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| TissGeneSummary for SLC6A13 |
 Gene summary |
| Basic gene information | Gene symbol | SLC6A13 |
| Gene name | solute carrier family 6 (neurotransmitter transporter), member 13 | |
| Synonyms | GAT-2|GAT2|GAT3 | |
| Cytomap | UCSC genome browser: 12p13.3 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001190997.2, NM_001243392.1,NM_016615.4, | |
| Description | GABA transport proteinGABA transporter 2sodium- and chloride-dependent GABA transporter 2solute carrier family 6 (neurotransmitter transporter, GABA), member 13 | |
| Modification date | 20141211 | |
| dbXrefs | MIM : 615097 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000010379 | ||
| HPRD : 10239 | ||
| Vega : OTTHUMG00000168053 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_SLC6A13 | |
| BioGPS: 6540 | ||
| Pathway | NCI Pathway Interaction Database: SLC6A13 | |
| KEGG: SLC6A13 | ||
| REACTOME: SLC6A13 | ||
| Pathway Commons: SLC6A13 | ||
| Context | iHOP: SLC6A13 | |
| ligand binding site mutation search in PubMed: SLC6A13 | ||
| UCL Cancer Institute: SLC6A13 | ||
| 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) | Kidney | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | KIRC,KIRP,KICH | |
| Reference showing the relevant tissue of SLC6A13 | ||
| 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 SLC6A13 |
| 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) |
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| 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) |
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| 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. |
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| 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) |
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| - 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 | -2.660399659 | 0.65094172 | -3.311341379 | 2.48E-36 | 9.27E-34 |
| LUSC | -2.332362945 | 0.754315486 | -3.086678431 | 2.05E-28 | 7.10E-27 |
| LIHC | 2.239675996 | 4.104741996 | -1.865066 | 3.98E-07 | 2.38E-06 |
| KICH | -1.314926004 | 5.413489996 | -6.728416 | 1.49E-19 | 1.01E-17 |
| KIRP | 5.275243121 | 6.570396246 | -1.295153125 | 0.0164 | 0.034108349 |
| KIRC | 7.051464996 | 5.990126107 | 1.061338889 | 0.000322 | 0.000641995 |
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| TissGene-miRNA for SLC6A13 |
| 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 SLC6A13 |
| TissGeneSNV for SLC6A13 |
| 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. |
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| 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) |
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| - nsSNVs sorted by frequency. |
| AAchange | Cancer type | # samples |
| p.G261E | SKCM | 3 |
| p.R251* | SKCM | 2 |
| p.P59S | SKCM | 2 |
| p.G169E | SKCM | 2 |
| p.P241S | SKCM | 2 |
| p.M280I | SKCM | 2 |
| p.S197F | SKCM | 2 |
| p.R159X | SKCM | 2 |
| p.S289F | SKCM | 2 |
| p.R411H | DLBC | 1 |
| p.T590N | LUAD | 1 |
| p.G202A | LUAD | 1 |
| p.R475H | UCEC | 1 |
| p.G431R | SKCM | 1 |
| p.P16S | PRAD | 1 |
| p.A238T | SKCM | 1 |
| p.P588L | SKCM | 1 |
| p.Q94P | SARC | 1 |
| p.V459L | HNSC | 1 |
| p.G95E | SKCM | 1 |
| p.Y303* | SKCM | 1 |
| p.A316T | UCEC | 1 |
| p.E177K | KIRP | 1 |
| p.F380V | CESC | 1 |
| p.E48K | SKCM | 1 |
| p.Y406F | LIHC | 1 |
| p.G67R | ESCA | 1 |
| p.L243F | SKCM | 1 |
| p.D147N | SKCM | 1 |
| p.P97A | PAAD | 1 |
