TissGeneSummary for GDPD4 |
Gene summary |
Basic gene information | Gene symbol | GDPD4 |
Gene name | glycerophosphodiester phosphodiesterase domain containing 4 | |
Synonyms | GDE6 | |
Cytomap | UCSC genome browser: 11q13.5 | |
Type of gene | protein-coding | |
RefGenes | NM_182833.1, | |
Description | GDPD domain containing proteinglycerophosphodiester phosphodiesterase 6glycerophosphodiester phosphodiesterase domain-containing protein 4ugpQ | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000178795 | ||
HPRD : 17320 | ||
Vega : OTTHUMG00000165136 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_GDPD4 | |
BioGPS: 220032 | ||
Pathway | NCI Pathway Interaction Database: GDPD4 | |
KEGG: GDPD4 | ||
REACTOME: GDPD4 | ||
Pathway Commons: GDPD4 | ||
Context | iHOP: GDPD4 | |
ligand binding site mutation search in PubMed: GDPD4 | ||
UCL Cancer Institute: GDPD4 | ||
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) | Testis | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | TGCT | |
Reference showing the relevant tissue of GDPD4 | ||
Description by TissGene annotations | TissgsKTS |
* 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 GDPD4 |
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 |
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TissGene-miRNA for GDPD4 |
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 GDPD4 |
TissGeneSNV for GDPD4 |
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.Y107* | LUAD | 2 |
p.D273N | LIHC | 2 |
p.E192K | SKCM | 2 |
p.W491L | HNSC | 1 |
p.F84V | UCEC | 1 |
p.V165I | ESCA | 1 |
p.P465S | UCEC | 1 |
p.D246Y | LUSC | 1 |
p.M519I | HNSC | 1 |
p.V115G | SKCM | 1 |
p.S262F | PAAD | 1 |
p.E265* | LUSC | 1 |
p.L176P | ESCA | 1 |
p.H458Y | BLCA | 1 |
p.P340S | SKCM | 1 |
p.I450T | COAD | 1 |
p.R524* | LUAD | 1 |
p.P267S | SKCM | 1 |
p.I32V | BLCA | 1 |
p.L171F | BLCA | 1 |
p.N397I | ESCA | 1 |
p.Q189* | SKCM | 1 |
p.G98A | HNSC | 1 |
p.G25V | BLCA | 1 |
p.R140K | SKCM | 1 |
p.A419D | SARC | 1 |
p.P291Q | LUSC | 1 |
p.L341I | UCEC | 1 |
p.P196T | LUSC | 1 |
p.S356Y | THYM | 1 |
p.D17Y | LUAD | 1 |
p.V425I | LUAD | 1 |
p.L456P | STAD | 1 |
p.V127M | PAAD | 1 |
p.W121* | LAML | 1 |
p.Q189X | SKCM | 1 |
p.S217Y | ESCA | 1 |
p.S11N | DLBC | 1 |
p.F462L | BLCA | 1 |
p.C187G | PRAD | 1 |
p.V154I | LGG | 1 |
p.D457N | SKCM | 1 |
p.A206E | SKCM | 1 |
p.R492W | STAD | 1 |
p.P196S | SKCM | 1 |
p.M216I | OV | 1 |
p.R251K | SKCM | 1 |
p.S356C | CESC | 1 |
p.R140G | UCEC | 1 |
p.L119F | SKCM | 1 |
p.K326T | UCEC | 1 |
p.V428I | UCEC | 1 |
p.F89S | SKCM | 1 |
p.S46L | SKCM | 1 |
p.A268V | UCEC | 1 |
p.P529H | BLCA | 1 |
p.R493I | UCEC | 1 |
p.L158I | LUAD | 1 |
p.K395E | UCEC | 1 |
p.R334H | UCEC | 1 |
p.W121* | BLCA | 1 |
p.P106L | SKCM | 1 |
p.P207S | UCEC | 1 |
p.D415Y | READ | 1 |
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TissGeneCNV for GDPD4 |
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 GDPD4 |
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 | FusionScan | BRCA | TCGA-A8-A086-01A | CPT1A-GDPD4 | CDS-5'UTR | chr11:68571467 | chr11:76998463 |
Chimerdb3.0 | FusionScan | BRCA | TCGA-A8-A09C-01A | SPTBN2-GDPD4 | CDS-5'UTR | chr11:66463747 | chr11:76998463 |
TCGAfusionPortal | PRADA | BRCA | TCGA-A1-A0SM-01A | TADA2A-GDPD4 | Out-of-frame | Chr17:35827629 | Chr11:76938961 |
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TissGeneNet for GDPD4 |
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 GDPD4 |
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 GDPD4 |
TissGeneDrug for GDPD4 |
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 GDPD4 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |