TissGeneSummary for CRYBA4 |
Gene summary |
Basic gene information | Gene symbol | CRYBA4 |
Gene name | crystallin, beta A4 | |
Synonyms | CTRCT23|MCOPCT4 | |
Cytomap | UCSC genome browser: 22q12.1 | |
Type of gene | protein-coding | |
RefGenes | NM_001886.2, | |
Description | beta crystallin A4 chain transcript PSbeta-A4 crystallinbeta-crystallin A4crystallin, beta polypeptide A4eye lens structural protein | |
Modification date | 20141207 | |
dbXrefs | MIM : 123631 | |
HGNC : HGNC | ||
Ensembl : ENSG00000196431 | ||
HPRD : 00432 | ||
Vega : OTTHUMG00000150983 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_CRYBA4 | |
BioGPS: 1413 | ||
Pathway | NCI Pathway Interaction Database: CRYBA4 | |
KEGG: CRYBA4 | ||
REACTOME: CRYBA4 | ||
Pathway Commons: CRYBA4 | ||
Context | iHOP: CRYBA4 | |
ligand binding site mutation search in PubMed: CRYBA4 | ||
UCL Cancer Institute: CRYBA4 | ||
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) | TestisEye | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | TGCTUVM | |
Reference showing the relevant tissue of CRYBA4 | ||
Description by TissGene annotations | TissgsKTS |
* 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 CRYBA4 |
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 |
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TissGene-miRNA for CRYBA4 |
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 CRYBA4 |
TissGeneSNV for CRYBA4 |
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.A31V | BLCA | 1 |
p.H182Y | BLCA | 1 |
p.E32Q | BLCA | 1 |
p.E42K | SKCM | 1 |
p.D124N | SKCM | 1 |
p.F110I | HNSC | 1 |
p.C151Y | UCEC | 1 |
p.S181F | SKCM | 1 |
p.H182D | LUAD | 1 |
p.G24D | SKCM | 1 |
p.E111D | OV | 1 |
p.Q23* | SKCM | 1 |
p.G10E | SKCM | 1 |
p.S190N | UCEC | 1 |
p.G72C | LGG | 1 |
p.T30M | COAD | 1 |
p.E113D | UCEC | 1 |
p.Q63H | LIHC | 1 |
p.S190I | SARC | 1 |
p.E165D | LIHC | 1 |
p.G147V | LUSC | 1 |
p.W149* | SKCM | 1 |
p.E19K | CESC | 1 |
p.D78N | SKCM | 1 |
p.F110V | STAD | 1 |
p.G82V | LUAD | 1 |
p.V150G | UCEC | 1 |
p.R95Q | BLCA | 1 |
p.W149X | SKCM | 1 |
p.P87H | PRAD | 1 |
p.P155S | LUSC | 1 |
p.G120R | SKCM | 1 |
p.E70K | SKCM | 1 |
p.Q187L | LUAD | 1 |
p.E19K | HNSC | 1 |
p.E138K | SKCM | 1 |
p.G82S | BLCA | 1 |
p.W17* | SKCM | 1 |
p.M132I | HNSC | 1 |
p.W12* | SKCM | 1 |
p.D124N | STAD | 1 |
p.C99F | HNSC | 1 |
p.Q161* | HNSC | 1 |
p.D167N | SKCM | 1 |
p.R25L | LUAD | 1 |
p.A98S | LUAD | 1 |
p.R177W | STAD | 1 |
p.T2A | GBM | 1 |
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TissGeneCNV for CRYBA4 |
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 CRYBA4 |
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 |
TCGAfusionPortal | PRADA | BRCA | TCGA-D8-A1XL-01A | USP32-CRYBA4 | CDS-5UTR | Chr17:58372044 | Chr22:27018549 |
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TissGeneNet for CRYBA4 |
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 CRYBA4 |
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 CRYBA4 |
TissGeneDrug for CRYBA4 |
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 CRYBA4 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0086543 | Cataract | 4 | BeFree,RGD |
umls:C0026010 | Microphthalmos | 3 | BeFree,GAD |
umls:C0009363 | Congenital ocular coloboma (disorder) | 1 | GAD |
umls:C0271183 | Severe myopia | 1 | BeFree |
umls:C1858679 | CATARACT, AUTOSOMAL DOMINANT | 1 | BeFree |
umls:C3808012 | CATARACT 23 | 1 | CTD_human,UNIPROT |
umls:C1861821 | CATARACT, MARNER TYPE | 0 | ORPHANET |
umls:C1861829 | Cataract microcornea syndrome | 0 | ORPHANET |
umls:C1864879 | Cataract, Lamellar 2 | 0 | CLINVAR |