)	THCAUVM
Reference showing the relevant tissue of ZMAT4
Description by TissGene annotations	Have significant anti-correlated miRNA Fused withTSGene Fused withOncogene

* 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 ZMAT4

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
COAD	-2.771353649	-0.734080572	-2.037273077	7.36E-09	6.78E-08
THCA	0.392921449	5.523963821	-5.131042373	1.81E-17	3.75E-16
KICH	-2.957080111	-0.613968111	-2.343112	3.38E-09	1.92E-08
KIRC	0.846210667	-0.532089333	1.3783	0.000694	0.001329277
LUAD	-1.332664525	-2.602193835	1.26952931	0.000117	0.000292565
STAD	-3.032329611	-1.305557736	-1.726771875	1.32E-05	0.000146964

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TissGene-miRNA for ZMAT4

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
UCS	hsa-miR-96-5p	MIMAT0000095	0.024	-0.3	56

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TissGeneMut for ZMAT4

TissGeneSNV for ZMAT4

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.Q95*	SKCM	3
p.S92F	SKCM	2
p.S4F	LIHC	2
p.Q95X	SKCM	2
p.D72N	SKCM	1
p.D69G	BLCA	1
p.C77S	LUSC	1
p.R127Q	COAD	1
p.G148E	COAD	1
p.T115I	UCEC	1
p.S136F	SKCM	1
p.D144H	PAAD	1
p.L79H	UCEC	1
p.R36L	LUAD	1
p.M159I	SKCM	1
p.G183W	LIHC	1
p.A135T	PAAD	1
p.K124R	STAD	1
p.M188I	LUAD	1
p.E34K	COAD	1
p.S204C	LUAD	1
p.V88M	SKCM	1
p.V89A	HNSC	1
p.A57S	STAD	1
p.Y15C	UCEC	1
p.Q95E	CESC	1
p.Q161K	SARC	1
p.E63K	SKCM	1
p.Q139X	SKCM	1
p.V71L	LUAD	1
p.D91N	STAD	1
p.H222N	LUAD	1
p.L186M	LUAD	1
p.S86L	COAD	1
p.M188I	SKCM	1
p.R127W	UCEC	1
p.A173V	SKCM	1
p.C16X	COAD	1
p.R196S	LUSC	1
p.W153*	LIHC	1
p.T115I	SKCM	1
p.L217M	LUAD	1
p.M128I	SKCM	1
p.E190K	SKCM	1
p.R61Q	STAD	1
p.H99Y	SKCM	1
p.C147F	LUAD	1
p.A68D	LUAD	1
p.P132L	BLCA	1
p.R145K	SKCM	1
p.T115I	LGG	1
p.A174T	SKCM	1
p.G219A	UCS	1
p.N208K	ESCA	1
p.F84L	GBM	1
p.A90V	LIHC	1
p.R192*	LUAD	1
p.D187H	BLCA	1
p.R127Q	LGG	1
p.Q139*	SKCM	1

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TissGeneCNV for ZMAT4

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 ZMAT4

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	BY798534	ZMAT4-ZMAT4		chr8:40438740	chr8:40554515
Chimerdb3.0	FusionScan	BRCA	TCGA-AC-A2BM-01A	BAG4-ZMAT4	CDS-5'UTR	chr8:38034657	chr8:40683199
Chimerdb3.0	FusionScan	BRCA	TCGA-A2-A0ES-01A	UVRAG-ZMAT4	In-Frame	chr11:75728024	chr8:40389757
Chimerdb3.0	TopHat-Fusion	BRCA	TCGA-A2-A0EX-01A	LSM1-ZMAT4	CDS-5'UTR	chr8:38027319	chr8:40695251
Chimerdb3.0	TopHat-Fusion	BRCA	TCGA-A2-A0EX-01A	LSM1-ZMAT4	CDS-5'UTR	chr8:38027319	chr8:40696600
Chimerdb3.0	TopHat-Fusion	BRCA	TCGA-A2-A0EX-01A	LSM1-ZMAT4	CDS-5'UTR	chr8:38029482	chr8:40696600
Chimerdb3.0	TopHat-Fusion	BRCA	TCGA-EW-A1IX-01A	WHSC1L1-ZMAT4	Out-of-Frame	chr8:38172164	chr8:40389756
TCGAfusionPortal	PRADA	BLCA	TCGA-GD-A2C5-01A	GGNBP2-ZMAT4	Out-of-frame	Chr17:34913176	Chr8:40554920
TCGAfusionPortal	PRADA	BRCA	TCGA-A2-A0ES-01A	UVRAG-ZMAT4	In-frame	Chr11:75728024	Chr8:40389757
TCGAfusionPortal	PRADA	BRCA	TCGA-A2-A0EW-01A	FNTA-ZMAT4	CDS-5UTR	Chr8:42932507	Chr8:40683199
TCGAfusionPortal	PRADA	BRCA	TCGA-AC-A2BM-01A	BAG4-ZMAT4	CDS-5UTR	Chr8:38034657	Chr8:40683199
TCGAfusionPortal	PRADA	BRCA	TCGA-EW-A1IX-01A	WHSC1L1-ZMAT4	Out-of-frame	Chr8:38172165	Chr8:40389757
TCGAfusionPortal	PRADA	LUSC	TCGA-60-2708-01A	SLC20A2-ZMAT4	5UTR-CDS	Chr8:42358549	Chr8:40389757

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TissGeneNet for ZMAT4

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 ZMAT4

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 ZMAT4

TissGeneDrug for ZMAT4

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 ZMAT4

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

Disease ID	Disease name	# pubmeds	Source
umls:C0034951	Refractive Errors	2	BeFree,GWASCAT
umls:C0027092	Myopia	1	BeFree