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| TissGeneSummary for RDM1 |
 Gene summary |
| Basic gene information | Gene symbol | RDM1 |
| Gene name | RAD52 motif containing 1 | |
| Synonyms | RAD52B | |
| Cytomap | UCSC genome browser: 17q11.2 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001034836.1, NM_001163120.1,NM_001163121.1,NM_001163122.1,NM_001163124.1, NM_001163125.1,NM_001163130.1,NM_145654.3,NR_027996.1, NR_027997.1,NR_027998.1,NR_027999.1,NR_028000.1, | |
| Description | RAD52 homolog BRAD52 motif 1RAD52 motif-containing protein 1 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 612896 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000278023 | ||
| HPRD : 15205 | ||
| Vega : OTTHUMG00000188399 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_RDM1 | |
| BioGPS: 201299 | ||
| Pathway | NCI Pathway Interaction Database: RDM1 | |
| KEGG: RDM1 | ||
| REACTOME: RDM1 | ||
| Pathway Commons: RDM1 | ||
| Context | iHOP: RDM1 | |
| ligand binding site mutation search in PubMed: RDM1 | ||
| UCL Cancer Institute: RDM1 | ||
| 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 RDM1 | ||
| Description by TissGene annotations | Cancer gene | |
| * 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 RDM1 |
| 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 |
| KIRC | -1.478239717 | -2.826098051 | 1.347858333 | 1.73E-14 | 8.41E-14 |
| LUAD | -0.708798194 | -3.139468884 | 2.43067069 | 2.49E-19 | 4.50E-18 |
| LIHC | -0.721618884 | -3.044442884 | 2.322824 | 2.06E-11 | 3.09E-10 |
| KIRP | -0.534425134 | -2.968125134 | 2.4337 | 2.93E-10 | 3.07E-09 |
| LUSC | -0.003711041 | -3.139279668 | 3.135568627 | 1.59E-23 | 2.91E-22 |
| STAD | 0.157540491 | -1.879462634 | 2.037003125 | 1.88E-06 | 2.80E-05 |
| THCA | -1.491840918 | -2.826440918 | 1.3346 | 2.95E-11 | 2.11E-10 |
| BRCA | -0.373466253 | -2.707763621 | 2.334297368 | 1.15E-33 | 1.92E-32 |
| BLCA | 1.442265326 | -2.007918884 | 3.450184211 | 2.15E-08 | 1.77E-06 |
| HNSC | -0.559056093 | -1.956614233 | 1.39755814 | 1.73E-07 | 1.60E-06 |
| ESCA | -0.017237066 | -2.800191611 | 2.782954545 | 2.09E-06 | 0.000664023 |
| COAD | 0.643784962 | -0.402834269 | 1.046619231 | 0.000114 | 0.000408127 |
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| TissGene-miRNA for RDM1 |
| 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 RDM1 |
| TissGeneSNV for RDM1 |
| 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.K78N | KIRC | 1 |
| p.E136* | LUAD | 1 |
| p.S13C | KIRC | 1 |
| p.R143M | OV | 1 |
| p.A205T | STAD | 1 |
| p.S89Y | ESCA | 1 |
| p.S89F | UCEC | 1 |
| p.G190E | SKCM | 1 |
| p.G190* | STAD | 1 |
| p.T225I | UCEC | 1 |
| p.X237Y | PRAD | 1 |
| p.E113* | LUAD | 1 |
| p.A50V | KIRP | 1 |
| p.E220G | PRAD | 1 |
| p.C104W | COAD | 1 |
| p.D147H | CESC | 1 |
| p.R52T | BLCA | 1 |
| p.P10L | SKCM | 1 |
| p.A118V | UCEC | 1 |
| p.R120G | LUAD | 1 |
| p.V220F | BRCA | 1 |
| p.G190X | STAD | 1 |
| p.K92N | STAD | 1 |
| p.G96D | UCEC | 1 |
| p.E243G | PRAD | 1 |
| p.A73V | KIRP | 1 |
| p.T202A | HNSC | 1 |
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| TissGeneCNV for RDM1 |
| 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 RDM1 |
| 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 |
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| TissGeneNet for RDM1 |
| 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 RDM1 |
| 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 RDM1 |
| TissGeneDrug for RDM1 |
| 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 RDM1 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0031117 | Peripheral Neuropathy | 1 | CTD_human |
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