TissGeneSummary for RNFT1 |
Gene summary |
Basic gene information | Gene symbol | RNFT1 |
Gene name | ring finger protein, transmembrane 1 | |
Synonyms | - | |
Cytomap | UCSC genome browser: 17q23.1 | |
Type of gene | protein-coding | |
RefGenes | NM_016125.3, | |
Description | RING finger and transmembrane domain-containing protein 1 | |
Modification date | 20141207 | |
dbXrefs | MIM : 615172 | |
HGNC : HGNC | ||
Ensembl : ENSG00000189050 | ||
HPRD : 17925 | ||
Vega : OTTHUMG00000148658 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_RNFT1 | |
BioGPS: 51136 | ||
Pathway | NCI Pathway Interaction Database: RNFT1 | |
KEGG: RNFT1 | ||
REACTOME: RNFT1 | ||
Pathway Commons: RNFT1 | ||
Context | iHOP: RNFT1 | |
ligand binding site mutation search in PubMed: RNFT1 | ||
UCL Cancer Institute: RNFT1 | ||
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) | Testis | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | TGCT | |
Reference showing the relevant tissue of RNFT1 | ||
Description by TissGene annotations | TissgsLTS |
* 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 RNFT1 |
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) |
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) |
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. |
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) |
- 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 |
KICH | -1.701847816 | -0.612659816 | -1.089188 | 4.62E-10 | 3.16E-09 |
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TissGene-miRNA for RNFT1 |
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 RNFT1 |
TissGeneSNV for RNFT1 |
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. |
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) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.R351Q | UCEC | 2 |
p.M1V | HNSC | 1 |
p.V103A | STAD | 1 |
p.A131T | STAD | 1 |
p.P49S | HNSC | 1 |
p.M38I | BLCA | 1 |
p.A186V | COAD | 1 |
p.R116Q | STAD | 1 |
p.K26N | BLCA | 1 |
p.G313E | COAD | 1 |
p.A37V | ESCA | 1 |
p.A123E | ESCA | 1 |
p.F234I | UCEC | 1 |
p.S30L | LUSC | 1 |
p.H46N | LUSC | 1 |
p.L235X | STAD | 1 |
p.P9Q | UCEC | 1 |
p.D370N | SKCM | 1 |
p.I99T | BLCA | 1 |
p.A123V | LUSC | 1 |
p.F340C | UCEC | 1 |
p.L235* | STAD | 1 |
p.L228I | UCEC | 1 |
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TissGeneCNV for RNFT1 |
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 RNFT1 |
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 | LGG | TCGA-DB-A4XF-01A | BCAS3-RNFT1 | Out-of-Frame | chr17:59161925 | chr17:58040645 |
Chimerdb3.0 | FusionScan | ESCA | TCGA-L5-A8NH-01A | CPT1A-RNFT1 | In-Frame | chr11:68527036 | chr17:58031507 |
Chimerdb3.0 | FusionScan | ESCA | TCGA-L5-A8NH-01A | CPT1A-RNFT1 | In-Frame | chr11:68527036 | chr17:58030472 |
Chimerdb3.0 | TopHat-Fusion | CESC | TCGA-C5-A907-01A | RPS6KB1-RNFT1 | In-Frame | chr17:57992063 | chr17:58030406 |
Chimerdb3.0 | TopHat-Fusion | BRCA | TCGA-A2-A1FW-01A | VMP1-RNFT1 | In-Frame | chr17:57851245 | chr17:58031506 |
TCGAfusionPortal | PRADA | BRCA | TCGA-A2-A1FW-01A | VMP1-RNFT1 | In-frame | Chr17:57851246 | Chr17:58031507 |
TCGAfusionPortal | PRADA | BRCA | TCGA-C8-A12L-01A | DHX40-RNFT1 | Out-of-frame | Chr17:57676844 | Chr17:58040645 |
TCGAfusionPortal | PRADA | BRCA | TCGA-E2-A14V-01A | RNFT1-PAAF1 | In-frame | Chr17:58041969 | Chr11:73589824 |
TCGAfusionPortal | PRADA | BRCA | TCGA-E2-A15H-01A | CDC6-RNFT1 | Out-of-frame | Chr17:38457282 | Chr17:58040645 |
TCGAfusionPortal | PRADA | LGG | TCGA-DB-A4XF-01A | BCAS3-RNFT1 | Out-of-frame | Chr17:59161925 | Chr17:58040645 |
TCGAfusionPortal | PRADA | LUAD | TCGA-05-4244-01A | DHX40-RNFT1 | Out-of-frame | Chr17:57676844 | Chr17:58040645 |
TCGAfusionPortal | PRADA | LUAD | TCGA-38-4631-01A | DHX40-RNFT1 | Out-of-frame | Chr17:57676844 | Chr17:58040645 |
TCGAfusionPortal | PRADA | LUAD | TCGA-55-1592-01A | DHX40-RNFT1 | Out-of-frame | Chr17:57676844 | Chr17:58040645 |
TCGAfusionPortal | PRADA | LUAD | TCGA-55-1596-01A | DHX40-RNFT1 | Out-of-frame | Chr17:57676844 | Chr17:58040645 |
TCGAfusionPortal | PRADA | LUAD | TCGA-55-7903-01A | DHX40-RNFT1 | Out-of-frame | Chr17:57676844 | Chr17:58040645 |
TCGAfusionPortal | PRADA | LUAD | TCGA-55-8207-01A | DHX40-RNFT1 | Out-of-frame | Chr17:57676844 | Chr17:58040645 |
TCGAfusionPortal | PRADA | LUAD | TCGA-64-5779-01A | DHX40-RNFT1 | Out-of-frame | Chr17:57676844 | Chr17:58040645 |
TCGAfusionPortal | PRADA | LUAD | TCGA-75-7031-01A | DHX40-RNFT1 | Out-of-frame | Chr17:57676844 | Chr17:58040645 |
TCGAfusionPortal | PRADA | LUAD | TCGA-86-8669-01A | DHX40-RNFT1 | Out-of-frame | Chr17:57676844 | Chr17:58040645 |
TCGAfusionPortal | PRADA | LUSC | TCGA-22-4594-01A | DHX40-RNFT1 | Out-of-frame | Chr17:57676844 | Chr17:58040645 |
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TissGeneNet for RNFT1 |
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 RNFT1 |
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. |
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. |
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. |
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 RNFT1 |
TissGeneDrug for RNFT1 |
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 RNFT1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |