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| TissGeneSummary for LRP4 |
 Gene summary |
| Basic gene information | Gene symbol | LRP4 |
| Gene name | low density lipoprotein receptor-related protein 4 | |
| Synonyms | CLSS|LRP-4|LRP10|MEGF7|SOST2 | |
| Cytomap | UCSC genome browser: 11p11.2 | |
| Type of gene | protein-coding | |
| RefGenes | NM_002334.3, | |
| Description | low-density lipoprotein receptor-related protein 4multiple epidermal growth factor-like domains 7 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 604270 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000134569 | ||
| HPRD : 18517 | ||
| Vega : OTTHUMG00000166700 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_LRP4 | |
| BioGPS: 4038 | ||
| Pathway | NCI Pathway Interaction Database: LRP4 | |
| KEGG: LRP4 | ||
| REACTOME: LRP4 | ||
| Pathway Commons: LRP4 | ||
| Context | iHOP: LRP4 | |
| ligand binding site mutation search in PubMed: LRP4 | ||
| UCL Cancer Institute: LRP4 | ||
| 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) | ColonSkin | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | COADSKCM | |
| Reference showing the relevant tissue of LRP4 | ||
| 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 | GO:0001822 | kidney development | 20381006 | GO:0060173 | limb development | 20381006 | GO:0090090 | negative regulation of canonical Wnt signaling pathway | 20093106 | GO:0001822 | kidney development | 20381006 | GO:0060173 | limb development | 20381006 | GO:0090090 | negative regulation of canonical Wnt signaling pathway | 20093106 |
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| TissGeneExp for LRP4 |
| 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 |
| BRCA | -1.8985588 | -0.126472835 | -1.772085965 | 2.79E-32 | 4.16E-31 |
| THCA | 3.247905548 | -0.763787673 | 4.01169322 | 7.11E-26 | 1.43E-23 |
| PRAD | -1.041104785 | -0.040810554 | -1.000294231 | 1.35E-07 | 1.24E-06 |
| STAD | -0.513360554 | 0.621214446 | -1.134575 | 0.00329 | 0.01377879 |
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| TissGene-miRNA for LRP4 |
| 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 LRP4 |
| TissGeneSNV for LRP4 |
| 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.P577L | STAD | 1 |
| p.A1070T | LUAD | 1 |
| p.R1885* | STAD | 1 |
| p.L68I | LUAD | 1 |
| p.Y208C | STAD | 1 |
| p.K1753R | STAD | 1 |
| p.R373Q | UCEC | 1 |
| p.C57W | LUAD | 1 |
| p.A296V | THYM | 1 |
| p.S1681Y | UCEC | 1 |
| p.K1753T | ESCA | 1 |
| p.G120S | LIHC | 1 |
| p.T952I | SKCM | 1 |
| p.S1315L | SKCM | 1 |
| p.S530L | BLCA | 1 |
| p.P1023A | HNSC | 1 |
| p.R1830Q | GBM | 1 |
| p.G1112V | LUAD | 1 |
| p.R447C | BLCA | 1 |
| p.N705K | HNSC | 1 |
| p.R1687H | STAD | 1 |
| p.D1303H | BRCA | 1 |
| p.R957H | UCEC | 1 |
| p.R1104M | UCEC | 1 |
| p.R886Q | SKCM | 1 |
| p.P643L | SKCM | 1 |
| p.C724F | HNSC | 1 |
| p.A1475T | BRCA | 1 |
| p.R997H | COAD | 1 |
| p.L1433M | STAD | 1 |
| p.R1107H | PRAD | 1 |
| p.D257H | HNSC | 1 |
| p.P1336S | MESO | 1 |
| p.T689I | SKCM | 1 |
| p.R886* | HNSC | 1 |
| p.E1779K | UCEC | 1 |
| p.D211H | BRCA | 1 |
| p.Q1224X | KIRP | 1 |
| p.R1833W | LUAD | 1 |
| p.M685V | LUAD | 1 |
| p.L1837F | SKCM | 1 |
| p.G499D | COAD | 1 |
| p.R1170Q | COAD | 1 |
| p.N469S | LUAD | 1 |
| p.R590H | STAD | 1 |
| p.V1776E | LUAD | 1 |
| p.V1810L | LUAD | 1 |
| p.E511D | LUSC | 1 |
| p.D211H | BLCA | 1 |
| p.A645V | SKCM | 1 |
| p.R232L | PAAD | 1 |
| p.Q370H | COAD | 1 |
| p.R590H | COAD | 1 |
