TissGeneSummary for LY6D |
Gene summary |
Basic gene information | Gene symbol | LY6D |
Gene name | lymphocyte antigen 6 complex, locus D | |
Synonyms | E48|Ly-6D | |
Cytomap | UCSC genome browser: 8q24 | |
Type of gene | protein-coding | |
RefGenes | NM_003695.2, | |
Description | e48 antigenlymphocyte antigen 6D | |
Modification date | 20141207 | |
dbXrefs | MIM : 606204 | |
HGNC : HGNC | ||
Ensembl : ENSG00000167656 | ||
HPRD : 09370 | ||
Vega : OTTHUMG00000164693 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_LY6D | |
BioGPS: 8581 | ||
Pathway | NCI Pathway Interaction Database: LY6D | |
KEGG: LY6D | ||
REACTOME: LY6D | ||
Pathway Commons: LY6D | ||
Context | iHOP: LY6D | |
ligand binding site mutation search in PubMed: LY6D | ||
UCL Cancer Institute: LY6D | ||
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) | EsophagusPancreas | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | ESCAPAAD | |
Reference showing the relevant tissue of LY6D | ||
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 LY6D |
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 |
LUAD | 0.441300143 | -2.888248133 | 3.329548276 | 1.18E-10 | 6.95E-10 |
LUSC | 4.251501259 | -1.528877173 | 5.780378431 | 5.23E-14 | 2.80E-13 |
THCA | -1.629351084 | -3.51593244 | 1.886581356 | 3.63E-08 | 1.67E-07 |
BRCA | -1.36445999 | 0.821495273 | -2.185955263 | 3.80E-10 | 1.42E-09 |
COAD | -2.088610732 | -3.226972271 | 1.138361538 | 0.0113 | 0.024296663 |
PRAD | -0.945770348 | 1.04537196 | -1.991142308 | 0.000129 | 0.000531414 |
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TissGene-miRNA for LY6D |
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 LY6D |
TissGeneSNV for LY6D |
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.A10T | STAD | 2 |
p.G75S | SKCM | 1 |
p.V25A | UCEC | 1 |
p.L128M | STAD | 1 |
p.A99T | COAD | 1 |
p.R43C | SKCM | 1 |
p.T48M | STAD | 1 |
p.A10T | LGG | 1 |
p.T48M | READ | 1 |
p.G114V | LUAD | 1 |
p.A64V | PRAD | 1 |
p.C38Y | STAD | 1 |
p.P126S | SKCM | 1 |
p.A10T | SKCM | 1 |
p.A64V | STAD | 1 |
p.P39Q | LUAD | 1 |
p.L117M | LUAD | 1 |
p.N49D | STAD | 1 |
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TissGeneCNV for LY6D |
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 LY6D |
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 | BE939745 | LY6D-LY6D | chr8:143867098 | chr8:143866721 |
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TissGeneNet for LY6D |
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 LY6D |
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 LY6D |
TissGeneDrug for LY6D |
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 LY6D |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0278996 | Cancer of Head and Neck | 2 | BeFree |
umls:C0001418 | Adenocarcinoma | 1 | BeFree |
umls:C0027627 | Neoplasm Metastasis | 1 | BeFree |
umls:C1168401 | Squamous cell carcinoma of the head and neck | 1 | BeFree |