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| TissGeneSummary for RDH16 |
 Gene summary |
| Basic gene information | Gene symbol | RDH16 |
| Gene name | retinol dehydrogenase 16 (all-trans) | |
| Synonyms | RODH-4|SDR9C8 | |
| Cytomap | UCSC genome browser: 12q13.3 | |
| Type of gene | protein-coding | |
| RefGenes | NM_003708.3, | |
| Description | microsomal NAD(+)-dependent retinol dehydrogenase 4microsomal NAD+-dependent retinol dehydrogenase 4retinol dehydrogenase 16retinol dehydrogenase 16 (all-trans and 13-cis)short chain dehydrogenase/reductase family 9C, member 8sterol/retinol dehydroge | |
| Modification date | 20141207 | |
| dbXrefs | HGNC : HGNC | |
| HPRD : 10208 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_RDH16 | |
| BioGPS: 8608 | ||
| Pathway | NCI Pathway Interaction Database: RDH16 | |
| KEGG: RDH16 | ||
| REACTOME: RDH16 | ||
| Pathway Commons: RDH16 | ||
| Context | iHOP: RDH16 | |
| ligand binding site mutation search in PubMed: RDH16 | ||
| UCL Cancer Institute: RDH16 | ||
| Assigned class in TissGDB* | B | |
| Included tissue-specific gene expression resources | HPA,TiGER,GTEx | |
| Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | LiverStomach | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | LIHCSTAD | |
| Reference showing the relevant tissue of RDH16 | ||
| 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 RDH16 |
| 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 |
| HNSC | 1.947785378 | -0.009572762 | 1.95735814 | 8.45E-07 | 6.55E-06 |
| LUSC | 0.24691064 | -1.978261909 | 2.225172549 | 1.18E-11 | 4.88E-11 |
| LIHC | 5.832899424 | 9.466465424 | -3.633566 | 1.06E-11 | 1.68E-10 |
| COAD | -1.124593961 | -3.060947807 | 1.936353846 | 2.35E-07 | 1.53E-06 |
| BRCA | 0.065376687 | -1.748799629 | 1.814176316 | 1.79E-16 | 1.02E-15 |
| BLCA | 0.180587214 | -1.496228576 | 1.676815789 | 0.00338 | 0.019678325 |
| STAD | -0.949219201 | -2.474212951 | 1.52499375 | 0.00174 | 0.008203899 |
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| TissGene-miRNA for RDH16 |
| 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 RDH16 |
| TissGeneSNV for RDH16 |
| 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.S116F | SKCM | 3 |
| p.R168Q | STAD | 1 |
| p.G173D | SKCM | 1 |
| p.R52Q | PAAD | 1 |
| p.F209L | BLCA | 1 |
| p.E233* | LUAD | 1 |
| p.S195F | SKCM | 1 |
| p.V199A | UCEC | 1 |
| p.K241T | STAD | 1 |
| p.D260N | SKCM | 1 |
| p.D83N | SKCM | 1 |
| p.C60F | LUAD | 1 |
| p.L14F | SKCM | 1 |
| p.S170* | BLCA | 1 |
| p.D286N | SKCM | 1 |
| p.W2X | SKCM | 1 |
| p.T119A | LIHC | 1 |
| p.E251* | PRAD | 1 |
| p.A6V | TGCT | 1 |
| p.M1V | LIHC | 1 |
| p.A212T | SARC | 1 |
| p.T132I | SKCM | 1 |
| p.R229Q | COAD | 1 |
| p.W2* | SKCM | 1 |
| p.F33L | STAD | 1 |
| p.T145S | LUSC | 1 |
| p.P313R | BLCA | 1 |
| p.T145S | BLCA | 1 |
| p.X318W | SKCM | 1 |
| p.W2R | UCEC | 1 |
| p.P121S | BRCA | 1 |
| p.T6I | BRCA | 1 |
| p.F219L | UCEC | 1 |
| p.V183L | ESCA | 1 |
| p.E78* | LUAD | 1 |
| p.A314S | LUAD | 1 |
| p.E63K | SKCM | 1 |
| p.C257Y | COAD | 1 |
| p.E240K | KIRC | 1 |
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| TissGeneCNV for RDH16 |
| 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 RDH16 |
| 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 RDH16 |
| 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 RDH16 |
| 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 RDH16 |
| TissGeneDrug for RDH16 |
| 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 RDH16 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0014170 | Endometrial Neoplasms | 1 | LHGDN |
| umls:C0023903 | Liver neoplasms | 1 | BeFree |
| umls:C0036572 | Seizures | 1 | BeFree |
| umls:C2239176 | Liver carcinoma | 1 | BeFree |
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