| p.Q1611K | LUAD | 1 |
| p.R1685W | SKCM | 1 |
| p.E163G | LUAD | 1 |
| p.R557L | READ | 1 |
| p.R589C | MESO | 1 |
| p.D594N | UCEC | 1 |
| p.I1409M | CESC | 1 |
| p.R1060C | BLCA | 1 |
| p.G92R | LUAD | 1 |
| p.R1158W | HNSC | 1 |
| p.Y1400C | BRCA | 1 |
| p.E114K | SKCM | 1 |
| p.P725L | STAD | 1 |
| p.I1078V | KIRP | 1 |
| p.G1112F | LUAD | 1 |
| p.D1525H | KIRC | 1 |
| p.G1215E | SKCM | 1 |
| p.N119H | LGG | 1 |
| p.R1498W | HNSC | 1 |
| p.G574S | LIHC | 1 |
| p.Y1570C | BLCA | 1 |
| p.N306S | LUAD | 1 |
| p.R754Q | COAD | 1 |
| p.P1718Q | THYM | 1 |
| p.R1361C | STAD | 1 |
| p.N1801T | SKCM | 1 |
| p.W1568* | MESO | 1 |
| p.D1349G | LUAD | 1 |
| p.R678H | LUAD | 1 |
| p.V1810I | READ | 1 |
| p.R590H | ESCA | 1 |
| p.P1001S | SKCM | 1 |
| p.G291R | SKCM | 1 |
| p.D95N | UCS | 1 |
| p.R534M | PAAD | 1 |
| p.E163K | LUAD | 1 |
| p.D1229N | HNSC | 1 |
| p.R1425X | SKCM | 1 |
| p.I752V | HNSC | 1 |
| p.L1248M | LIHC | 1 |
| p.R427W | KIRC | 1 |
| p.G423S | SKCM | 1 |
| p.E1811X | LIHC | 1 |
| p.T267I | COAD | 1 |
| p.S341I | PRAD | 1 |
| p.D1229N | OV | 1 |
| p.R1770Q | CESC | 1 |
| p.P1382S | LUSC | 1 |
| p.K801N | COAD | 1 |
| p.D1846Y | ACC | 1 |
| p.S756N | COAD | 1 |
| p.E760K | SKCM | 1 |
| p.Q1114H | LGG | 1 |
| p.Q1564_splice | LUSC | 1 |
| p.A1534T | OV | 1 |
| p.R1202C | COAD | 1 |
| p.P725H | ESCA | 1 |
| p.R288H | STAD | 1 |
| p.H477Y | BLCA | 1 |
| p.A560V | LUAD | 1 |
| p.D140N | LUSC | 1 |
| p.P1169L | SKCM | 1 |
| p.R430W | SKCM | 1 |
| p.R748Q | SKCM | 1 |
| p.T1121A | BRCA | 1 |
| p.S732I | STAD | 1 |
| p.W527* | SKCM | 1 |
| p.P577S | SKCM | 1 |
| p.N1292H | PRAD | 1 |
| p.D1543E | PRAD | 1 |
| p.R998C | MESO | 1 |
| p.E1540* | OV | 1 |
| p.C1320Y | LIHC | 1 |
| p.R1506W | PAAD | 1 |
| p.S240C | KIRP | 1 |
| p.D1602N | UCEC | 1 |
| p.A272T | STAD | 1 |
| p.I897V | READ | 1 |
| p.G1025E | LUAD | 1 |
| p.P1169S | SKCM | 1 |
| p.I752N | COAD | 1 |
| p.E97V | LIHC | 1 |
| p.R323C | PAAD | 1 |
| p.G1281S | SKCM | 1 |
| p.P1782S | SKCM | 1 |
| p.N664S | LUSC | 1 |
| p.V787M | BLCA | 1 |
| p.A1727T | READ | 1 |
| p.Y959C | GBM | 1 |
| p.A1661G | PRAD | 1 |
| p.A922T | READ | 1 |
| p.L540M | STAD | 1 |
| p.A1727T | UCEC | 1 |
| p.A1238V | LUAD | 1 |
| p.G1012S | HNSC | 1 |
| p.R1366H | COAD | 1 |
| p.L314S | DLBC | 1 |
| p.E180D | LUSC | 1 |
| p.D1525N | HNSC | 1 |
| p.G1033D | THYM | 1 |
| p.N1152H | SKCM | 1 |
| p.P187S | UCEC | 1 |
| p.D657N | HNSC | 1 |
| p.R839Q | UCEC | 1 |
| p.D978N | SARC | 1 |
| p.W1893C | BLCA | 1 |
| p.R350W | COAD | 1 |
| p.A697V | LGG | 1 |
| p.F728C | SKCM | 1 |
| p.G1155W | LUAD | 1 |
| p.D140N | SKCM | 1 |
| p.R1202C | LUSC | 1 |
| p.L242P | LUAD | 1 |
| p.Q1224* | KIRP | 1 |
| p.D54E | KIRC | 1 |
| p.S1321F | HNSC | 1 |
| p.P1213H | CHOL | 1 |
| p.D1583N | BLCA | 1 |
| p.G322R | PRAD | 1 |
| p.D1071V | COAD | 1 |
| p.G1424A | HNSC | 1 |
| p.P1328S | STAD | 1 |
| p.T1184A | STAD | 1 |
| p.W855C | LUAD | 1 |
| p.H993Y | SKCM | 1 |
| p.E956K | ESCA | 1 |
| p.A1454V | LGG | 1 |
| p.A645T | COAD | 1 |
| p.D172N | SKCM | 1 |
| p.R753L | LUSC | 1 |
| p.E1811* | LIHC | 1 |
| p.R1425* | SKCM | 1 |
| p.M873I | LGG | 1 |
| p.G609R | ESCA | 1 |
| p.S37R | LUAD | 1 |
| p.G1122R | SKCM | 1 |
| p.R839W | UCEC | 1 |
| p.D1513Y | LUAD | 1 |
| p.G1424R | KIRP | 1 |
| p.R1304P | LUAD | 1 |
| p.N1673S | BRCA | 1 |
| p.D389V | HNSC | 1 |
| p.S1100R | KIRC | 1 |
| p.E580G | ESCA | 1 |
| p.W1531C | LUAD | 1 |
| p.M1080V | LUSC | 1 |
| p.R124L | LUAD | 1 |
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| TissGeneCNV for LRP4 |
