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| TissGeneSummary for LRRC52 |
 Gene summary |
| Basic gene information | Gene symbol | LRRC52 |
| Gene name | leucine rich repeat containing 52 | |
| Synonyms | - | |
| Cytomap | UCSC genome browser: 1q24.1 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001005214.3, | |
| Description | BK channel auxiliary gamma subunit LRRC52BK channel auxilliary gamma subunit LRRC52leucine-rich repeat-containing protein 52 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 615218 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000162763 | ||
| HPRD : 13396 | ||
| Vega : OTTHUMG00000034625 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_LRRC52 | |
| BioGPS: 440699 | ||
| Pathway | NCI Pathway Interaction Database: LRRC52 | |
| KEGG: LRRC52 | ||
| REACTOME: LRRC52 | ||
| Pathway Commons: LRRC52 | ||
| Context | iHOP: LRRC52 | |
| ligand binding site mutation search in PubMed: LRRC52 | ||
| UCL Cancer Institute: LRRC52 | ||
| Assigned class in TissGDB* | C | |
| Included tissue-specific gene expression resources | HPA,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 LRRC52 | ||
| 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 LRRC52 |
| 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) |
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| 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) |
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| 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. |
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| 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) |
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| - 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 |
| KIRP | -0.22995416 | 2.63026459 | -2.86021875 | 4.86E-13 | 8.37E-12 |
| THCA | 2.116416126 | 0.235051719 | 1.881364407 | 3.55E-15 | 4.60E-14 |
| KIRC | -0.416126035 | 2.61076841 | -3.026894444 | 1.88E-29 | 3.43E-28 |
| LUSC | 0.16739921 | 2.135165877 | -1.967766667 | 3.11E-13 | 1.53E-12 |
| ESCA | -0.631990808 | 0.746500101 | -1.378490909 | 0.00481 | 0.038342079 |
| LUAD | 1.119457155 | 2.272072672 | -1.152615517 | 0.000103 | 0.000260168 |
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| TissGene-miRNA for LRRC52 |
| 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 LRRC52 |
| TissGeneSNV for LRRC52 |
| 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. |
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| 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) |
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| - nsSNVs sorted by frequency. |
| AAchange | Cancer type | # samples |
| p.G259E | SKCM | 2 |
| p.A257S | CHOL | 1 |
| p.Q302* | SKCM | 1 |
| p.G19V | THYM | 1 |
| p.G6C | LUSC | 1 |
| p.A212V | UCEC | 1 |
| p.W11X | STAD | 1 |
| p.R233Q | LIHC | 1 |
| p.Q163* | STAD | 1 |
| p.D244E | GBM | 1 |
| p.S77G | UCEC | 1 |
| p.L76I | STAD | 1 |
| p.S305L | COAD | 1 |
| p.E62K | STAD | 1 |
| p.Q85X | SKCM | 1 |
| p.A196T | THYM | 1 |
| p.S109T | STAD | 1 |
| p.T149P | SKCM | 1 |
| p.S122L | SKCM | 1 |
| p.D194N | STAD | 1 |
| p.Q85* | SKCM | 1 |
| p.E62K | SKCM | 1 |
| p.I200K | LUAD | 1 |
| p.C84F | UCEC | 1 |
| p.C84* | STAD | 1 |
| p.R233* | LGG | 1 |
| p.L124I | UCEC | 1 |
| p.Q163X | STAD | 1 |
| p.D286G | UCEC | 1 |
| p.L139F | KIRC | 1 |
| p.P7L | SKCM | 1 |
| p.H239L | LUAD | 1 |
| p.V271L | BLCA | 1 |
| p.P231Q | LUAD | 1 |
| p.R277H | UCEC | 1 |
| p.L176V | KIRP | 1 |
| p.S2F | UCEC | 1 |
| p.R297Q | SKCM | 1 |
| p.A257T | UCEC | 1 |
| p.S109R | STAD | 1 |
| p.S280L | UCEC | 1 |
| p.Q302X | SKCM | 1 |
| p.Y154H | CHOL | 1 |
| p.L141P | THYM | 1 |
| p.S305X | STAD | 1 |
| p.A257S | ESCA | 1 |
| p.W11* | STAD | 1 |
| p.P9H | SKCM | 1 |
| p.W186R | LUAD | 1 |
| p.D78N | BRCA | 1 |
| p.C39Y | PAAD | 1 |
| p.G289R | STAD | 1 |
| p.A288V | STAD | 1 |
| p.C26G | ACC | 1 |
| p.D166Y | LUSC | 1 |
| p.G74R | SKCM | 1 |
| p.R56G | LUAD | 1 |
| p.G222E | SKCM | 1 |
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| TissGeneCNV for LRRC52 |
| 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 LRRC52 |
| 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 | FusionScan | BRCA | TCGA-GI-A2C8-01A | PBX1-LRRC52 | In-Frame | chr1:164532548 | chr1:165532741 |
| TCGAfusionPortal | PRADA | BLCA | TCGA-DK-A3IK-01A | NOS1AP-LRRC52 | Out-of-frame | Chr1:162124266 | Chr1:165532742 |
| TCGAfusionPortal | PRADA | BRCA | TCGA-GI-A2C8-01A | PBX1-LRRC52 | In-frame | Chr1:164532548 | Chr1:165532742 |
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| TissGeneNet for LRRC52 |
| 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 LRRC52 |
| 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. |
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| 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. |
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| 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. |
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| 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 LRRC52 |
| TissGeneDrug for LRRC52 |
| 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 LRRC52 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0020538 | Hypertensive disease | 1 | GAD |
| umls:C0029456 | Osteoporosis | 1 | GAD |
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