TissGeneSummary for NR4A1 |
Gene summary |
Basic gene information | Gene symbol | NR4A1 |
Gene name | nuclear receptor subfamily 4, group A, member 1 | |
Synonyms | GFRP1|HMR|N10|NAK-1|NGFIB|NP10|NUR77|TR3 | |
Cytomap | UCSC genome browser: 12q13 | |
Type of gene | protein-coding | |
RefGenes | NM_001202233.1, NM_001202234.1,NM_002135.4,NM_173157.2,NM_173158.1, | |
Description | ST-59TR3 orphan receptorearly response protein NAK1growth factor-inducible nuclear protein N10hormone receptornerve growth factor IB nuclear receptor variant 1nuclear hormone receptor NUR/77nuclear receptor subfamily 4 group A member 1orphan nucle | |
Modification date | 20141222 | |
dbXrefs | MIM : 139139 | |
HGNC : HGNC | ||
Ensembl : ENSG00000123358 | ||
HPRD : 00744 | ||
Vega : OTTHUMG00000150393 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_NR4A1 | |
BioGPS: 3164 | ||
Pathway | NCI Pathway Interaction Database: NR4A1 | |
KEGG: NR4A1 | ||
REACTOME: NR4A1 | ||
Pathway Commons: NR4A1 | ||
Context | iHOP: NR4A1 | |
ligand binding site mutation search in PubMed: NR4A1 | ||
UCL Cancer Institute: NR4A1 | ||
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) | OvarySoft tissue | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | OVSARC | |
Reference showing the relevant tissue of NR4A1 | ||
Description by TissGene annotations | Cancer gene 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 | GO:0002042 | cell migration involved in sprouting angiogenesis | 18059339 | GO:0045944 | positive regulation of transcription from RNA polymerase II promoter | 22427340 | GO:0002042 | cell migration involved in sprouting angiogenesis | 18059339 | GO:0045944 | positive regulation of transcription from RNA polymerase II promoter | 22427340 |
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TissGeneExp for NR4A1 |
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 |
KIRP | -1.440003015 | 2.45391886 | -3.893921875 | 4.02E-12 | 5.85E-11 |
LIHC | -1.43838164 | 0.74862836 | -2.18701 | 2.45E-12 | 4.42E-11 |
THCA | 0.608494495 | 2.273060597 | -1.664566102 | 9.20E-07 | 3.48E-06 |
LUAD | -0.120350537 | 2.135930498 | -2.256281034 | 3.04E-13 | 2.52E-12 |
LUSC | -0.687289719 | 2.399243615 | -3.086533333 | 2.89E-17 | 2.37E-16 |
BRCA | -1.038033114 | 1.153066009 | -2.191099123 | 2.79E-20 | 2.02E-19 |
KIRC | 0.084482749 | 1.576003582 | -1.491520833 | 4.91E-08 | 1.40E-07 |
BLCA | 0.090164254 | 3.940769518 | -3.850605263 | 6.67E-10 | 1.24E-07 |
HNSC | -0.70175178 | 0.591264499 | -1.293016279 | 0.00115 | 0.003810751 |
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TissGene-miRNA for NR4A1 |
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 NR4A1 |
TissGeneSNV for NR4A1 |
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.A247P | ESCA | 1 |
p.W482* | LUSC | 1 |
p.L562M | BRCA | 1 |
p.L616M | SARC | 1 |
p.R450H | GBM | 1 |
p.R569P | LUAD | 1 |
p.A288P | ESCA | 1 |
p.P377S | PAAD | 1 |
p.A59V | LIHC | 1 |
p.R31C | STAD | 1 |
p.P28L | LIHC | 1 |
p.P431S | PAAD | 1 |
p.L616M | LIHC | 1 |
p.D412N | SKCM | 1 |
p.S544* | HNSC | 1 |
p.A305S | LUSC | 1 |
p.S245F | SKCM | 1 |
p.A329V | COAD | 1 |
p.D408E | COAD | 1 |
p.A288E | ESCA | 1 |
p.G273V | LUAD | 1 |
p.S492F | SKCM | 1 |
p.S485N | GBM | 1 |
p.G172S | MESO | 1 |
p.V162G | PRAD | 1 |
p.F146C | STAD | 1 |
p.E499D | LUAD | 1 |