| 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 LRP4 |
| 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 | BC110808 | LRP4-C14orf37 | chr11:46940193 | chr14:58727700 | |
| Chimerdb3.0 | FusionScan | ESCA | TCGA-V5-A7RC-01B | LRP5-LRP4 | In-Frame | chr11:68115711 | chr11:46897517 |
| Chimerdb3.0 | FusionScan | ESCA | TCGA-L5-A4OM-01A | LRP5-LRP4 | In-Frame | chr11:68115711 | chr11:46897517 |
| Chimerdb3.0 | FusionScan | ESCA | TCGA-LN-A4A8-01A | LRP5-LRP4 | In-Frame | chr11:68115711 | chr11:46897517 |
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| TissGeneNet for LRP4 |
| 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) |
| BRCA (tumor) | BRCA (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
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| COAD (tumor) | COAD (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
 |  |
| HNSC (tumor) | HNSC (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
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| KICH (tumor) | KICH (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
 |  |
| KIRC (tumor) | KIRC (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
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| KIRP (tumor) | KIRP (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
 |  |
| LIHC (tumor) | LIHC (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
 |  |
| LUAD (tumor) | LUAD (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
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| LUSC (tumor) | LUSC (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
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| PRAD (tumor) | PRAD (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
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| STAD (tumor) | STAD (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
 |  |
| THCA (tumor) | THCA (normal) |
| LRP4, SUMO1, ARRB1, DFNB31, PID1 (tumor) | LRP4, SUMO1, ARRB1, DFNB31, PID1 (normal) |
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| TissGeneProg for LRP4 |
| 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 LRP4 |
| TissGeneDrug for LRP4 |
| 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 LRP4 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0029456 | Osteoporosis | 4 | BeFree,GAD |
| umls:C0026896 | Myasthenia Gravis | 3 | BeFree |
| umls:C0751882 | Myasthenic Syndromes, Congenital | 3 | BeFree |
| umls:C0039075 | Syndactyly | 2 | BeFree,CTD_human |
| umls:C1859309 | Syndactyly Cenani Lenz type | 2 | BeFree,CLINVAR,CTD_human,MGD,ORPHANET,UNIPROT |
| umls:C3280402 | SCLEROSTEOSIS 2 | 2 | BeFree,CLINVAR,MGD,UNIPROT |
| umls:C0002395 | Alzheimer's Disease | 1 | BeFree |
| umls:C0005940 | Bone Diseases | 1 | BeFree |
| umls:C0023434 | Chronic Lymphocytic Leukemia | 1 | BeFree,GAD |
| umls:C0024299 | Lymphoma | 1 | GAD |
| umls:C0027819 | Neuroblastoma | 1 | BeFree |
| umls:C0040427 | Tooth Abnormalities | 1 | CTD_human |
| umls:C0265553 | Polysyndactyly | 1 | BeFree |
| umls:C0266292 | Congenital anomaly of the kidney | 1 | BeFree |
| umls:C0349631 | Richter's syndrome | 1 | BeFree |
| umls:C0432365 | Thalidomide embryopathy syndrome | 1 | BeFree |
| umls:C0700095 | Central neuroblastoma | 1 | BeFree |
| umls:C0796016 | Microphthalmia, syndromic 1 | 1 | BeFree |
| umls:C0947912 | Myasthenias | 1 | BeFree |
| umls:C0265301 | Sclerosteosis | 0 | ORPHANET |
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