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| TissGeneSummary for LYAR |
 Gene summary |
| Basic gene information | Gene symbol | LYAR |
| Gene name | Ly1 antibody reactive | |
| Synonyms | ZC2HC2|ZLYAR | |
| Cytomap | UCSC genome browser: 4p16.3 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001145725.1, NM_017816.2, | |
| Description | Ly1 antibody reactive homologcell growth-regulating nucleolar protein | |
| Modification date | 20141207 | |
| dbXrefs | HGNC : HGNC | |
| Ensembl : ENSG00000145220 | ||
| HPRD : 10064 | ||
| Vega : OTTHUMG00000125477 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_LYAR | |
| BioGPS: 55646 | ||
| Pathway | NCI Pathway Interaction Database: LYAR | |
| KEGG: LYAR | ||
| REACTOME: LYAR | ||
| Pathway Commons: LYAR | ||
| Context | iHOP: LYAR | |
| ligand binding site mutation search in PubMed: LYAR | ||
| UCL Cancer Institute: LYAR | ||
| 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 LYAR | ||
| 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 LYAR |
| 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 |
| COAD | 1.299804955 | 0.063012647 | 1.236792308 | 3.53E-16 | 3.09E-14 |
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| TissGene-miRNA for LYAR |
| 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 LYAR |
| TissGeneSNV for LYAR |
| 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.Y341C | LUAD | 1 |
| p.A259T | COAD | 1 |
| p.I52V | LIHC | 1 |
| p.Y341C | LUSC | 1 |
| p.E193K | BLCA | 1 |
| p.E144* | LUAD | 1 |
| p.L155I | UCEC | 1 |
| p.H21R | ESCA | 1 |
| p.W77L | STAD | 1 |
| p.D281N | LIHC | 1 |
| p.W77* | LUAD | 1 |
| p.S128F | SKCM | 1 |
| p.R195Q | KIRP | 1 |
| p.A76E | STAD | 1 |
| p.R223H | UCEC | 1 |
| p.E263V | LUAD | 1 |
| p.G295C | LUAD | 1 |
| p.E193K | KIRC | 1 |
| p.V2L | SKCM | 1 |
| p.D301Y | LUAD | 1 |
| p.A241T | UCEC | 1 |
| p.K20N | STAD | 1 |
| p.S12L | COAD | 1 |
| p.A233V | COAD | 1 |
| p.K331X | KIRP | 1 |
| p.N7S | OV | 1 |
| p.D131E | HNSC | 1 |
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| TissGeneCNV for LYAR |
| 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 LYAR |
| 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 | CN337717 | NCAPG2-LYAR | chr7:158447378 | chr4:4276379 | |
| Chimerdb3.0 | ChiTaRs | NA | BU616556 | LYAR-COL6A3 | chr4:4283622 | chr2:238275370 | |
| Chimerdb3.0 | ChiTaRs | NA | BG179468 | LYAR-LYAR | chr4:4283605 | chr4:4276331 | |
| Chimerdb3.0 | ChiTaRs | NA | BF800135 | DHRS12-LYAR | chr13:52358796 | chr4:4283592 | |
| Chimerdb3.0 | FusionScan | LGG | TCGA-DH-A669-02A | PARD3-LYAR | In-Frame | chr10:35103803 | chr4:4276496 |
| Chimerdb3.0 | FusionScan | OV | TCGA-3P-A9WA-01A | STX18-LYAR | CDS-5'UTR | chr4:4440120 | chr4:4288299 |
| Chimerdb3.0 | FusionScan | OV | TCGA-3P-A9WA-01A | STX18-LYAR | CDS-5'UTR | chr4:4440120 | chr4:4285522 |
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| TissGeneNet for LYAR |
| 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) |
| LYAR, FUS, HDGF, NOP56, RPL32, GTPBP4, RPL24, RPS9, RPS14, BRIX1, FBL, DKC1, RPL35, GNL2, PPAN, DDX27, EBNA1BP2, RPL18A, RPS11, FAU, RRS1 (tumor) | LYAR, RPS10, HDGF, RPS16, SRPK1, NOP56, GTPBP4, BRIX1, FBL, DKC1, SSB, GNL2, PPAN, RRP1B, DDX27, EBNA1BP2, ABCF1, YTHDC2, C11orf48, RRS1, RPL36A (normal) |
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| COAD (tumor) | COAD (normal) |
| LYAR, KIAA0101, PRPF19, NOP56, GTPBP4, EIF3I, GNL3, NPM1, BRIX1, FBL, DKC1, DDX21, SSB, GNL2, PPAN, EBNA1BP2, EIF2S1, NAT10, NHP2, RRS1, TSR1 (tumor) | LYAR, KIAA0101, PRPF19, SRPK1, RSL1D1, GTPBP4, EIF3I, GNL3, NPM1, BRIX1, FBL, DKC1, SSB, PPAN, EBNA1BP2, NAT10, NHP2, C11orf48, RRS1, RPL36A, LLPH (normal) |
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| HNSC (tumor) | HNSC (normal) |
| LYAR, S100A9, KIAA0101, HDGF, NOP56, GTPBP4, GNL3, NPM1, BRIX1, DKC1, EIF6, GNL2, PPAN, DDX27, EBNA1BP2, EIF2S1, NAT10, CIRBP, RRS1, TSR1, LLPH (tumor) | LYAR, HDGF, NOP56, RSL1D1, GTPBP4, EIF3I, TNIK, GNL3, PWP1, NPM1, BRIX1, DKC1, SSB, GNL2, PPAN, DDX27, EBNA1BP2, C11orf48, RRS1, RPL36A, LLPH (normal) |
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| KICH (tumor) | KICH (normal) |
| LYAR, FUS, RPL26, PRPF19, KRT85, HNRNPUL1, OAS3, EIF2AK2, FBL, RPS26, DKC1, KRT36, RRP1B, DDX27, SRP9, IGF2BP1, FGF18, C7orf50, TSR1, PHF6, ADSSL1 (tumor) | LYAR, KIAA0101, NOP56, RSL1D1, EIF3I, GNL3, RPL31, MYBBP1A, BRIX1, KRT82, DKC1, RPL23A, SSB, GNL2, DDX27, EBNA1BP2, IGF2BP1, PHF20L1, HIST1H1D, RRS1, RPL36A (normal) |
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| KIRC (tumor) | KIRC (normal) |
| LYAR, KIAA0101, KRT85, KPNA1, GTPBP4, OAS3, GNL3, DHX9, BRIX1, FBL, DKC1, DDX21, SSB, GNL2, RRP1B, DDX27, IGF2BP1, FGF18, TSR1, PHF6, ADSSL1 (tumor) | LYAR, FUS, KIAA0101, HDGF, HNRNPUL1, NOP56, RSL1D1, GTPBP4, OAS3, GNL3, MYBBP1A, BRIX1, FBL, DKC1, SSB, GNL2, CD2, RRP1B, DDX27, RRS1, TSR1 (normal) |
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| KIRP (tumor) | KIRP (normal) |
| LYAR, FUS, RPS16, SRPK1, GTPBP4, GNL3, BRIX1, FBL, HIST1H2BE, SRP14, RPL35, SSB, DDX27, RPL18A, IGF2BP1, RPL28, RPS11, HIST1H1D, FGF18, NHP2, KPNA6 (tumor) | LYAR, KIAA0101, NOP56, RSL1D1, GTPBP4, GNL3, PWP1, NPM1, RPL31, RPS14, BRIX1, FBL, DKC1, RPL23A, SSB, GNL2, PPAN, DDX27, RSL24D1, RRS1, LLPH (normal) |
