TissGeneSummary for RPH3A |
Gene summary |
Basic gene information | Gene symbol | RPH3A |
Gene name | rabphilin 3A | |
Synonyms | - | |
Cytomap | UCSC genome browser: 12q24.13 | |
Type of gene | protein-coding | |
RefGenes | NM_001143854.1, NM_014954.3, | |
Description | exophilin-1rabphilin 3A homolograbphilin-3A | |
Modification date | 20141207 | |
dbXrefs | MIM : 612159 | |
HGNC : HGNC | ||
Ensembl : ENSG00000089169 | ||
HPRD : 15273 | ||
Vega : OTTHUMG00000169713 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_RPH3A | |
BioGPS: 22895 | ||
Pathway | NCI Pathway Interaction Database: RPH3A | |
KEGG: RPH3A | ||
REACTOME: RPH3A | ||
Pathway Commons: RPH3A | ||
Context | iHOP: RPH3A | |
ligand binding site mutation search in PubMed: RPH3A | ||
UCL Cancer Institute: RPH3A | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | HPA,TiGER | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Brain | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | GBM,LGG | |
Reference showing the relevant tissue of RPH3A | ||
Description by TissGene annotations | Have significant anti-correlated miRNA |
* 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 RPH3A |
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 |
LUAD | -0.810001368 | 1.353971046 | -2.163972414 | 3.98E-19 | 6.87E-18 |
LUSC | -0.807450929 | 1.062990248 | -1.870441176 | 8.26E-11 | 3.16E-10 |
COAD | -1.503330944 | 0.658030595 | -2.161361538 | 1.03E-11 | 2.01E-10 |
KIRC | 0.315770232 | -0.820188102 | 1.135958333 | 5.46E-09 | 1.70E-08 |
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TissGene-miRNA for RPH3A |
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 |
UCS | hsa-miR-502-3p | MIMAT0004775 | 0.047 | -0.27 | 56 |
LUAD | hsa-miR-31-5p | MIMAT0000089 | 0.0092 | -0.35 | 60 |
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TissGeneMut for RPH3A |
TissGeneSNV for RPH3A |
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.R532Q | SKCM | 2 |
p.G599R | SKCM | 2 |
p.R262Q | SKCM | 2 |
p.G227E | SKCM | 2 |
p.A265S | STAD | 1 |
p.R236Q | SKCM | 1 |
p.H627Q | KICH | 1 |
p.W13* | SKCM | 1 |
p.G211V | BLCA | 1 |
p.Q22* | BLCA | 1 |
p.R452Q | STAD | 1 |
p.G350R | OV | 1 |
p.P421S | ESCA | 1 |
p.R240Q | SKCM | 1 |
p.D386N | SKCM | 1 |
p.K510T | CESC | 1 |
p.V432F | TGCT | 1 |
p.R97H | PAAD | 1 |
p.A275S | LUSC | 1 |
p.S34F | SKCM | 1 |
p.D347E | LUAD | 1 |
p.R129H | COAD | 1 |
p.H623N | KIRP | 1 |
p.R452W | PRAD | 1 |
p.W455X | SKCM | 1 |
p.K119N | LUAD | 1 |
p.Q284X | ESCA | 1 |
p.R71Q | SKCM | 1 |
p.G223E | SKCM | 1 |
p.P374L | SKCM | 1 |
p.T527I | READ | 1 |
p.E539K | CESC | 1 |
p.R78C | COAD | 1 |
p.D3H | CESC | 1 |
p.M580K | BLCA | 1 |
p.R45M | BLCA | 1 |
p.H627N | KIRP | 1 |
p.G489D | SKCM | 1 |
p.Y402C | STAD | 1 |
p.G127E | SKCM | 1 |
p.R448Q | OV | 1 |
p.A341S | STAD | 1 |
p.V691M | SKCM | 1 |
p.Q30* | SKCM | 1 |
p.V90L | LUAD | 1 |
p.R82C | BLCA | 1 |
p.A223D | LUAD | 1 |
