TissGeneSummary for RBP7 |
Gene summary |
Basic gene information | Gene symbol | RBP7 |
Gene name | retinol binding protein 7, cellular | |
Synonyms | CRBP4|CRBPIV | |
Cytomap | UCSC genome browser: 1p36.22 | |
Type of gene | protein-coding | |
RefGenes | NM_052960.2, | |
Description | CRABP-IVCRABP4cellular retinoic acid-binding protein 4cellular retinoic acid-binding protein IVputative cellular retinol-binding protein CRBP IVretinoid binding protein 7retinoid-binding protein 7 | |
Modification date | 20141207 | |
dbXrefs | MIM : 608604 | |
HGNC : HGNC | ||
Ensembl : ENSG00000162444 | ||
HPRD : 16355 | ||
Vega : OTTHUMG00000001798 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_RBP7 | |
BioGPS: 116362 | ||
Pathway | NCI Pathway Interaction Database: RBP7 | |
KEGG: RBP7 | ||
REACTOME: RBP7 | ||
Pathway Commons: RBP7 | ||
Context | iHOP: RBP7 | |
ligand binding site mutation search in PubMed: RBP7 | ||
UCL Cancer Institute: RBP7 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | TiGER,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | BreastPancreas | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | BRCAPAAD | |
Reference showing the relevant tissue of RBP7 | ||
Description by TissGene annotations | Cancer gene Fused withTSGene |
* 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 RBP7 |
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 | 0.861660162 | 2.238824162 | -1.377164 | 2.45E-05 | 7.18E-05 |
KIRP | -0.488880588 | 1.418150662 | -1.90703125 | 8.56E-09 | 6.62E-08 |
LIHC | 1.617508162 | -0.195599838 | 1.813108 | 3.04E-10 | 3.71E-09 |
HNSC | -1.385074628 | 0.736890488 | -2.121965116 | 1.58E-08 | 1.83E-07 |
BRCA | 0.880307461 | 3.430671496 | -2.550364035 | 6.80E-37 | 1.43E-35 |
ESCA | -1.98893002 | -0.153093656 | -1.835836364 | 0.000872 | 0.013192707 |
BLCA | -0.686906575 | 1.050030268 | -1.736936842 | 0.000823 | 0.006040766 |
COAD | -2.036165684 | -0.968607992 | -1.067557692 | 0.00219 | 0.005809068 |
STAD | -1.522749338 | 0.113853787 | -1.636603125 | 1.47E-05 | 0.000158183 |
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TissGene-miRNA for RBP7 |
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 RBP7 |
TissGeneSNV for RBP7 |
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.W89* | LUAD | 1 |
p.S49F | SKCM | 1 |
p.I88M | KIRP | 1 |
p.E70X | COAD | 1 |
p.L78M | UCEC | 1 |
p.S57N | STAD | 1 |
p.T10I | SKCM | 1 |
p.N55S | LUAD | 1 |
p.V67I | HNSC | 1 |
p.H53Y | SKCM | 1 |
p.E112K | STAD | 1 |
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TissGeneCNV for RBP7 |
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 RBP7 |
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 | AI356564 | RBP7-MS4A7 | chr1:10070455 | chr11:60161840 | |
TCGAfusionPortal | PRADA | BRCA | TCGA-BH-A1EV-01A | KIRREL-RBP7 | Out-of-frame | Chr1:157963518 | Chr1:10075840 |
TCGAfusionPortal | PRADA | OV | TCGA-13-1510-01A | UBE4B-RBP7 | In-frame | Chr1:10132272 | Chr1:10067628 |
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TissGeneNet for RBP7 |
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 RBP7 |
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 RBP7 |
TissGeneDrug for RBP7 |
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 RBP7 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0004096 | Asthma | 1 | BeFree |
umls:C0027819 | Neuroblastoma | 1 | BeFree |
umls:C0700095 | Central neuroblastoma | 1 | BeFree |
umls:C2931822 | Nasopharyngeal carcinoma | 1 | BeFree |