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| LIHC (tumor) | LIHC (normal) |
| LYAR, NOP56, RSL1D1, GTPBP4, RPL24, GNL3, NPM1, BRIX1, FBL, DKC1, SRP14, SSB, GNL2, PPAN, DDX27, EBNA1BP2, EIF2S1, ABCF1, NAT10, RSL24D1, RRS1 (tumor) | LYAR, RPL26, COPS5, NOP56, RPL32, RSL1D1, GTPBP4, GNL3, PWP1, NPM1, MYBBP1A, BRIX1, FBL, DKC1, EIF6, SSB, PPAN, DDX27, NAT10, RRS1, TSR1 (normal) |
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| LUAD (tumor) | LUAD (normal) |
| LYAR, S100A9, CUL1, KPNA1, HDGF, SRPK1, NOP56, GTPBP4, GNL3, MAPKAPK2, BRIX1, DKC1, DDX21, EIF6, SSB, GNL2, CD2, EIF2S1, RRS1, TSR1, PHF6 (tumor) | LYAR, KIAA0101, PRPF19, HDGF, SRPK1, NOP56, GTPBP4, EIF2AK2, PWP1, BRIX1, FBL, DKC1, DDX21, SSB, RRP1B, EBNA1BP2, EIF2S1, CIRBP, RRS1, TSR1, LLPH (normal) |
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| LUSC (tumor) | LUSC (normal) |
| LYAR, S100A9, CUL1, HDGF, SRPK1, NOP56, GTPBP4, GNL3, MAPKAPK2, BRIX1, DKC1, DDX21, SSB, GNL2, CD2, PPAN, DDX27, EIF2S1, ABCF1, RRS1, TSR1 (tumor) | LYAR, SRPK1, NOP56, RSL1D1, GTPBP4, EIF3I, GNL3, NPM1, MYBBP1A, BRIX1, DKC1, SSB, PPAN, DDX27, EBNA1BP2, NAT10, DDX54, C11orf48, RRS1, TSR1, LLPH (normal) |
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| PRAD (tumor) | PRAD (normal) |
| LYAR, FUS, KIAA0101, RPS16, NOP56, RPL32, RSL1D1, RPL24, NPM1, MAPKAPK2, BRIX1, FBL, DKC1, GNL2, PPAN, DDX27, NAT10, RPS11, FGF18, RRS1, RPL36A (tumor) | LYAR, RPS16, NOP56, RPL32, RSL1D1, RPS3A, RPL24, NPM1, RPL31, RPS14, BRIX1, FBL, DKC1, RPL23A, RPL35, GNL2, PPAN, RPL18A, RPS11, NHP2, RRS1 (normal) |
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| STAD (tumor) | STAD (normal) |
| LYAR, RPL26, CUL1, RPS16, NOP56, RSL1D1, GTPBP4, RPS3A, RPL24, PWP1, NPM1, RPL31, BRIX1, SRP14, SSB, RPL21, EIF2S1, CIRBP, PHF20L1, RSL24D1, RPL36A (tumor) | LYAR, KIAA0101, COPS5, NOP56, EIF3I, RPL24, GNL3, NPM1, BRIX1, DKC1, EIF6, SSB, GNL2, PPAN, EBNA1BP2, MTDH, RSL24D1, C11orf48, RRS1, RPL36A, LLPH (normal) |
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| THCA (tumor) | THCA (normal) |
| LYAR, ZHX1, RPL26, KIAA0101, RPS10, RPS16, NOP56, RPL32, GNL3, RPL31, DHX57, RPS14, BRIX1, RPL23A, RPL35, DDX27, RPL28, RPS11, FAU, TWF2, HIST1H1D (tumor) | LYAR, FUS, S100A9, RPS16, NOP56, TNIK, GNL3, BRIX1, FBL, SSB, GNL2, CD2, PPAN, TLR9, DDX27, RPL18A, RPL28, RPS11, TWF2, C11orf48, RRS1 (normal) |
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| TissGeneProg for LYAR |
| 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 LYAR |
| TissGeneDrug for LYAR |
| 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 LYAR |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
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