TissGeneSummary for GABRA4 |
Gene summary |
Basic gene information | Gene symbol | GABRA4 |
Gene name | gamma-aminobutyric acid (GABA) A receptor, alpha 4 | |
Synonyms | - | |
Cytomap | UCSC genome browser: 4p12 | |
Type of gene | protein-coding | |
RefGenes | NM_000809.3, NM_001204266.1,NM_001204267.1, | |
Description | GABA(A) receptor, alpha 4gamma-aminobutyric acid A receptor alpha 4gamma-aminobutyric acid receptor subunit alpha-4 | |
Modification date | 20141207 | |
dbXrefs | MIM : 137141 | |
HGNC : HGNC | ||
Ensembl : ENSG00000109158 | ||
HPRD : 08839 | ||
Vega : OTTHUMG00000099431 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_GABRA4 | |
BioGPS: 2557 | ||
Pathway | NCI Pathway Interaction Database: GABRA4 | |
KEGG: GABRA4 | ||
REACTOME: GABRA4 | ||
Pathway Commons: GABRA4 | ||
Context | iHOP: GABRA4 | |
ligand binding site mutation search in PubMed: GABRA4 | ||
UCL Cancer Institute: GABRA4 | ||
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 GABRA4 | ||
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 GABRA4 |
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 |
BRCA | -1.862351935 | 0.041171749 | -1.903523684 | 6.24E-24 | 5.76E-23 |
KICH | -1.878160111 | -0.020020111 | -1.85814 | 1.46E-05 | 4.47E-05 |
LUAD | -1.871649697 | -0.826472111 | -1.045177586 | 1.01E-07 | 3.94E-07 |
KIRP | -2.060047111 | 0.840406014 | -2.900453125 | 1.23E-11 | 1.69E-10 |
HNSC | -1.362065134 | 0.790130215 | -2.152195349 | 1.41E-08 | 1.66E-07 |
KIRC | -1.490374889 | 0.896016778 | -2.386391667 | 2.32E-17 | 1.42E-16 |
COAD | -0.314756726 | 0.718216351 | -1.032973077 | 0.00137 | 0.003818919 |
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TissGene-miRNA for GABRA4 |
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 GABRA4 |
TissGeneSNV for GABRA4 |
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.R460Q | UCEC | 3 |
p.F322L | PCPG | 2 |
p.E361K | SKCM | 2 |
p.S277L | SKCM | 2 |
p.S500X | LIHC | 2 |
p.L221F | LUAD | 1 |
p.T159I | UCEC | 1 |
p.P452L | PAAD | 1 |
p.P215T | LUAD | 1 |
p.Q368X | LIHC | 1 |
p.S455F | BLCA | 1 |
p.N391H | READ | 1 |
p.T125M | PAAD | 1 |
p.F190L | LUAD | 1 |
p.S500* | LIHC | 1 |
p.G514D | LUAD | 1 |
p.R476H | UCEC | 1 |
p.L310F | LUAD | 1 |
p.A364S | LUAD | 1 |
p.A382D | LUAD | 1 |
p.M386V | BLCA | 1 |
p.E32K | SKCM | 1 |
p.Q347E | BLCA | 1 |
p.P366A | BLCA | 1 |
p.S511F | BLCA | 1 |
p.R50H | COAD | 1 |
p.P215L | UCEC | 1 |
p.A448V | LUAD | 1 |
p.Y537C | CHOL | 1 |
p.L334F | SKCM | 1 |
p.Q229X | COAD | 1 |
p.M246R | LUAD | 1 |
p.K150T | STAD | 1 |
p.P215L | PAAD | 1 |
p.E19* | UCEC | 1 |
p.R153I | SARC | 1 |
p.W538G | STAD | 1 |
p.K371T | STAD | 1 |
p.R353K | BLCA | 1 |
p.T380I | PAAD | 1 |
p.M122I | SKCM | 1 |
p.V74L | HNSC | 1 |
p.K422E | LUAD | 1 |
p.Q229K | PRAD | 1 |
p.L26M | COAD | 1 |
p.M122I | BLCA | 1 |
p.A439V | UCEC | 1 |
p.Q368* | LIHC | 1 |
p.G471E | SKCM | 1 |
p.S420F | SKCM | 1 |
p.D57N | READ | 1 |
p.Q368H | UCEC | 1 |
p.V539A | SKCM | 1 |
p.E217K | SKCM | 1 |
p.G497V | LUAD | 1 |
p.I524V | BLCA | 1 |
p.F98L | UCEC | 1 |
p.S232P | LIHC | 1 |
p.R438H | LUAD | 1 |
p.N391S | SKCM | 1 |
p.S469L | KIRC | 1 |
p.R426W | SKCM | 1 |
p.K5N | STAD | 1 |
