TissGeneSummary for NR6A1 |
Gene summary |
Basic gene information | Gene symbol | NR6A1 |
Gene name | nuclear receptor subfamily 6, group A, member 1 | |
Synonyms | CT150|GCNF|GCNF1|NR61|RTR|hGCNF|hRTR | |
Cytomap | UCSC genome browser: 9q33.3 | |
Type of gene | protein-coding | |
RefGenes | NM_001278546.1, NM_001489.4,NM_033334.3,NM_033335.2, | |
Description | germ cell nuclear factor variant 1nuclear receptor subfamily 6 group A member 1retinoic acid receptor-related testis-associated receptorretinoid receptor-related testis-specific receptor | |
Modification date | 20141207 | |
dbXrefs | MIM : 602778 | |
HGNC : HGNC | ||
Ensembl : ENSG00000148200 | ||
HPRD : 04147 | ||
Vega : OTTHUMG00000020661 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_NR6A1 | |
BioGPS: 2649 | ||
Pathway | NCI Pathway Interaction Database: NR6A1 | |
KEGG: NR6A1 | ||
REACTOME: NR6A1 | ||
Pathway Commons: NR6A1 | ||
Context | iHOP: NR6A1 | |
ligand binding site mutation search in PubMed: NR6A1 | ||
UCL Cancer Institute: NR6A1 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | HPA,GTEx | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Testis | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | TGCT | |
Reference showing the relevant tissue of NR6A1 | ||
Description by TissGene annotations | Fused withTSGene |
* 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 NR6A1 |
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 |
KIRC | -2.248078817 | -0.851820484 | -1.396258333 | 1.46E-17 | 9.19E-17 |
KICH | -2.740067262 | -1.380739262 | -1.359328 | 2.64E-05 | 7.72E-05 |
ESCA | 0.238576738 | -1.339714171 | 1.578290909 | 0.00668 | 0.048067097 |
STAD | -0.095110762 | -1.494392012 | 1.39928125 | 0.000205 | 0.001414248 |
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TissGene-miRNA for NR6A1 |
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 NR6A1 |
TissGeneSNV for NR6A1 |
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.S337G | KIRC | 1 |
p.L333I | LGG | 1 |
p.H380Y | SKCM | 1 |
p.G73V | STAD | 1 |
p.E39K | STAD | 1 |
p.S250T | ESCA | 1 |
p.S76F | SKCM | 1 |
p.G82W | STAD | 1 |
p.S354F | SKCM | 1 |
p.R371W | STAD | 1 |
p.N101I | SARC | 1 |
p.I369V | UCEC | 1 |
p.E132X | PAAD | 1 |
p.Q298R | STAD | 1 |
p.R92L | KIRP | 1 |
p.G234R | LUAD | 1 |
p.S191* | SARC | 1 |
p.I62F | OV | 1 |
p.I369T | PRAD | 1 |
p.R66H | BRCA | 1 |
p.M392I | BLCA | 1 |
p.Q122H | BRCA | 1 |
p.L43P | STAD | 1 |
p.E293K | SKCM | 1 |
p.E132* | PAAD | 1 |
p.R417Q | UCEC | 1 |
p.R86Q | PRAD | 1 |
p.Y389C | COAD | 1 |
p.A166V | ESCA | 1 |
p.L271F | CESC | 1 |
p.T406P | HNSC | 1 |
p.R448* | CESC | 1 |
p.H377Q | THYM | 1 |
p.Y389C | SKCM | 1 |
p.S179C | LUAD | 1 |
p.E132* | UCEC | 1 |
p.L121F | SKCM | 1 |
p.E282* | OV | 1 |
p.G124E | SKCM | 1 |
p.E460* | BRCA | 1 |
p.R371W | THYM | 1 |
p.R58X | PAAD | 1 |
p.E387* | BLCA | 1 |
p.R58* | PAAD | 1 |
p.E154K | UCEC | 1 |
p.Q224* | LUAD | 1 |
p.X481W | LIHC | 1 |
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TissGeneCNV for NR6A1 |
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 NR6A1 |
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 | BF853631 | NR6A1-ATF3 | chr9:127441202 | chr1:212786881 | |
Chimerdb3.0 | ChiTaRs | NA | U64876 | CD74-NR6A1 | chr5:149792319 | chr9:127284839 | |
Chimerdb3.0 | ChiTaRs | NA | BE072523 | SEC23A-NR6A1 | chr14:39561435 | chr9:127366382 | |
Chimerdb3.0 | TopHat-Fusion | BRCA | TCGA-A8-A06Z-01A | PHF2-NR6A1 | Out-of-Frame | chr9:96398776 | chr9:127311217 |
TCGAfusionPortal | PRADA | SKCM | TCGA-ER-A19T-01A | NR6A1-GOLGA1 | Out-of-frame | Chr9:127533299 | Chr9:127644848 |
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TissGeneNet for NR6A1 |
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 NR6A1 |
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 NR6A1 |
TissGeneDrug for NR6A1 |
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 NR6A1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0006142 | Malignant neoplasm of breast | 1 | BeFree |
umls:C0007137 | Squamous cell carcinoma | 1 | BeFree |
umls:C0008497 | Choriocarcinoma | 1 | LHGDN |
umls:C0008924 | Cleft Lip | 1 | GAD |
umls:C0008925 | Cleft Palate | 1 | GAD |
umls:C0022602 | Actinic keratosis | 1 | BeFree |
umls:C0027627 | Neoplasm Metastasis | 1 | BeFree |
umls:C0036631 | Seminoma | 1 | BeFree |
umls:C0039538 | Teratoma | 1 | BeFree |
umls:C0040336 | Tobacco Use Disorder | 1 | GAD |
umls:C0206659 | Embryonal Carcinoma | 1 | BeFree |
umls:C0376358 | Malignant neoplasm of prostate | 1 | BeFree |
umls:C0432487 | Post-transplant lymphoproliferative disorder | 1 | BeFree |
umls:C0600139 | Prostate carcinoma | 1 | BeFree |
umls:C0678222 | Breast Carcinoma | 1 | BeFree |
umls:C1519346 | Skin Carcinogenesis | 1 | BeFree |