TissGeneSummary for GPM6B |
Gene summary |
Basic gene information | Gene symbol | GPM6B |
Gene name | glycoprotein M6B | |
Synonyms | M6B | |
Cytomap | UCSC genome browser: Xp22.2 | |
Type of gene | protein-coding | |
RefGenes | NM_001001994.1, NM_001001995.1,NM_001001996.1,NM_005278.3, | |
Description | neuronal membrane glycoprotein M6-bprotolipid M6B | |
Modification date | 20141207 | |
dbXrefs | MIM : 300051 | |
HGNC : HGNC | ||
Ensembl : ENSG00000046653 | ||
HPRD : 02082 | ||
Vega : OTTHUMG00000021162 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_GPM6B | |
BioGPS: 2824 | ||
Pathway | NCI Pathway Interaction Database: GPM6B | |
KEGG: GPM6B | ||
REACTOME: GPM6B | ||
Pathway Commons: GPM6B | ||
Context | iHOP: GPM6B | |
ligand binding site mutation search in PubMed: GPM6B | ||
UCL Cancer Institute: GPM6B | ||
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 GPM6B | ||
Description by TissGene annotations | Protective TissGene in OS Fused withTSGene |
* 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 GPM6B |
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 |
KIRC | -2.009574809 | 1.145518246 | -3.155093056 | 2.34E-37 | 8.19E-36 |
STAD | -1.344092518 | 1.526713732 | -2.87080625 | 1.85E-08 | 7.43E-07 |
LUSC | 0.348414406 | 1.966016367 | -1.617601961 | 9.72E-13 | 4.48E-12 |
PRAD | 1.013661088 | 2.108297626 | -1.094636538 | 2.03E-10 | 3.99E-09 |
THCA | -1.087342889 | 0.431665586 | -1.519008475 | 1.65E-17 | 3.48E-16 |
LUAD | -0.211920212 | 2.074878064 | -2.286798276 | 9.97E-24 | 3.44E-22 |
KICH | -2.701686143 | 1.183117857 | -3.884804 | 2.46E-20 | 2.01E-18 |
LIHC | -4.420802143 | -3.295866143 | -1.124936 | 2.98E-07 | 1.82E-06 |
BRCA | 0.261222559 | 2.491607647 | -2.230385088 | 1.27E-29 | 1.65E-28 |
COAD | -1.945808143 | 0.893061088 | -2.838869231 | 9.02E-11 | 1.31E-09 |
ESCA | -0.526021779 | 1.370214584 | -1.896236364 | 0.00413 | 0.035093536 |
KIRP | -1.061173768 | 0.624801232 | -1.685975 | 0.000166 | 0.000538599 |
BLCA | -0.883279195 | 0.928299752 | -1.811578947 | 1.66E-05 | 0.000279685 |
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TissGene-miRNA for GPM6B |
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 |
LUSC | hsa-miR-223-3p | MIMAT0000280 | 0.0015 | -0.28 | 128 |
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TissGeneMut for GPM6B |
TissGeneSNV for GPM6B |
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.E217K | LUAD | 1 |
p.V21L | UCEC | 1 |
p.F199L | HNSC | 1 |
p.A25S | LUAD | 1 |
p.L59P | STAD | 1 |
p.S297R | BLCA | 1 |
p.C3Y | PAAD | 1 |
p.C62Y | PAAD | 1 |
p.N254T | UCEC | 1 |
p.D295G | UCEC | 1 |
p.K203N | STAD | 1 |
p.L99P | STAD | 1 |
p.C22Y | PAAD | 1 |
p.E11K | SKCM | 1 |
p.G174S | COAD | 1 |
p.V156L | CHOL | 1 |
p.E11Q | BRCA | 1 |
p.S238N | BLCA | 1 |
p.E63K | SKCM | 1 |
p.G53S | STAD | 1 |
p.P46S | LUAD | 1 |
p.K40N | LUAD | 1 |
p.G93S | STAD | 1 |
p.G133* | UCEC | 1 |
p.S77F | SKCM | 1 |
p.E198K | LUAD | 1 |
p.V103M | CESC | 1 |
p.K2R | BRCA | 1 |
p.A127G | THCA | 1 |
p.K243N | STAD | 1 |
p.E158X | COAD | 1 |
p.A167T | UCEC | 1 |
p.F79L | COAD | 1 |
p.R24T | LUAD | 1 |
p.H117L | LIHC | 1 |
p.S86P | LIHC | 1 |
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TissGeneCNV for GPM6B |
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 GPM6B |
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 | BE766380 | GPM6B-SLC26A2 | chrX:13792421 | chr5:149366700 | |
Chimerdb3.0 | ChiTaRs | NA | DA501345 | HIST1H2AM-GPM6B | chr6:27860963 | chrX:13801488 | |
Chimerdb3.0 | ChiTaRs | NA | DB548164 | GPM6B-ACTG1 | chrX:13791266 | chr17:79476999 | |
Chimerdb3.0 | ChiTaRs | NA | AU118413 | GPM6B-GPM6B | chrX:13791626 | chrX:13797938 | |
Chimerdb3.0 | ChiTaRs | NA | U68727 | PKNOX1-GPM6B | chr21:44452034 | chrX:13824062 | |
TCGAfusionPortal | PRADA | LGG | TCGA-HT-7611-01A | GPM6B-CHD1 | NA | ChrX:13789575 | Chr5:98219587 |
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TissGeneNet for GPM6B |
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 GPM6B |
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 GPM6B |
TissGeneDrug for GPM6B |
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 GPM6B |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0002895 | Anemia, Sickle Cell | 1 | GAD |
umls:C0023448 | Lymphoid leukemia | 1 | BeFree |
umls:C0023520 | Leukodystrophy | 1 | BeFree,GAD |
umls:C0025202 | melanoma | 1 | BeFree |
umls:C0027765 | nervous system disorder | 1 | BeFree |
umls:C0205711 | Pelizaeus-Merzbacher Disease | 1 | BeFree |