TissGeneSummary for GKN2 |
Gene summary |
Basic gene information | Gene symbol | GKN2 |
Gene name | gastrokine 2 | |
Synonyms | BRICD1B|GDDR|PRO813|TFIZ1|VLTI465 | |
Cytomap | UCSC genome browser: 2p13.3 | |
Type of gene | protein-coding | |
RefGenes | NM_182536.2, | |
Description | BRICHOS domain containing 1Bblottindown regulated in gastric cancer GDDRdown-regulated in gastric cancer GDDRgastrokine-2trefoil factor interactions(z) 1 | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000183607 | ||
HPRD : 17034 | ||
Vega : OTTHUMG00000152655 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_GKN2 | |
BioGPS: 200504 | ||
Pathway | NCI Pathway Interaction Database: GKN2 | |
KEGG: GKN2 | ||
REACTOME: GKN2 | ||
Pathway Commons: GKN2 | ||
Context | iHOP: GKN2 | |
ligand binding site mutation search in PubMed: GKN2 | ||
UCL Cancer Institute: GKN2 | ||
Assigned class in TissGDB* | A | |
Included tissue-specific gene expression resources | HPA,TiGER,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Stomach | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | STAD | |
Reference showing the relevant tissue of GKN2 | Gastrokine-2 is transiently expressed in the endodermal and endothelial cells of the maturing mouse yolk sac. Antas VI, Brigden KW, Prudence AJ, Fraser ST. Gene Expr Patterns. 2014 Nov;16(2):69-74. doi: 10.1016/j.gep.2014.09.004. Epub 2014 Oct 5. (pmid:25290738) go to article | |
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 GKN2 |
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 | 1.820812763 | 9.195289234 | -7.374476471 | 2.69E-26 | 6.96E-25 |
LUAD | 3.810228619 | 9.26672517 | -5.456496552 | 2.23E-18 | 3.17E-17 |
STAD | 5.038016011 | 8.924091011 | -3.886075 | 0.011 | 0.037145646 |
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TissGene-miRNA for GKN2 |
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 GKN2 |
TissGeneSNV for GKN2 |
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.A162V | DLBC | 1 |
p.D129E | LUSC | 1 |
p.E140D | LUAD | 1 |
p.D129Y | LUSC | 1 |
p.N156K | THYM | 1 |
p.I50S | UCEC | 1 |
p.A106V | STAD | 1 |
p.L123M | LUSC | 1 |
p.R78* | UCEC | 1 |
p.G151W | SKCM | 1 |
p.R79K | SKCM | 1 |
p.P29L | PRAD | 1 |
p.K150T | LUAD | 1 |
p.V10A | UCEC | 1 |
p.E38D | LUAD | 1 |
p.Y102C | COAD | 1 |
p.K141Q | COAD | 1 |
p.E155K | SKCM | 1 |
p.G33C | KIRC | 1 |
p.P147L | SKCM | 1 |
p.G56E | LGG | 1 |
p.A180S | LUAD | 1 |
p.D129N | BLCA | 1 |
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TissGeneCNV for GKN2 |
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 GKN2 |
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 |
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TissGeneNet for GKN2 |
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 GKN2 |
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 GKN2 |
TissGeneDrug for GKN2 |
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 GKN2 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0024623 | Malignant neoplasm of stomach | 4 | BeFree |
umls:C0699791 | Stomach Carcinoma | 4 | BeFree |
umls:C0027627 | Neoplasm Metastasis | 2 | BeFree |
umls:C0001418 | Adenocarcinoma | 1 | LHGDN |
umls:C0024121 | Lung Neoplasms | 1 | GAD |
umls:C0242647 | Mucosa-Associated Lymphoid Tissue Lymphoma | 1 | BeFree |
umls:C0376358 | Malignant neoplasm of prostate | 1 | BeFree |
umls:C0596263 | Carcinogenesis | 1 | BeFree |
umls:C0600139 | Prostate carcinoma | 1 | BeFree |