TissGeneSummary for LRR1 |
Gene summary |
Basic gene information | Gene symbol | LRR1 |
Gene name | leucine rich repeat protein 1 | |
Synonyms | 4-1BBLRR|LRR-1|PPIL5 | |
Cytomap | UCSC genome browser: 14q21.3 | |
Type of gene | protein-coding | |
RefGenes | NM_152329.3, NM_203467.1,NR_037792.1,NR_037793.1,NM_203466.1, | |
Description | 4-1BB-mediated signaling molecule4-1BB-mediated-signaling moleculeLRR-repeat protein 1cyclophilin-like 5leucine-rich repeat protein 1peptidylprolyl isomerase (cyclophilin)-like 5peptidylprolyl isomerase-like 5 | |
Modification date | 20141207 | |
dbXrefs | MIM : 609193 | |
HGNC : HGNC | ||
Ensembl : ENSG00000165501 | ||
HPRD : 15164 | ||
Vega : OTTHUMG00000140273 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_LRR1 | |
BioGPS: 122769 | ||
Pathway | NCI Pathway Interaction Database: LRR1 | |
KEGG: LRR1 | ||
REACTOME: LRR1 | ||
Pathway Commons: LRR1 | ||
Context | iHOP: LRR1 | |
ligand binding site mutation search in PubMed: LRR1 | ||
UCL Cancer Institute: LRR1 | ||
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) | ProstateTestis | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | PRADTGCT | |
Reference showing the relevant tissue of LRR1 | ||
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 |
Top |
TissGeneExp for LRR1 |
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 |
Top |
TissGene-miRNA for LRR1 |
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 |
Top |
TissGeneMut for LRR1 |
TissGeneSNV for LRR1 |
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.R172C | COAD | 2 |
p.P265S | SKCM | 1 |
p.Y112H | COAD | 1 |
p.I96N | COAD | 1 |
p.R292K | LUSC | 1 |
p.C117F | KIRP | 1 |
p.R361T | LUAD | 1 |
p.H341Y | KIRC | 1 |
p.V358F | KIRP | 1 |
p.G165R | LUAD | 1 |
p.N151S | MESO | 1 |
p.R229W | COAD | 1 |
p.R275L | HNSC | 1 |
p.K84N | HNSC | 1 |
p.S93N | LUAD | 1 |
p.S155C | CESC | 1 |
p.G339A | UCEC | 1 |
p.C114S | LIHC | 1 |
p.Q318R | LUAD | 1 |
p.C138R | SKCM | 1 |
p.F73L | KIRC | 1 |
p.R168* | UCEC | 1 |
p.L301I | READ | 1 |
p.E250K | BLCA | 1 |
p.A354T | SKCM | 1 |
p.T71S | HNSC | 1 |
p.Y163N | SKCM | 1 |
p.K24N | THYM | 1 |
p.G390C | LUAD | 1 |
p.F103L | UCEC | 1 |
p.C33Y | LUSC | 1 |
p.P87S | THYM | 1 |
Top |
TissGeneCNV for LRR1 |
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 LRR1 |
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 | BRCA | TCGA-A2-A3XW-01A | LRR1-MTHFD1 | Out-of-frame | Chr14:50074839 | Chr14:64882076 |
TCGAfusionPortal | PRADA | BRCA | TCGA-C8-A12W-01A | LRR1-KCNH5 | Out-of-frame | Chr14:50065921 | Chr14:63473190 |
Top |
TissGeneNet for LRR1 |
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 LRR1 |
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 LRR1 |
TissGeneDrug for LRR1 |
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 LRR1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0004364 | Autoimmune Diseases | 3 | BeFree |
umls:C0042900 | Vitiligo | 2 | BeFree |
umls:C1847835 | VITILIGO-ASSOCIATED MULTIPLE AUTOIMMUNE DISEASE SUSCEPTIBILITY 1 (finding) | 2 | BeFree |
umls:C1304470 | Generalized vitiligo | 1 | BeFree |