TissGeneSummary for NPTX1 |
Gene summary |
Basic gene information | Gene symbol | NPTX1 |
Gene name | neuronal pentraxin I | |
Synonyms | NP1 | |
Cytomap | UCSC genome browser: 17q25.3 | |
Type of gene | protein-coding | |
RefGenes | NM_002522.3, | |
Description | NP-Ineuronal pentraxin-1 | |
Modification date | 20141207 | |
dbXrefs | MIM : 602367 | |
HGNC : HGNC | ||
Ensembl : ENSG00000171246 | ||
HPRD : 03843 | ||
Vega : OTTHUMG00000177607 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_NPTX1 | |
BioGPS: 4884 | ||
Pathway | NCI Pathway Interaction Database: NPTX1 | |
KEGG: NPTX1 | ||
REACTOME: NPTX1 | ||
Pathway Commons: NPTX1 | ||
Context | iHOP: NPTX1 | |
ligand binding site mutation search in PubMed: NPTX1 | ||
UCL Cancer Institute: NPTX1 | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | HPA,TiGER | |
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx) | Brain | |
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | GBM,LGG | |
Reference showing the relevant tissue of NPTX1 | ||
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 NPTX1 |
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 |
STAD | -1.116297866 | 2.635020884 | -3.75131875 | 4.28E-06 | 5.56E-05 |
KIRP | -2.704385366 | -0.438479116 | -2.26590625 | 7.48E-06 | 3.21E-05 |
COAD | -1.069570943 | 3.142532903 | -4.212103846 | 3.80E-08 | 2.94E-07 |
KIRC | -2.421603421 | -0.965863144 | -1.455740278 | 8.73E-09 | 2.67E-08 |
BRCA | -1.289042603 | 0.019089854 | -1.308132456 | 5.80E-08 | 1.78E-07 |
ESCA | -2.61709332 | 0.720070316 | -3.337163636 | 0.00571 | 0.042902162 |
BLCA | -0.798163655 | 1.42317845 | -2.221342105 | 0.000162 | 0.001637673 |
KICH | -2.490583866 | -0.935063866 | -1.55552 | 0.000624 | 0.001400505 |
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TissGene-miRNA for NPTX1 |
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 |
LUAD | hsa-miR-301a-3p | MIMAT0000688 | 0.046 | -0.26 | 60 |
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TissGeneMut for NPTX1 |
TissGeneSNV for NPTX1 |
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.G100D | ACC | 5 |
p.G100D | COAD | 2 |
p.G100D | READ | 2 |
p.A263T | GBM | 2 |
p.R235Q | STAD | 1 |
p.V181G | KICH | 1 |
p.G351S | SKCM | 1 |
p.T206N | PRAD | 1 |
p.K163N | UCEC | 1 |
p.E339K | SKCM | 1 |
p.H378N | THYM | 1 |
p.Q357K | KIRC | 1 |
p.G364C | READ | 1 |
p.A410T | LGG | 1 |
p.G112S | SKCM | 1 |
p.P388L | SKCM | 1 |
p.A263T | LGG | 1 |
p.M250K | BRCA | 1 |
p.G389W | LUAD | 1 |
p.R384H | COAD | 1 |
p.S113L | STAD | 1 |
p.D171N | CESC | 1 |
p.Q135H | MESO | 1 |
p.G324E | SKCM | 1 |
p.A252T | BLCA | 1 |
p.G324R | ESCA | 1 |
p.G324W | LIHC | 1 |
p.L162F | UCEC | 1 |
p.F25I | ACC | 1 |
p.Q330X | SKCM | 1 |
p.D331N | SKCM | 1 |
p.Q330* | SKCM | 1 |
p.R429L | LUAD | 1 |
p.F253S | SARC | 1 |
p.G335C | STAD | 1 |
p.S261F | SKCM | 1 |
p.G225V | BLCA | 1 |
p.E293K | SKCM | 1 |
p.G225E | BLCA | 1 |
p.E281Q | HNSC | 1 |
p.T195I | PAAD | 1 |
p.G389E | SARC | 1 |
p.D171H | HNSC | 1 |
p.D164H | LUSC | 1 |
p.G419V | KIRP | 1 |
p.V352M | LUAD | 1 |
p.L376R | LUAD | 1 |
p.Q167* | CESC | 1 |
p.Q23L | LIHC | 1 |
p.G418R | LGG | 1 |
p.H345Y | CESC | 1 |
p.A420V | SKCM | 1 |
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TissGeneCNV for NPTX1 |
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 NPTX1 |
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 | DB469323 | NPTX1-NPTX1 | chr17:78442410 | chr17:78443253 |
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TissGeneNet for NPTX1 |
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 NPTX1 |
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 NPTX1 |
TissGeneDrug for NPTX1 |
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 NPTX1 |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0007847 | Malignant tumor of cervix | 1 | BeFree |
umls:C0149925 | Small cell carcinoma of lung | 1 | BeFree |
umls:C0242379 | Malignant neoplasm of lung | 1 | BeFree |
umls:C0302592 | Cervix carcinoma | 1 | BeFree |
umls:C0684249 | Carcinoma of lung | 1 | BeFree |
umls:C1527249 | Colorectal Cancer | 1 | BeFree |
umls:C1709246 | Non-Neoplastic Disorder | 1 | BeFree |