p.P366R | BRCA | 1 |
p.P194H | LIHC | 1 |
p.K173T | SKCM | 1 |
p.V687M | SKCM | 1 |
p.P184S | SARC | 1 |
p.Y339H | STAD | 1 |
p.N92S | KICH | 1 |
p.G467D | PRAD | 1 |
p.E550* | UCEC | 1 |
p.L50M | ESCA | 1 |
p.E56* | UCEC | 1 |
p.E616K | UCEC | 1 |
p.P180H | BRCA | 1 |
p.L437P | LIHC | 1 |
p.R205K | SKCM | 1 |
p.S557F | SKCM | 1 |
p.G255V | STAD | 1 |
p.R199Q | SKCM | 1 |
p.R234C | CESC | 1 |
p.W156* | UCEC | 1 |
p.G595R | SKCM | 1 |
p.R75Q | KIRC | 1 |
p.A440T | SKCM | 1 |
p.R75Q | SKCM | 1 |
p.E70K | BRCA | 1 |
p.P374T | STAD | 1 |
p.A631T | LUAD | 1 |
p.W459* | SKCM | 1 |
p.E488K | SKCM | 1 |
p.D676Y | STAD | 1 |
p.R573C | STAD | 1 |
p.I142M | LIHC | 1 |
p.A582S | LUAD | 1 |
p.W13C | ESCA | 1 |
p.G337R | LUSC | 1 |
p.N132H | SKCM | 1 |
p.Q214E | LUAD | 1 |
p.R234C | UCEC | 1 |
p.R209K | SKCM | 1 |
p.R246Q | BRCA | 1 |
p.A582T | STAD | 1 |
p.E99K | SKCM | 1 |
p.S387L | SKCM | 1 |
p.G305R | LUAD | 1 |
p.N85I | LIHC | 1 |
p.M522I | SKCM | 1 |
p.P302L | GBM | 1 |
p.P438R | LUAD | 1 |
p.A361S | BRCA | 1 |
p.A361E | HNSC | 1 |
p.Q410R | LUAD | 1 |
p.E103K | SKCM | 1 |
p.P171T | KIRP | 1 |
p.P224H | HNSC | 1 |
p.E129D | BLCA | 1 |
p.E72V | OV | 1 |
p.A151V | COAD | 1 |
p.E492K | SKCM | 1 |
p.S260P | SARC | 1 |
p.R258Q | SKCM | 1 |
p.E53D | LUAD | 1 |
p.M518I | SKCM | 1 |
p.M71I | BLCA | 1 |
p.L100Q | STAD | 1 |
p.R60M | ESCA | 1 |
p.A253T | COAD | 1 |
p.P327S | SKCM | 1 |
p.R455Q | UCEC | 1 |
p.R82H | KIRC | 1 |
p.K211X | COAD | 1 |
p.D208H | LUSC | 1 |
p.P173L | READ | 1 |
p.R12H | CHOL | 1 |
p.D470N | UCEC | 1 |
p.E496K | LUSC | 1 |
p.G255R | HNSC | 1 |
p.H623Q | KICH | 1 |
p.P438L | STAD | 1 |
p.D93N | BLCA | 1 |
p.E619K | HNSC | 1 |
p.G335X | THYM | 1 |
p.V233M | HNSC | 1 |
p.R325X | COAD | 1 |
p.R210G | HNSC | 1 |
p.L463F | HNSC | 1 |
p.L427F | LUAD | 1 |
p.E379K | SKCM | 1 |
p.D581N | SKCM | 1 |
p.W13X | SKCM | 1 |
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TissGeneCNV for RPH3A |
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 RPH3A |
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 | DA112381 | PPIL3-RPH3A | chr2:201753887 | chr12:113229729 | |
TCGAfusionPortal | PRADA | BRCA | TCGA-A8-A06X-01A | OAS3-RPH3A | Out-of-frame | Chr12:113403834 | Chr12:113325602 |
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TissGeneNet for RPH3A |
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 RPH3A |
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 RPH3A |
TissGeneDrug for RPH3A |
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 RPH3A |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0001418 | Adenocarcinoma | 1 | LHGDN |
umls:C0001925 | Albuminuria | 1 | GAD |
umls:C0009402 | Colorectal Carcinoma | 1 | BeFree |
umls:C0020179 | Huntington Disease | 1 | LHGDN |
umls:C0596263 | Carcinogenesis | 1 | BeFree |
umls:C0752347 | Lewy Body Disease | 1 | LHGDN |
umls:C1527249 | Colorectal Cancer | 1 | BeFree |