TissGeneSummary for GPM6A |
Gene summary |
Basic gene information | Gene symbol | GPM6A |
Gene name | glycoprotein M6A | |
Synonyms | GPM6|M6A | |
Cytomap | UCSC genome browser: 4q34 | |
Type of gene | protein-coding | |
RefGenes | NM_001261447.1, NM_001261448.1,NM_005277.4,NM_201591.2,NM_201592.2, NR_048571.1, | |
Description | neuronal membrane glycoprotein M6-a | |
Modification date | 20141207 | |
dbXrefs | MIM : 601275 | |
HGNC : HGNC | ||
Ensembl : ENSG00000150625 | ||
HPRD : 03174 | ||
Vega : OTTHUMG00000160760 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_GPM6A | |
BioGPS: 2823 | ||
Pathway | NCI Pathway Interaction Database: GPM6A | |
KEGG: GPM6A | ||
REACTOME: GPM6A | ||
Pathway Commons: GPM6A | ||
Context | iHOP: GPM6A | |
ligand binding site mutation search in PubMed: GPM6A | ||
UCL Cancer Institute: GPM6A | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | HPA,TiGER | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Brain | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | GBM,LGG | |
Reference showing the relevant tissue of GPM6A | ||
Description by TissGene annotations | Protective TissGene in OS Protective TissGene in RFS TissgsKTS 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 | GO:0001764 | neuron migration | 19298174 | GO:0048863 | stem cell differentiation | 19298174 | GO:0001764 | neuron migration | 19298174 | GO:0048863 | stem cell differentiation | 19298174 |
Top |
TissGeneExp for GPM6A |
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 | -1.222171503 | 5.596546144 | -6.818717647 | 1.31E-32 | 9.52E-31 |
COAD | -1.436415997 | 3.400403233 | -4.836819231 | 5.94E-11 | 8.98E-10 |
STAD | -1.101838353 | 1.986483522 | -3.088321875 | 1.74E-08 | 7.12E-07 |
THCA | 1.107121551 | 4.818184263 | -3.711062712 | 1.01E-22 | 6.78E-21 |
KIRC | 2.534064772 | 4.060984216 | -1.526919444 | 1.48E-08 | 4.40E-08 |
LIHC | -0.612793228 | 3.879072772 | -4.491866 | 4.33E-22 | 4.01E-20 |
LUAD | 0.61918891 | 5.93553891 | -5.31635 | 2.08E-32 | 3.33E-30 |
KICH | -0.126373228 | 4.366278772 | -4.492652 | 3.90E-20 | 2.94E-18 |
BRCA | -0.883760667 | 1.57421214 | -2.457972807 | 2.85E-18 | 1.79E-17 |
PRAD | 1.548989772 | 3.366191695 | -1.817201923 | 1.02E-09 | 1.61E-08 |
KIRP | 0.028380397 | 3.637921022 | -3.609540625 | 8.65E-12 | 1.22E-10 |
ESCA | -2.138712501 | 1.764678408 | -3.903390909 | 0.00288 | 0.028216388 |
HNSC | -2.195654996 | -0.763920112 | -1.431734884 | 7.42E-05 | 0.000344227 |
BLCA | -2.158016807 | 1.435604245 | -3.593621053 | 5.12E-06 | 0.000115019 |
Top |
TissGene-miRNA for GPM6A |
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-365b-3p | MIMAT0022834 | 0.046 | -0.27 | 56 |
UVM | hsa-miR-96-5p | MIMAT0000095 | 0.012 | -0.29 | 80 |
Top |
TissGeneMut for GPM6A |
TissGeneSNV for GPM6A |
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.D116N | SKCM | 2 |
p.A50V | KIRC | 2 |
p.A128T | BRCA | 1 |
p.S74F | UCEC | 1 |
p.C174* | PAAD | 1 |
p.M154I | HNSC | 1 |
p.R200K | SKCM | 1 |
p.G12R | TGCT | 1 |
p.T120I | SKCM | 1 |
p.R273W | UCEC | 1 |
p.G87S | HNSC | 1 |
p.V168E | LUAD | 1 |
p.L158M | THYM | 1 |
p.K20N | SKCM | 1 |
p.G87L | LUAD | 1 |
p.L113F | UCEC | 1 |
p.S270Y | LUSC | 1 |
p.N157D | COAD | 1 |
p.T278I | LGG | 1 |
p.C21F | HNSC | 1 |
p.Q179H | LUAD | 1 |
p.I191F | UCEC | 1 |
p.H230Q | KIRP | 1 |
p.W239* | SKCM | 1 |
p.K243R | LUAD | 1 |
p.C46* | LUAD | 1 |
p.Y107C | SKCM | 1 |
p.G108R | SKCM | 1 |
p.C174X | PAAD | 1 |
p.F130L | UCEC | 1 |
p.K250X | COAD | 1 |
p.G87V | LUAD | 1 |
p.G170V | SKCM | 1 |
p.R178C | SKCM | 1 |
p.G24D | UCEC | 1 |
p.E188K | LUSC | 1 |
p.E188K | SKCM | 1 |
p.F43L | UCEC | 1 |
p.L173I | COAD | 1 |
p.G87D | UCEC | 1 |
p.G143V | UCEC | 1 |
p.E3D | READ | 1 |
p.G220R | CESC | 1 |
p.A276E | LUAD | 1 |
p.C17F | HNSC | 1 |
p.W239L | LIHC | 1 |
p.F62S | COAD | 1 |
p.F92L | GBM | 1 |
p.A65V | UCEC | 1 |
p.A54V | DLBC | 1 |
p.I191M | UCEC | 1 |
p.D79E | CESC | 1 |
p.R269C | BLCA | 1 |
p.I254F | COAD | 1 |
p.E16Q | LUSC | 1 |
p.G186A | LUSC | 1 |
p.E259K | BLCA | 1 |
p.G87R | LUAD | 1 |
p.W232X | SKCM | 1 |
p.Y114C | SKCM | 1 |
p.E272V | LUAD | 1 |
p.C14F | STAD | 1 |
p.M201I | LUAD | 1 |
p.V242L | SARC | 1 |
p.E3K | HNSC | 1 |
p.E3D | COAD | 1 |
p.E188* | LUAD | 1 |
p.G108V | LUAD | 1 |
p.S256L | SKCM | 1 |
p.L113I | LUSC | 1 |
Top |
TissGeneCNV for GPM6A |
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 GPM6A |
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 | BF956714 | GPM6A-SCLT1 | chr4:176561949 | chr4:129857944 | |
Chimerdb3.0 | ChiTaRs | NA | AA350181 | GPM6A-ANKRD17 | chr4:176573032 | chr4:74000895 | |
Chimerdb3.0 | ChiTaRs | NA | DA107051 | GPM6A-POLR2A | chr4:176733415 | chr17:7404138 | |
Chimerdb3.0 | ChiTaRs | NA | AW957350 | GPM6A-ANKRD17 | chr4:176561347 | chr4:73990693 | |
Chimerdb3.0 | ChiTaRs | NA | DA209219 | GPM6A-BRWD1 | chr4:176923571 | chr21:40669383 | |
Chimerdb3.0 | ChiTaRs | NA | DA113820 | FUBP1-GPM6A | chr1:78444889 | chr4:176622893 | |
Chimerdb3.0 | ChiTaRs | NA | DA290840 | GUCY1A3-GPM6A | chr4:156654653 | chr4:176594919 | |
Chimerdb3.0 | ChiTaRs | NA | AV688767 | GPM6A-HPX | chr4:176751570 | chr11:6452279 | |
Chimerdb3.0 | ChiTaRs | NA | DA189160 | TMBIM6-GPM6A | chr12:50135841 | chr4:176622725 | |
Chimerdb3.0 | FusionScan | HNSC | TCGA-CQ-A4CI-01A | SH2D3A-GPM6A | 5'UTR-CDS | chr19:6767397 | chr4:176573138 |
Top |
TissGeneNet for GPM6A |
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) |
Top |
TissGeneProg for GPM6A |
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 GPM6A |
TissGeneDrug for GPM6A |
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 GPM6A |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0036341 | Schizophrenia | 2 | BeFree,GAD,GWASCAT,LHGDN |
umls:C0004943 | Behcet Syndrome | 1 | GAD |
umls:C0005586 | Bipolar Disorder | 1 | GAD |
umls:C0011570 | Mental Depression | 1 | BeFree |
umls:C0011581 | Depressive disorder | 1 | BeFree |
umls:C0018801 | Heart failure | 1 | GAD |
umls:C0023448 | Lymphoid leukemia | 1 | BeFree |
umls:C0024809 | Marijuana Abuse | 1 | GAD |
umls:C0033941 | Psychoses, Substance-Induced | 1 | GAD |
umls:C0040336 | Tobacco Use Disorder | 1 | GAD |
umls:C0041696 | Unipolar Depression | 1 | BeFree |
umls:C0751265 | Learning Disabilities | 1 | BeFree |
umls:C1269683 | Major Depressive Disorder | 1 | BeFree |