p.Q360E | LUAD | 1 |
p.A9V | ESCA | 1 |
p.P130L | BLCA | 1 |
p.G480R | LUSC | 1 |
p.R460Q | COAD | 1 |
p.V528A | PRAD | 1 |
p.R254L | LUSC | 1 |
p.S411I | UCEC | 1 |
p.Q368K | ESCA | 1 |
p.N345D | LUAD | 1 |
p.R449S | LUAD | 1 |
p.V313M | SKCM | 1 |
p.R460* | SKCM | 1 |
p.G497W | LUAD | 1 |
p.V478M | GBM | 1 |
p.A522S | ESCA | 1 |
p.D57N | THYM | 1 |
p.D131Y | LUAD | 1 |
p.A339T | COAD | 1 |
p.R307* | LGG | 1 |
p.T301R | LUSC | 1 |
p.K5N | UCS | 1 |
p.D178N | GBM | 1 |
p.M181I | LGG | 1 |
p.K549I | LUSC | 1 |
p.S516R | KIRC | 1 |
p.E548V | LUAD | 1 |
p.R466Q | READ | 1 |
p.E115K | SKCM | 1 |
p.L483P | LUAD | 1 |
p.P215L | STAD | 1 |
p.R9I | UCS | 1 |
p.R22H | LGG | 1 |
p.S332L | GBM | 1 |
p.P509R | LUAD | 1 |
p.L273F | SKCM | 1 |
p.S481X | CHOL | 1 |
p.V290L | HNSC | 1 |
p.P173S | SKCM | 1 |
p.A430D | LUSC | 1 |
p.S233I | LUAD | 1 |
p.Y342S | BRCA | 1 |
p.P34T | LUAD | 1 |
p.R64C | TGCT | 1 |
p.E283* | CESC | 1 |
p.R466* | PAAD | 1 |
p.E217* | OV | 1 |
p.P435T | LUAD | 1 |
p.G494W | LUAD | 1 |
p.A375S | GBM | 1 |
p.P503A | UCS | 1 |
p.M200I | SKCM | 1 |
p.E46G | LGG | 1 |
p.R107G | SKCM | 1 |
p.F331L | ESCA | 1 |
p.S198G | KIRC | 1 |
p.S54C | OV | 1 |
p.R438H | STAD | 1 |
p.A19T | DLBC | 1 |
p.A170S | LUAD | 1 |
p.A375D | BLCA | 1 |
p.V490F | LUAD | 1 |
p.L310M | LUAD | 1 |
p.R476H | HNSC | 1 |
p.S411R | LUAD | 1 |
p.C172W | SKCM | 1 |
p.G494R | SKCM | 1 |
p.E90K | LUAD | 1 |
p.G462R | HNSC | 1 |
p.P173L | SKCM | 1 |
p.S469L | BLCA | 1 |
p.E209D | READ | 1 |
p.G531E | SKCM | 1 |
p.P465S | STAD | 1 |
p.M547I | BLCA | 1 |
p.D519Y | UCEC | 1 |
p.G512E | SKCM | 1 |
p.M269I | UCEC | 1 |
p.R353S | LIHC | 1 |
p.A27V | UCEC | 1 |
p.R254W | LAML | 1 |
p.A392V | UCEC | 1 |
p.N402K | LUAD | 1 |
p.R369G | STAD | 1 |
p.S513Y | LUAD | 1 |
p.V2I | UCEC | 1 |
p.K371N | UCEC | 1 |
p.S427F | LUAD | 1 |
p.T205K | LUAD | 1 |
p.R22H | STAD | 1 |
p.T289A | UCEC | 1 |
p.I114N | UCEC | 1 |
p.R50H | BLCA | 1 |
p.A351G | LUAD | 1 |
p.V141I | LUAD | 1 |
p.A333T | SKCM | 1 |
p.T240M | LUAD | 1 |
p.Q378K | LUAD | 1 |
p.D53H | OV | 1 |
p.R460Q | READ | 1 |
p.A318T | STAD | 1 |
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TissGeneCNV for GABRA4 |
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 GABRA4 |
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 GABRA4 |
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 GABRA4 |
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 GABRA4 |
TissGeneDrug for GABRA4 |
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 GABRA4 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0004352 | Autistic Disorder | 3 | BeFree,CTD_human,GAD |
umls:C0036572 | Seizures | 3 | BeFree |
umls:C0005586 | Bipolar Disorder | 2 | BeFree,GAD |
umls:C0028043 | Nicotine Dependence | 2 | BeFree |
umls:C0036341 | Schizophrenia | 2 | BeFree,GAD |
umls:C0038220 | Status Epilepticus | 2 | BeFree |
umls:C0040336 | Tobacco Use Disorder | 2 | GAD |
umls:C0004134 | Ataxia | 1 | CTD_human |
umls:C0011860 | Diabetes Mellitus, Non-Insulin-Dependent | 1 | GWASCAT |
umls:C0013386 | Dyskinesia, Drug-Induced | 1 | GAD |
umls:C0014544 | Epilepsy | 1 | BeFree |
umls:C0040517 | Gilles de la Tourette syndrome | 1 | BeFree |