TissGeneSummary for LRWD1 |
Gene summary |
Basic gene information | Gene symbol | LRWD1 |
Gene name | ||
Synonyms | ||
Cytomap | UCSC genome browser: | |
Type of gene | ||
RefGenes | ||
Description | ||
Modification date | ||
dbXrefs | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_LRWD1 | |
BioGPS: 100616367 | ||
Pathway | NCI Pathway Interaction Database: LRWD1 | |
KEGG: LRWD1 | ||
REACTOME: LRWD1 | ||
Pathway Commons: LRWD1 | ||
Context | iHOP: LRWD1 | |
ligand binding site mutation search in PubMed: LRWD1 | ||
UCL Cancer Institute: LRWD1 | ||
Assigned class in TissGDB* | A | |
Included tissue-specific gene expression resources | HPA,TiGER,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 LRWD1 | High-throughput RNAi screen in Ewing sarcoma cells identifies leucine rich repeats and WD repeat domain containing 1 (LRWD1) as a regulator of EWS-FLI1 driven cell viability. He T, Surdez D, Rantala JK, Haapa-Paananen S, Ban J, Kauer M, Tomazou E, Fey V, Alonso J, Kovar H, Delattre O, Iljin K. Gene. 2017 Jan 5;596:137-146. doi: 10.1016/j.gene.2016.10.021. Epub 2016 Oct 17. (pmid:27760381) go to article | |
Description by TissGene annotations | TissgsLTS |
* 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 LRWD1 |
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 LRWD1 |
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 LRWD1 |
TissGeneSNV for LRWD1 |
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.A127V | STAD | 2 |
p.T600I | LIHC | 1 |
p.E186K | PAAD | 1 |
p.E94X | KIRC | 1 |
p.E573K | BLCA | 1 |
p.A86V | PAAD | 1 |
p.L240R | LIHC | 1 |
p.D53Y | HNSC | 1 |
p.A173T | COAD | 1 |
p.P102S | STAD | 1 |
p.E306D | CESC | 1 |
p.P338L | SKCM | 1 |
p.P302L | LUSC | 1 |
p.K224R | THCA | 1 |
p.R234W | CESC | 1 |
p.T410M | COAD | 1 |
p.A561V | STAD | 1 |
p.T630A | STAD | 1 |
p.D83N | UCEC | 1 |
p.A642T | PAAD | 1 |
p.D108N | BLCA | 1 |
p.P181L | SKCM | 1 |
p.R447C | UCEC | 1 |
p.D53N | BLCA | 1 |
p.S253L | SKCM | 1 |
p.A634T | COAD | 1 |
p.N136K | LAML | 1 |
p.L104M | LGG | 1 |
p.D637Y | THYM | 1 |
p.R124Q | BRCA | 1 |
p.A262T | STAD | 1 |
p.R533Q | SKCM | 1 |
p.V620M | SKCM | 1 |
p.L419I | UCEC | 1 |
p.S516R | COAD | 1 |
p.P102S | SKCM | 1 |
p.V582I | OV | 1 |
p.V271E | KIRP | 1 |
p.I417S | KIRP | 1 |
p.G67D | STAD | 1 |
p.R178S | STAD | 1 |
p.S55F | LUSC | 1 |
p.E94* | KIRC | 1 |
p.D83N | THYM | 1 |
p.P63L | GBM | 1 |
p.A77T | UCEC | 1 |
p.R447H | LIHC | 1 |
p.E140K | LUAD | 1 |
p.V582I | COAD | 1 |
p.R361H | STAD | 1 |
p.G465D | SKCM | 1 |
p.A77T | PRAD | 1 |
p.W524L | KIRC | 1 |
p.K224R | SKCM | 1 |
p.P593L | COAD | 1 |
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TissGeneCNV for LRWD1 |
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 LRWD1 |
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 | BG255749 | ELL3-LRWD1 | chr15:44087284 | chr7:102113562 |
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TissGeneNet for LRWD1 |
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 LRWD1 |
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 LRWD1 |
TissGeneDrug for LRWD1 |
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 LRWD1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0376358 | Malignant neoplasm of prostate | 1 | BeFree |
umls:C0600139 | Prostate carcinoma | 1 | BeFree |