TissGDB

Home

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

TissGeneSummary for GAN

Gene summary

Basic gene information	Gene symbol	GAN
	Gene name	gigaxonin
	Synonyms	GAN1\|KLHL16
	Cytomap	UCSC genome browser: 16q24.1
	Type of gene	protein-coding
	RefGenes	NM_022041.3,
	Description	kelch-like family member 16kelch-like protein 16
	Modification date	20141222
dbXrefs	MIM : 605379
	HGNC : HGNC
	HPRD : 05647
Protein	UniProt: go to UniProt's Cross Reference DB Table
Expression	CleanEX: HS_GAN
	BioGPS: 8139
Pathway	NCI Pathway Interaction Database: GAN
	KEGG: GAN
	REACTOME: GAN
	Pathway Commons: GAN
Context	iHOP: GAN
	ligand binding site mutation search in PubMed: GAN
	UCL Cancer Institute: GAN
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)	Skin
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)	SKCM
Reference showing the relevant tissue of GAN
Description by TissGene annotations	Have significant anti-correlated miRNA

* 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:0016567	protein ubiquitination	15983046
GO:0016567	protein ubiquitination	15983046

Top

TissGeneExp for GAN

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	1.171229398	-0.46176668	1.632996078	1.89E-18	1.81E-17

Top

TissGene-miRNA for GAN

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
ACC	hsa-miR-497-5p	MIMAT0002820	0.026	-0.27	78
ACC	hsa-miR-497-5p	MIMAT0002820	0.026	-0.27	78
LAML	hsa-miR-150-5p	MIMAT0000451	0.00033	-0.27	173
ACC	hsa-let-7d-5p	MIMAT0000065	0.014	-0.28	78
ACC	hsa-let-7d-5p	MIMAT0000065	0.014	-0.28	78
UCS	hsa-miR-190a-5p	MIMAT0000458	0.039	-0.28	56
UCS	hsa-let-7c-5p	MIMAT0000064	0.011	-0.34	56
UCS	hsa-miR-137	MIMAT0000429	0.03	-0.34	56

Top

TissGeneMut for GAN

TissGeneSNV for GAN

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.V189F	LUAD	2
p.P443S	SKCM	1
p.I129V	STAD	1
p.A291V	PAAD	1
p.N352S	HNSC	1
p.G474V	STAD	1
p.I575V	STAD	1
p.S323X	KIRC	1
p.S272F	SKCM	1
p.I251V	STAD	1
p.Y530F	COAD	1
p.R549I	CESC	1
p.S390Y	BRCA	1
p.P562S	SKCM	1
p.Q586*	BLCA	1
p.R567C	UCEC	1
p.S22C	HNSC	1
p.S390C	BLCA	1
p.A261V	COAD	1
p.E168A	LUAD	1
p.R479C	BLCA	1
p.P64L	LUAD	1
p.T70A	PAAD	1
p.A417V	STAD	1
p.R477Q	SKCM	1
p.S492P	PAAD	1
p.K287R	LUAD	1
p.R286Q	OV	1
p.R545C	UCEC	1
p.I73T	OV	1
p.E260G	GBM	1
p.K421N	KIRC	1
p.H213N	UCEC	1
p.E498K	LUAD	1
p.G374V	LUSC	1
p.R201X	READ	1
p.A220S	LUAD	1
p.S323*	KIRC	1
p.M218L	PRAD	1
p.S165G	STAD	1
p.Y61C	LIHC	1
p.D104Y	THYM	1
p.D37H	CESC	1
p.V149I	LGG	1
p.S79L	UCEC	1
p.F29L	LUAD	1
p.S183Y	COAD	1
p.E3K	BLCA	1
p.R566C	KIRP	1
p.Q176E	HNSC	1
p.T489I	HNSC	1
p.R232Q	BLCA	1
p.Y89C	UCEC	1
p.R138G	LUAD	1
p.G280X	ESCA	1
p.H556P	SKCM	1

Top

TissGeneCNV for GAN

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)

Top

TissGeneFusions for GAN

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	BQ308823	RRP1-GAN		chr21:45217839	chr16:81397417
Chimerdb3.0	ChiTaRs	NA	AK001100	MIR100HG-GAN		chr11:122033430	chr16:81365502
TCGAfusionPortal	PRADA	LUSC	TCGA-18-3412-01A	GAN-GRM7	Out-of-frame	Chr16:81348885	Chr3:7188139

Top

TissGeneNet for GAN

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)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

COAD (tumor)	COAD (normal)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

HNSC (tumor)	HNSC (normal)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

KICH (tumor)	KICH (normal)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

KIRC (tumor)	KIRC (normal)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

KIRP (tumor)	KIRP (normal)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

LIHC (tumor)	LIHC (normal)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

LUAD (tumor)	LUAD (normal)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

LUSC (tumor)	LUSC (normal)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

PRAD (tumor)	PRAD (normal)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

STAD (tumor)	STAD (normal)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

THCA (tumor)	THCA (normal)
GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (tumor)	GAN, UBC, CUL3, MAP1B, UBA1, RBX1, SFN, TBCB, ATG16L1 (normal)

Top

TissGeneProg for GAN

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.

Top

TissGeneClin for GAN

TissGeneDrug for GAN

Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

Top

TissGeneDisease for GAN

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

Disease ID	Disease name	# pubmeds	Source
umls:C1850386	GIANT AXONAL NEUROPATHY 1	20	BeFree,CLINVAR,CTD_human,MGD,ORPHANET,UNIPROT
umls:C0270921	Axonal neuropathy	4	BeFree
umls:C0598589	Inherited neuropathies	2	BeFree
umls:C0007959	Charcot-Marie-Tooth Disease	1	BeFree
umls:C0010823	Cytomegalovirus Infections	1	BeFree
umls:C0027765	nervous system disorder	1	BeFree
umls:C0031117	Peripheral Neuropathy	1	CTD_human
umls:C0040336	Tobacco Use Disorder	1	GAD
umls:C0345392	Congenital kyphoscoliosis	1	BeFree
umls:C0442874	Neuropathy	1	BeFree
umls:C0524851	Neurodegenerative Disorders	1	BeFree
umls:C0575158	Kyphoscoliosis deformity of spine	1	BeFree
umls:C0600033	Acquired Kyphoscoliosis	1	BeFree
umls:C1510586	Autism Spectrum Disorders	1	BeFree