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| TissGeneSummary for SLC28A1 |
 Gene summary |
| Basic gene information | Gene symbol | SLC28A1 |
| Gene name | solute carrier family 28 (concentrative nucleoside transporter), member 1 | |
| Synonyms | CNT1|HCNT1 | |
| Cytomap | UCSC genome browser: 15q25.3 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001287761.1, NM_001287762.1,NM_004213.4,NM_201651.2, | |
| Description | Na(+)/nucleoside cotransporter 1concentrative nucleoside transporter 1sodium-coupled nucleoside transporter 1sodium/nucleoside cotransporter 1solute carrier family 28 (sodium-coupled nucleoside transporter), member 1solute carrier family 28 member 1 | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 606207 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000156222 | ||
| HPRD : 07068 | ||
| Vega : OTTHUMG00000148668 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_SLC28A1 | |
| BioGPS: 9154 | ||
| Pathway | NCI Pathway Interaction Database: SLC28A1 | |
| KEGG: SLC28A1 | ||
| REACTOME: SLC28A1 | ||
| Pathway Commons: SLC28A1 | ||
| Context | iHOP: SLC28A1 | |
| ligand binding site mutation search in PubMed: SLC28A1 | ||
| UCL Cancer Institute: SLC28A1 | ||
| 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) | KidneyLiverStomach | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | KIRC,KIRP,KICHLIHCSTAD | |
| Reference showing the relevant tissue of SLC28A1 | ||
| 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 SLC28A1 |
| 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 | 6.105321299 | 8.123647299 | -2.018326 | 1.42E-06 | 7.39E-06 |
| HNSC | -2.10196498 | -0.680030096 | -1.421934884 | 8.22E-06 | 4.78E-05 |
| KIRC | 8.084530466 | 5.453117966 | 2.6314125 | 4.70E-11 | 1.73E-10 |
| KICH | -1.167076701 | 4.873347299 | -6.040424 | 8.95E-15 | 1.70E-13 |
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| TissGene-miRNA for SLC28A1 |
| 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 SLC28A1 |
| TissGeneSNV for SLC28A1 |
| 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.S359F | SKCM | 2 |
| p.D406Y | UCEC | 1 |
| p.S203T | LUAD | 1 |
| p.S278F | SKCM | 1 |
| p.T116A | UCEC | 1 |
| p.L489M | LGG | 1 |
| p.A378P | LUSC | 1 |
| p.S527F | SKCM | 1 |
| p.P387L | LUSC | 1 |
| p.N3K | READ | 1 |
| p.E53K | SARC | 1 |
| p.E497K | SKCM | 1 |
| p.V189I | COAD | 1 |
| p.P16H | UCEC | 1 |
| p.W525* | SKCM | 1 |
| p.R620C | STAD | 1 |
| p.R640Q | UCEC | 1 |
| p.E614Q | HNSC | 1 |
| p.S566F | LUAD | 1 |
| p.F228L | COAD | 1 |
| p.E517K | SKCM | 1 |
| p.F228I | UCEC | 1 |
| p.E633D | UCEC | 1 |
| p.S49R | READ | 1 |
| p.L257P | KIRP | 1 |
| p.A542T | ESCA | 1 |
| p.E10K | SKCM | 1 |
| p.L140V | CHOL | 1 |
| p.G86C | SKCM | 1 |
| p.V626I | STAD | 1 |
| p.R511H | LUSC | 1 |
| p.S203F | SKCM | 1 |
| p.E391K | CESC | 1 |
| p.R83* | UCEC | 1 |
| p.P376H | PRAD | 1 |
| p.R126C | ACC | 1 |
| p.A478V | GBM | 1 |
| p.E321K | LGG | 1 |
| p.S371F | SKCM | 1 |
| p.G457R | SKCM | 1 |
| p.L14V | BRCA | 1 |
| p.R83X | READ | 1 |
| p.L436M | UCEC | 1 |
| p.D363N | SKCM | 1 |
| p.F273L | UCEC | 1 |
| p.Q170R | KIRP | 1 |
| p.V453M | GBM | 1 |
