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| TissGeneSummary for SLC10A1 |
 Gene summary |
| Basic gene information | Gene symbol | SLC10A1 |
| Gene name | solute carrier family 10 (sodium/bile acid cotransporter), member 1 | |
| Synonyms | NTCP | |
| Cytomap | UCSC genome browser: 14q24.1 | |
| Type of gene | protein-coding | |
| RefGenes | NM_003049.3, | |
| Description | Na(+)/bile acid cotransporterNa(+)/taurocholate transport proteinNa/taurocholate cotransporting polypeptidecell growth-inhibiting gene 29 proteingrowth-inhibiting protein 29sodium/bile acid cotransportersodium/taurocholate cotransportersodium/tauro | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 182396 | |
| HGNC : HGNC | ||
| HPRD : 01672 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_SLC10A1 | |
| BioGPS: 6554 | ||
| Pathway | NCI Pathway Interaction Database: SLC10A1 | |
| KEGG: SLC10A1 | ||
| REACTOME: SLC10A1 | ||
| Pathway Commons: SLC10A1 | ||
| Context | iHOP: SLC10A1 | |
| ligand binding site mutation search in PubMed: SLC10A1 | ||
| UCL Cancer Institute: SLC10A1 | ||
| Assigned class in TissGDB* | A | |
| Included tissue-specific gene expression resources | ||
| Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Liver | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | LIHC | |
| Reference showing the relevant tissue of SLC10A1 | Molecular control of systemic bile acid homeostasis by the liver glucocorticoid receptor. Rose AJ, Berriel Díaz M, Reimann A, Klement J, Walcher T, Krones-Herzig A, Strobel O, Werner J, Peters A, Kleyman A, Tuckermann JP, Vegiopoulos A, Herzig S. Cell Metab. 2011 Jul 6;14(1):123-30. doi: 10.1016/j.cmet.2011.04.010 (pmid:21723510) go to article | |
| Description by TissGene annotations | Significant down-regulated DEG TissgsKTS CNV lost TissGeneKTS | |
| * 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 SLC10A1 |
| 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 |
| LIHC | 8.261236012 | 11.68273201 | -3.421496 | 1.54E-08 | 1.31E-07 |
| COAD | -1.18943845 | 0.056442319 | -1.245880769 | 1.92E-07 | 1.27E-06 |
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| TissGene-miRNA for SLC10A1 |
| 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 SLC10A1 |
| TissGeneSNV for SLC10A1 |
| 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.S162P | LIHC | 2 |
| p.M112I | STAD | 1 |
| p.R185C | PAAD | 1 |
| p.C266Y | BRCA | 1 |
| p.A130V | STAD | 1 |
| p.Q261P | OV | 1 |
| p.V82I | SKCM | 1 |
| p.A273G | LUAD | 1 |
| p.N271T | OV | 1 |
| p.P169H | PAAD | 1 |
| p.S178Y | BRCA | 1 |
| p.M192I | SKCM | 1 |
| p.L298I | THYM | 1 |
| p.E277K | LUSC | 1 |
| p.M122I | HNSC | 1 |
| p.C266G | LUAD | 1 |
| p.E2D | COAD | 1 |
| p.P220Q | LUSC | 1 |
| p.K177Q | OV | 1 |
| p.V29I | UCEC | 1 |
| p.L150Q | LUAD | 1 |
| p.E308* | LUSC | 1 |
| p.L118F | HNSC | 1 |
| p.P275S | SKCM | 1 |
| p.L163M | UCEC | 1 |
| p.V202D | UCEC | 1 |
| p.C129R | BLCA | 1 |
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| TissGeneCNV for SLC10A1 |
| 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 SLC10A1 |
| 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 | OV | TCGA-61-1738-01A | NCOA6-SLC10A1 | 5UTR-CDS | Chr20:33413275 | Chr14:70253024 |
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| TissGeneNet for SLC10A1 |
| 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) |
| BRCA (tumor) | BRCA (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| COAD (tumor) | COAD (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| HNSC (tumor) | HNSC (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| KICH (tumor) | KICH (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| KIRC (tumor) | KIRC (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| KIRP (tumor) | KIRP (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| LIHC (tumor) | LIHC (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| LUAD (tumor) | LUAD (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| LUSC (tumor) | LUSC (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| PRAD (tumor) | PRAD (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| STAD (tumor) | STAD (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| THCA (tumor) | THCA (normal) |
| SLC10A1, HNF4A, FOXA2, C11orf74 (tumor) | SLC10A1, HNF4A, FOXA2, C11orf74 (normal) |
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| TissGeneProg for SLC10A1 |
| 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 SLC10A1 |
| TissGeneDrug for SLC10A1 |
| 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 SLC10A1 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0019163 | Hepatitis B | 9 | BeFree,CTD_human |
| umls:C0008312 | Primary biliary cirrhosis | 3 | BeFree |
| umls:C2239176 | Liver carcinoma | 3 | BeFree |
| umls:C0008370 | Cholestasis | 2 | BeFree |
| umls:C0011226 | Hepatitis D Infection | 2 | BeFree |
| umls:C0239946 | Fibrosis, Liver | 2 | BeFree |
| umls:C0524909 | Hepatitis B, Chronic | 2 | BeFree |
| umls:C0019187 | Hepatitis, Alcoholic | 1 | BeFree |
| umls:C0020473 | Hyperlipidemia | 1 | GAD |
| umls:C0020503 | Hyperparathyroidism, Secondary | 1 | GAD |
| umls:C0023890 | Liver Cirrhosis | 1 | GAD |
| umls:C0023893 | Liver Cirrhosis, Experimental | 1 | CTD_human |
| umls:C0023903 | Liver neoplasms | 1 | BeFree |
| umls:C0041296 | Tuberculosis | 1 | BeFree |
| umls:C0042769 | Virus Diseases | 1 | BeFree |
| umls:C0238052 | Xanthomatosis, Cerebrotendinous | 1 | BeFree |
| umls:C0268312 | Progressive intrahepatic cholestasis (disorder) | 1 | BeFree |
| umls:C0524910 | Hepatitis C, Chronic | 1 | BeFree |
| umls:C0600452 | Hepatopulmonary Syndrome | 1 | GAD |
| umls:C1709246 | Non-Neoplastic Disorder | 1 | BeFree |
| umls:C3850141 | Acute-On-Chronic Liver Failure | 1 | BeFree |
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