TissGeneSummary for LYPD6B |
Gene summary |
Basic gene information | Gene symbol | LYPD6B |
Gene name | LY6/PLAUR domain containing 6B | |
Synonyms | CT116|LYPD7 | |
Cytomap | UCSC genome browser: 2q23.2 | |
Type of gene | protein-coding | |
RefGenes | NM_177964.3, | |
Description | cancer/testis antigen 116ly6/PLAUR domain-containing protein 6B | |
Modification date | 20141207 | |
dbXrefs | HGNC : HGNC | |
Ensembl : ENSG00000150556 | ||
HPRD : 14045 | ||
Vega : OTTHUMG00000153743 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_LYPD6B | |
BioGPS: 130576 | ||
Pathway | NCI Pathway Interaction Database: LYPD6B | |
KEGG: LYPD6B | ||
REACTOME: LYPD6B | ||
Pathway Commons: LYPD6B | ||
Context | iHOP: LYPD6B | |
ligand binding site mutation search in PubMed: LYPD6B | ||
UCL Cancer Institute: LYPD6B | ||
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) | OvarySkin | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | OVSKCM | |
Reference showing the relevant tissue of LYPD6B | ||
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 LYPD6B |
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 |
PRAD | 1.441133477 | 2.943750785 | -1.502617308 | 7.22E-08 | 6.97E-07 |
KIRC | -3.030019514 | 2.734502708 | -5.764522222 | 1.15E-43 | 6.14E-42 |
LUSC | 2.215620355 | 0.10393408 | 2.111686275 | 1.22E-10 | 4.54E-10 |
LIHC | -2.963423292 | -1.092609292 | -1.870814 | 4.48E-06 | 2.06E-05 |
KIRP | -2.072344167 | 2.671943333 | -4.7442875 | 7.09E-13 | 1.16E-11 |
BLCA | 4.613507971 | 1.915792181 | 2.697715789 | 0.00512 | 0.026855849 |
HNSC | 2.204853871 | 1.099105033 | 1.105748837 | 0.00228 | 0.006885906 |
KICH | 1.185018708 | 3.355606708 | -2.170588 | 0.000511 | 0.001164678 |
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TissGene-miRNA for LYPD6B |
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 LYPD6B |
TissGeneSNV for LYPD6B |
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.A47T | UCEC | 2 |
p.A92T | LGG | 2 |
p.Y27H | BLCA | 1 |
p.F22L | UCEC | 1 |
p.A92T | UCEC | 1 |
p.L207M | UCEC | 1 |
p.R100X | STAD | 1 |
p.K105E | UCEC | 1 |
p.V155I | PAAD | 1 |
p.A178V | SKCM | 1 |
p.A45P | LUAD | 1 |
p.H172D | CESC | 1 |
p.A178V | UCEC | 1 |
p.G161E | SKCM | 1 |
p.R100X | COAD | 1 |
p.R100* | STAD | 1 |
p.D76N | COAD | 1 |
p.S30L | LIHC | 1 |
p.P205S | HNSC | 1 |
p.R184T | LUAD | 1 |
p.T153M | STAD | 1 |
p.P205L | LUAD | 1 |
p.H172Y | SKCM | 1 |
p.S122C | LUAD | 1 |
p.S30L | UCEC | 1 |
p.A45T | STAD | 1 |
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TissGeneCNV for LYPD6B |
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 LYPD6B |
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 |
TCGAfusionPortal | PRADA | PRAD | TCGA-J4-A83J-01A | NCKAP1-LYPD6B | CDS-5UTR | Chr2:183888534 | Chr2:149987397 |
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TissGeneNet for LYPD6B |
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 LYPD6B |
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 LYPD6B |
TissGeneDrug for LYPD6B |
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 LYPD6B |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0040336 | Tobacco Use Disorder | 1 | GAD |