TissGeneSummary for GPC2 |
Gene summary |
Basic gene information | Gene symbol | GPC2 |
Gene name | glypican 2 | |
Synonyms | - | |
Cytomap | UCSC genome browser: 7q22.1 | |
Type of gene | protein-coding | |
RefGenes | NM_152742.1, | |
Description | cerebroglycanglypican proteoglycan 2, cerebroglycan proteoglycanglypican-2 | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000213420 | ||
HPRD : 17051 | ||
Vega : OTTHUMG00000154894 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_GPC2 | |
BioGPS: 221914 | ||
Pathway | NCI Pathway Interaction Database: GPC2 | |
KEGG: GPC2 | ||
REACTOME: GPC2 | ||
Pathway Commons: GPC2 | ||
Context | iHOP: GPC2 | |
ligand binding site mutation search in PubMed: GPC2 | ||
UCL Cancer Institute: GPC2 | ||
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) | BrainTestis | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | GBM,LGGTGCT | |
Reference showing the relevant tissue of GPC2 | ||
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 GPC2 |
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 |
LIHC | -1.791051125 | -2.986865125 | 1.195814 | 1.07E-07 | 7.54E-07 |
LUAD | 0.296230323 | -1.96763347 | 2.263863793 | 5.29E-12 | 3.82E-11 |
KIRP | -0.69200125 | -2.327435625 | 1.635434375 | 5.32E-08 | 3.44E-07 |
LUSC | 0.868324914 | -1.649247635 | 2.517572549 | 5.50E-15 | 3.38E-14 |
HNSC | 0.266485014 | -1.341294055 | 1.60777907 | 2.53E-07 | 2.23E-06 |
THCA | -1.266442617 | -2.430617193 | 1.164174576 | 2.90E-08 | 1.35E-07 |
ESCA | -0.19381858 | -1.890136762 | 1.696318182 | 0.00335 | 0.031043333 |
KICH | -0.909433125 | -1.939389125 | 1.029956 | 0.00217 | 0.004424311 |
BLCA | 1.515800559 | -0.790973125 | 2.306773684 | 0.000421 | 0.003493672 |
COAD | 0.50291149 | -0.561919279 | 1.064830769 | 0.000174 | 0.000598484 |
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TissGene-miRNA for GPC2 |
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 GPC2 |
TissGeneSNV for GPC2 |
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.R149* | UCEC | 1 |
p.G505* | BLCA | 1 |
p.G87S | SKCM | 1 |
p.R214H | CESC | 1 |
p.Y188* | LUAD | 1 |
p.D91N | SKCM | 1 |
p.R264Q | LUAD | 1 |
p.S55T | UCEC | 1 |
p.R470C | COAD | 1 |
p.Q169R | COAD | 1 |
p.R214H | UCEC | 1 |
p.S247Y | UCEC | 1 |
p.Y330C | STAD | 1 |
p.R281C | SKCM | 1 |
p.H561Y | CESC | 1 |
p.A135V | COAD | 1 |
p.R60W | UCEC | 1 |
p.A317S | LUSC | 1 |
p.E25* | LUSC | 1 |
p.D510N | LUAD | 1 |
p.D305N | LIHC | 1 |
p.R86* | SKCM | 1 |
p.R525Q | UCEC | 1 |
p.G259S | COAD | 1 |
p.P526S | BLCA | 1 |
p.N386D | HNSC | 1 |
p.A476E | KIRP | 1 |
p.D498N | BLCA | 1 |
p.A196V | COAD | 1 |
p.A41V | COAD | 1 |
p.L59F | GBM | 1 |
p.D200N | BRCA | 1 |
p.R86X | SKCM | 1 |
p.A572T | THYM | 1 |
p.V117I | UCEC | 1 |
p.G259C | LUAD | 1 |
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TissGeneCNV for GPC2 |
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 GPC2 |
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 GPC2 |
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 GPC2 |
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 GPC2 |
TissGeneDrug for GPC2 |
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 GPC2 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0006142 | Malignant neoplasm of breast | 1 | BeFree |