| p.G337C | LUAD | 1 |
| p.F86I | BRCA | 1 |
| p.G82S | SKCM | 1 |
| p.G170S | LUAD | 1 |
| p.R272C | STAD | 1 |
| p.V367L | LUAD | 1 |
| p.L435F | LUAD | 1 |
| p.G174S | SKCM | 1 |
| p.A136T | BLCA | 1 |
| p.S171C | LUSC | 1 |
| p.L518M | ESCA | 1 |
| p.R71I | UCEC | 1 |
| p.E89X | SKCM | 1 |
| p.W224S | KIRP | 1 |
| p.D404N | HNSC | 1 |
| p.L116M | COAD | 1 |
| p.P496L | SKCM | 1 |
| p.S322G | KIRC | 1 |
| p.G439E | LUAD | 1 |
| p.S171F | SKCM | 1 |
| p.N321S | READ | 1 |
| p.I360T | STAD | 1 |
| p.A291T | STAD | 1 |
| p.P315S | SKCM | 1 |
| p.V55I | UCEC | 1 |
| p.S427C | SKCM | 1 |
| p.G7D | UCEC | 1 |
| p.V76I | SARC | 1 |
| p.L421F | SKCM | 1 |
| p.G67E | SKCM | 1 |
| p.G581R | UCEC | 1 |
| p.E481K | STAD | 1 |
| p.T271M | CESC | 1 |
| p.R565H | SKCM | 1 |
| p.L336P | KIRP | 1 |
| p.R323Q | COAD | 1 |
| p.R383H | COAD | 1 |
| p.P407S | SKCM | 1 |
| p.K24E | KIRP | 1 |
| p.P268R | LUAD | 1 |
| p.P176S | SKCM | 1 |
| p.A584S | LUSC | 1 |
| p.T254R | LUSC | 1 |
| p.M188I | SKCM | 1 |
| p.D2N | SKCM | 1 |
| p.A586T | PAAD | 1 |
| p.L329F | SKCM | 1 |
| p.R189Q | LUAD | 1 |
| p.R272C | SKCM | 1 |
| p.S335C | SKCM | 1 |
| p.A361T | PRAD | 1 |
| p.R189Q | BRCA | 1 |
| p.R190W | PRAD | 1 |
| p.H408N | LUAD | 1 |
| p.P268S | SKCM | 1 |
| p.G339R | SKCM | 1 |
| p.L432P | ESCA | 1 |
| p.E389K | COAD | 1 |
| p.F326C | LIHC | 1 |
| p.P149S | SKCM | 1 |
| p.L266M | STAD | 1 |
| p.R565H | HNSC | 1 |
| p.P256L | SKCM | 1 |
| p.K106R | LIHC | 1 |
| p.F70L | ESCA | 1 |
| p.P59L | SKCM | 1 |
| p.K23Q | UCEC | 1 |
| p.Y211X | SKCM | 1 |
| p.A401V | DLBC | 1 |
| p.S600T | LGG | 1 |
| p.G33E | ESCA | 1 |
| p.M39I | UCEC | 1 |
| p.R411C | STAD | 1 |
| p.H408Y | HNSC | 1 |
| p.M339I | LUSC | 1 |
| p.P90S | SKCM | 1 |
| p.W35* | UCEC | 1 |
| p.P490S | BLCA | 1 |
| p.P268Q | KIRC | 1 |
| p.G257E | SKCM | 1 |
| p.L87F | BRCA | 1 |
| p.E25K | SKCM | 1 |
| p.A190T | COAD | 1 |
| p.S3R | LUAD | 1 |
| p.L357P | LIHC | 1 |
| p.R364Q | GBM | 1 |
| p.K305R | KIRC | 1 |
| p.L402Q | LUAD | 1 |
| p.L204Q | KIRP | 1 |
| p.P407L | GBM | 1 |
| p.R190W | LGG | 1 |
| p.P182S | SKCM | 1 |
| p.R411H | STAD | 1 |
| p.A376V | UCEC | 1 |
| p.V127I | COAD | 1 |
| p.E89* | SKCM | 1 |
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| TissGeneCNV for SLC6A13 |
| 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 SLC6A13 |
| 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 SLC6A13 |
| 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 SLC6A13 |
| 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. |
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| 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. |
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| 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. |
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| 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 SLC6A13 |
| TissGeneDrug for SLC6A13 |
| 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 SLC6A13 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0004936 | Mental disorders | 1 | GAD |
| umls:C0014544 | Epilepsy | 1 | BeFree |
| umls:C0020503 | Hyperparathyroidism, Secondary | 1 | GAD |
| umls:C0022661 | Kidney Failure, Chronic | 1 | GAD |
| umls:C0036341 | Schizophrenia | 1 | BeFree |
| umls:C0040336 | Tobacco Use Disorder | 1 | GAD |
| umls:C1561535 | Creatinine finding | 1 | GAD |
| umls:C1561643 | Chronic Kidney Diseases | 1 | GWASCAT |
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