| p.E236K | SKCM | 1 |
| p.A347V | SKCM | 1 |
| p.R620C | HNSC | 1 |
| p.S249F | CESC | 1 |
| p.A18V | ESCA | 1 |
| p.F630L | KIRC | 1 |
| p.R147C | COAD | 1 |
| p.I270M | LGG | 1 |
| p.T535M | ESCA | 1 |
| p.S392Y | BLCA | 1 |
| p.Q143* | LUSC | 1 |
| p.H145Y | CESC | 1 |
| p.A312D | OV | 1 |
| p.A515V | PAAD | 1 |
| p.A596T | OV | 1 |
| p.Y591C | STAD | 1 |
| p.R511C | LUAD | 1 |
| p.S371T | KIRP | 1 |
| p.A542S | LUSC | 1 |
| p.G520S | SKCM | 1 |
| p.G210V | LUAD | 1 |
| p.Q265E | BLCA | 1 |
| p.A26P | COAD | 1 |
| p.I549L | UCEC | 1 |
| p.A380V | GBM | 1 |
| p.E531K | SKCM | 1 |
| p.P387S | LUSC | 1 |
| p.L179R | PAAD | 1 |
| p.G595V | LUSC | 1 |
| p.P470S | UCEC | 1 |
| p.G588_splice | LUSC | 1 |
| p.P169S | SKCM | 1 |
| p.V485I | THCA | 1 |
| p.V258A | STAD | 1 |
| p.L280I | UCEC | 1 |
| p.V598A | UCEC | 1 |
| p.G595E | LUAD | 1 |
| p.L573F | COAD | 1 |
| p.Q287H | LUAD | 1 |
| p.G514E | SKCM | 1 |
| p.L94F | SKCM | 1 |
| p.R147C | BRCA | 1 |
| p.M24I | HNSC | 1 |
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| TissGeneCNV for SLC28A1 |
| 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 SLC28A1 |
| 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 | U62966 | RNF10-SLC28A1 | chr12:120995485 | chr15:85427909 | |
| Chimerdb3.0 | FusionScan | KIRC | TCGA-CW-5589-01A | SLC28A1-UBE2D2 | 5'UTR-5'UTR | chr15:85427982 | chr5:138979956 |
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| TissGeneNet for SLC28A1 |
| 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 SLC28A1 |
| 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 SLC28A1 |
| TissGeneDrug for SLC28A1 |
| 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 SLC28A1 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0030297 | Pancreatic Neoplasm | 3 | BeFree,GAD |
| umls:C0346647 | Malignant neoplasm of pancreas | 3 | BeFree,GAD |
| umls:C0001418 | Adenocarcinoma | 2 | LHGDN |
| umls:C0006142 | Malignant neoplasm of breast | 2 | BeFree |
| umls:C0007131 | Non-Small Cell Lung Carcinoma | 2 | BeFree |
| umls:C0023434 | Chronic Lymphocytic Leukemia | 2 | GAD,LHGDN |
| umls:C0235974 | Pancreatic carcinoma | 2 | BeFree |
| umls:C0242379 | Malignant neoplasm of lung | 2 | GAD |
| umls:C0281361 | Adenocarcinoma of pancreas | 2 | BeFree |
| umls:C0678222 | Breast Carcinoma | 2 | BeFree |
| umls:C1458155 | Mammary Neoplasms | 2 | BeFree,CTD_human |
| umls:C0002395 | Alzheimer's Disease | 1 | GAD |
| umls:C0015672 | Fatigue | 1 | GAD |
| umls:C0019693 | HIV Infections | 1 | BeFree |
| umls:C0021603 | Sleep Initiation and Maintenance Disorders | 1 | GAD |
| umls:C0023467 | Leukemia, Myelocytic, Acute | 1 | GAD |
| umls:C0023530 | Leukopenia | 1 | BeFree |
| umls:C0023787 | Lipodystrophy | 1 | LHGDN |
| umls:C0024121 | Lung Neoplasms | 1 | LHGDN |
| umls:C0027627 | Neoplasm Metastasis | 1 | BeFree |
| umls:C0027947 | Neutropenia | 1 | BeFree |
| umls:C0031117 | Peripheral Neuropathy | 1 | CTD_human |
| umls:C0851578 | Sleep Disorders | 1 | GAD |
| umls:C0855095 | Small Lymphocytic Lymphoma | 1 | BeFree |
| umls:C2239176 | Liver carcinoma | 1 | BeFree |
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