p.P167S | SKCM | 1 |
p.Q309K | THYM | 1 |
p.S191F | SKCM | 1 |
p.R370Q | BLCA | 1 |
p.F159C | STAD | 1 |
p.G611R | LIHC | 1 |
p.A359D | UCEC | 1 |
p.A92S | LUAD | 1 |
p.S546F | SKCM | 1 |
p.R316* | PAAD | 1 |
p.P411S | SKCM | 1 |
p.Q52H | LUAD | 1 |
p.S201R | STAD | 1 |
p.C475Y | BRCA | 1 |
p.L364R | SKCM | 1 |
p.G219V | LUAD | 1 |
p.P390S | PAAD | 1 |
p.R345W | PAAD | 1 |
p.R316Q | BLCA | 1 |
p.P411L | SKCM | 1 |
p.I486V | UCEC | 1 |
p.R18C | STAD | 1 |
p.G412V | COAD | 1 |
p.D247N | KICH | 1 |
p.P521L | STAD | 1 |
p.P312L | CESC | 1 |
p.G159S | UCEC | 1 |
p.A421V | UCEC | 1 |
p.E135X | THYM | 1 |
p.A100V | LIHC | 1 |
p.R399W | BLCA | 1 |
p.E389G | ACC | 1 |
p.R315W | COAD | 1 |
p.G274D | UCS | 1 |
p.L418R | SKCM | 1 |
p.S214R | STAD | 1 |
p.G315D | UCS | 1 |
p.G570R | LIHC | 1 |
p.V524G | LUSC | 1 |
p.S385F | UCEC | 1 |
p.V295E | LUSC | 1 |
p.L562M | UCEC | 1 |
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TissGeneCNV for NR4A1 |
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 NR4A1 |
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 | BF928744 | ANAPC16-NR4A1 | chr10:73822406 | chr12:52447594 | |
Chimerdb3.0 | ChiTaRs | NA | AW952990 | AKAP2-NR4A1 | chr9:112900113 | chr12:52449648 | |
Chimerdb3.0 | ChiTaRs | NA | BI909860 | HNRNPUL2-NR4A1 | chr11:62489612 | chr12:52444388 | |
Chimerdb3.0 | ChiTaRs | NA | BG928171 | PABPC1-NR4A1 | chr8:101734059 | chr12:52451247 | |
Chimerdb3.0 | ChiTaRs | NA | DB018378 | CLASP1-NR4A1 | chr2:122288584 | chr12:52445226 | |
Chimerdb3.0 | ChiTaRs | NA | AW614419 | SFPQ-NR4A1 | chr1:35658548 | chr12:52448107 | |
Chimerdb3.0 | ChiTaRs | NA | BF915953 | NR4A1-IFRD2 | chr12:52451160 | chr3:50326151 | |
Chimerdb3.0 | ChiTaRs | NA | BM998971 | METRN-NR4A1 | chr16:767480 | chr12:52452911 | |
Chimerdb3.0 | ChiTaRs | NA | CD517507 | TXNL4B-NR4A1 | chr16:72120192 | chr12:52446078 | |
Chimerdb3.0 | ChiTaRs | NA | AA557827 | NR4A1-NR4A1 | chr12:52453057 | chr12:52452701 | |
Chimerdb3.0 | ChiTaRs | NA | BI045347 | PDE9A-NR4A1 | chr21:44110439 | chr12:52446067 | |
Chimerdb3.0 | ChiTaRs | NA | AV705223 | NR4A1-NR4A1 | chr12:52450664 | chr12:52450284 | |
TCGAfusionPortal | PRADA | HNSC | TCGA-BA-6871-01A | NR4A1-IL20RB | In-frame | Chr12:52435713 | Chr3:136699308 |
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TissGeneNet for NR4A1 |
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 NR4A1 |
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 NR4A1 |
TissGeneDrug for NR4A1 |
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 NR4A1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0023467 | Leukemia, Myelocytic, Acute | 6 | BeFree,LHGDN |
umls:C0007102 | Malignant tumor of colon | 4 | BeFree |
umls:C0235974 | Pancreatic carcinoma | 4 | BeFree |
umls:C0346647 | Malignant neoplasm of pancreas | 4 | BeFree |
umls:C0598766 | Leukemogenesis | 4 | BeFree |
umls:C0699790 | Colon Carcinoma | 4 | BeFree |
umls:C2239176 | Liver carcinoma | 4 | BeFree |
umls:C0003850 | Arteriosclerosis | 3 | BeFree |
umls:C0004153 | Atherosclerosis | 3 | BeFree |
umls:C0009375 | Colonic Neoplasms | 3 | BeFree,LHGDN |
umls:C0023418 | leukemia | 3 | BeFree,LHGDN |
umls:C0023434 | Chronic Lymphocytic Leukemia | 3 | BeFree |
umls:C0025202 | melanoma | 3 | BeFree,LHGDN |
umls:C0038356 | Stomach Neoplasms | 3 | LHGDN |
umls:C0596263 | Carcinogenesis | 3 | BeFree |
umls:C0009402 | Colorectal Carcinoma | 2 | BeFree |
umls:C0021655 | Insulin Resistance | 2 | CTD_human,GAD |
umls:C0024299 | Lymphoma | 2 | BeFree,LHGDN |
umls:C0026769 | Multiple Sclerosis | 2 | BeFree |
umls:C0027627 | Neoplasm Metastasis | 2 | BeFree |
umls:C0030297 | Pancreatic Neoplasm | 2 | BeFree |
umls:C0376358 | Malignant neoplasm of prostate | 2 | BeFree |
umls:C0600139 | Prostate carcinoma | 2 | BeFree |
umls:C1332225 | Aggressive Non-Hodgkin Lymphoma | 2 | BeFree |
umls:C1458155 | Mammary Neoplasms | 2 | BeFree |
umls:C1527249 | Colorectal Cancer | 2 | BeFree |
umls:C2939461 | Myeloid neoplasm | 2 | BeFree |
umls:C0001486 | Adenovirus Infections | 1 | BeFree |
umls:C0003873 | Rheumatoid Arthritis | 1 | BeFree |
umls:C0005586 | Bipolar Disorder | 1 | GAD |
umls:C0006118 | Brain Neoplasms | 1 | BeFree |
umls:C0006142 | Malignant neoplasm of breast | 1 | BeFree |
umls:C0007134 | Renal Cell Carcinoma | 1 | BeFree |
umls:C0007137 | Squamous cell carcinoma | 1 | BeFree |
umls:C0011860 | Diabetes Mellitus, Non-Insulin-Dependent | 1 | BeFree,GAD |
umls:C0014175 | Endometriosis | 1 | CTD_human |
umls:C0015544 | Failure to Thrive | 1 | BeFree |
umls:C0019163 | Hepatitis B | 1 | BeFree,LHGDN |
umls:C0020443 | Hypercholesterolemia | 1 | BeFree |
umls:C0021053 | Immune System Diseases | 1 | BeFree |
umls:C0023267 | Fibroid Tumor | 1 | BeFree |
umls:C0024121 | Lung Neoplasms | 1 | LHGDN |
umls:C0024301 | Lymphoma, Follicular | 1 | BeFree |
umls:C0024623 | Malignant neoplasm of stomach | 1 | BeFree |
umls:C0025517 | Metabolic Diseases | 1 | BeFree |
umls:C0027404 | Narcolepsy | 1 | GAD |
umls:C0028754 | Obesity | 1 | BeFree |
umls:C0033578 | Prostatic Neoplasms | 1 | LHGDN |
umls:C0033805 | Pseudohypoaldosteronism | 1 | BeFree |
umls:C0036341 | Schizophrenia | 1 | GAD |
umls:C0042133 | Uterine Fibroids | 1 | BeFree |
umls:C0042373 | Vascular Diseases | 1 | BeFree |
umls:C0079731 | B-Cell Lymphomas | 1 | BeFree |
umls:C0079744 | Diffuse Large B-Cell Lymphoma | 1 | BeFree |
umls:C0079773 | Lymphoma, T-Cell, Cutaneous | 1 | BeFree |
umls:C0085110 | Severe Combined Immunodeficiency | 1 | BeFree |
umls:C0085669 | Acute leukemia | 1 | BeFree |
umls:C0149521 | Pancreatitis, Chronic | 1 | BeFree |
umls:C0151650 | Renal fibrosis | 1 | BeFree |
umls:C0151744 | Myocardial Ischemia | 1 | CTD_human |
umls:C0152115 | Lingual-Facial-Buccal Dyskinesia | 1 | BeFree,GAD |
umls:C0206682 | Follicular thyroid carcinoma | 1 | BeFree |
umls:C0242379 | Malignant neoplasm of lung | 1 | BeFree |
umls:C0279000 | Liver and Intrahepatic Biliary Tract Carcinoma | 1 | BeFree |
umls:C0281361 | Adenocarcinoma of pancreas | 1 | BeFree |
umls:C0333186 | Restenosis | 1 | BeFree |
umls:C0343457 | Borderline tuberculoid leprosy | 1 | BeFree |
umls:C0345904 | Malignant neoplasm of liver | 1 | BeFree |
umls:C0376545 | Hematologic Neoplasms | 1 | BeFree |
umls:C0549473 | Thyroid carcinoma | 1 | BeFree |
umls:C0678222 | Breast Carcinoma | 1 | BeFree |
umls:C0684249 | Carcinoma of lung | 1 | BeFree |
umls:C0686347 | Tardive Dyskinesia | 1 | GAD |
umls:C0686619 | Secondary malignant neoplasm of lymph node | 1 | BeFree |
umls:C0699791 | Stomach Carcinoma | 1 | BeFree |
umls:C1301355 | Myelodysplastic-Myeloproliferative Diseases | 1 | BeFree |
umls:C2004493 | Leukemia, B-Cell | 1 | BeFree |