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| TissGeneSummary for PTX3 |
 Gene summary |
| Basic gene information | Gene symbol | PTX3 |
| Gene name | pentraxin 3, long | |
| Synonyms | TNFAIP5|TSG-14 | |
| Cytomap | UCSC genome browser: 3q25 | |
| Type of gene | protein-coding | |
| RefGenes | NM_002852.3, | |
| Description | TNF alpha-induced protein 5pentaxin-related gene, rapidly induced by IL-1 beta, tumor necrosis factor, alpha-induced protein 5pentaxin-related protein PTX3pentraxin-3pentraxin-related gene, rapidly induced by IL-1 betapentraxin-related protein PTX3t | |
| Modification date | 20141222 | |
| dbXrefs | MIM : 602492 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000163661 | ||
| HPRD : 03928 | ||
| Vega : OTTHUMG00000158750 | ||
| Protein | UniProt: go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_PTX3 | |
| BioGPS: 5806 | ||
| Pathway | NCI Pathway Interaction Database: PTX3 | |
| KEGG: PTX3 | ||
| REACTOME: PTX3 | ||
| Pathway Commons: PTX3 | ||
| Context | iHOP: PTX3 | |
| ligand binding site mutation search in PubMed: PTX3 | ||
| UCL Cancer Institute: PTX3 | ||
| 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) | KidneySkin | |
| Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA) | KIRC,KIRP,KICHSKCM | |
| Reference showing the relevant tissue of PTX3 | ||
| Description by TissGene annotations | Risk TissGene in RFS | |
| * 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:0044869 | negative regulation by host of viral exo-alpha-sialidase activity | 23544079 | GO:0044871 | negative regulation by host of viral glycoprotein metabolic process | 23544079 | GO:0045087 | innate immune response | 23544079 | GO:0046597 | negative regulation of viral entry into host cell | 23544079 | GO:1903016 | negative regulation of exo-alpha-sialidase activity | 23544079 | GO:1903019 | negative regulation of glycoprotein metabolic process | 23544079 | GO:0044869 | negative regulation by host of viral exo-alpha-sialidase activity | 23544079 | GO:0044871 | negative regulation by host of viral glycoprotein metabolic process | 23544079 | GO:0045087 | innate immune response | 23544079 | GO:0046597 | negative regulation of viral entry into host cell | 23544079 | GO:1903016 | negative regulation of exo-alpha-sialidase activity | 23544079 | GO:1903019 | negative regulation of glycoprotein metabolic process | 23544079 |
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| TissGeneExp for PTX3 |
| 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 |
| LUSC | 1.339076074 | 3.319250584 | -1.98017451 | 1.59E-07 | 4.35E-07 |
| KICH | 0.477763917 | 2.656835917 | -2.179072 | 1.02E-05 | 3.23E-05 |
| THCA | 0.303207646 | 1.856099172 | -1.552891525 | 7.30E-19 | 2.15E-17 |
| BRCA | 0.653562865 | 3.599938303 | -2.946375439 | 1.23E-29 | 1.61E-28 |
| STAD | -0.578634833 | 1.562624542 | -2.141259375 | 4.79E-08 | 1.52E-06 |
| COAD | -0.478666083 | 1.813833917 | -2.2925 | 6.72E-12 | 1.39E-10 |
| KIRC | 0.293928362 | 1.596865862 | -1.3029375 | 5.27E-07 | 1.38E-06 |
| KIRP | -0.985328583 | 0.958874542 | -1.944203125 | 2.31E-06 | 1.08E-05 |
| BLCA | 0.337331286 | 3.435510233 | -3.098178947 | 4.06E-05 | 0.000547239 |
| LUAD | 1.537783917 | 2.749151159 | -1.211367241 | 5.29E-05 | 0.000138454 |
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| TissGene-miRNA for PTX3 |
| 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 PTX3 |
| TissGeneSNV for PTX3 |
| 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.L240V | LUAD | 2 |
| p.D24Y | STAD | 1 |
| p.C317F | COAD | 1 |
| p.V368F | ACC | 1 |
| p.L204R | ESCA | 1 |
| p.E18K | STAD | 1 |
| p.S54L | BLCA | 1 |
| p.D324H | LUAD | 1 |
| p.H300Y | HNSC | 1 |
| p.M187I | LIHC | 1 |
| p.L343F | BLCA | 1 |
| p.E252Q | HNSC | 1 |
| p.N275S | BLCA | 1 |
| p.I363F | LUSC | 1 |
| p.E277K | BLCA | 1 |
| p.E347G | UCEC | 1 |
| p.E18K | CESC | 1 |
| p.W212C | HNSC | 1 |
| p.R188H | COAD | 1 |
| p.T216I | BRCA | 1 |
| p.R349K | BLCA | 1 |
| p.G287R | LUSC | 1 |
| p.A14T | UCEC | 1 |
| p.E235G | BLCA | 1 |
| p.Q309R | DLBC | 1 |
| p.R188C | UCEC | 1 |
| p.S282F | SKCM | 1 |
| p.P198A | HNSC | 1 |
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| TissGeneCNV for PTX3 |
| 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 PTX3 |
| 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 |
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| TissGeneNet for PTX3 |
| 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) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| COAD (tumor) | COAD (normal) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| HNSC (tumor) | HNSC (normal) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| KICH (tumor) | KICH (normal) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| KIRC (tumor) | KIRC (normal) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| KIRP (tumor) | KIRP (normal) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| LIHC (tumor) | LIHC (normal) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| LUAD (tumor) | LUAD (normal) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| LUSC (tumor) | LUSC (normal) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| PRAD (tumor) | PRAD (normal) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| STAD (tumor) | STAD (normal) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| THCA (tumor) | THCA (normal) |
| PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (tumor) | PTX3, FGF2, CFH, SELP, FCN2, C1QB, C1QC, MBL2, C1QA, FCN1, FCN3 (normal) |
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| TissGeneProg for PTX3 |
| 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 PTX3 |
| TissGeneDrug for PTX3 |
| 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 PTX3 |
| Disease information associated with TissGene (DisGeNet, 2016-06-01) |
| Disease ID | Disease name | # pubmeds | Source |
| umls:C0004153 | Atherosclerosis | 12 | BeFree,LHGDN |
| umls:C0003850 | Arteriosclerosis | 10 | BeFree |
| umls:C0007222 | Cardiovascular Diseases | 4 | BeFree |
| umls:C0155626 | Acute myocardial infarction | 4 | BeFree |
| umls:C0027051 | Myocardial Infarction | 3 | BeFree |
| umls:C0028754 | Obesity | 3 | BeFree |
| umls:C0856169 | Endothelial dysfunction | 3 | BeFree |
| umls:C0003873 | Rheumatoid Arthritis | 2 | BeFree |
| umls:C0004030 | Aspergillosis | 2 | BeFree |
| umls:C0004623 | Bacterial Infections | 2 | BeFree |
| umls:C0006142 | Malignant neoplasm of breast | 2 | BeFree |
| umls:C0017661 | IGA Glomerulonephritis | 2 | CTD_human,LHGDN |
| umls:C0026946 | Mycoses | 2 | BeFree |
| umls:C0036421 | Systemic Scleroderma | 2 | BeFree |
| umls:C0333186 | Restenosis | 2 | BeFree |
| umls:C0596263 | Carcinogenesis | 2 | BeFree |
| umls:C0678222 | Breast Carcinoma | 2 | BeFree |
| umls:C3714514 | Infection | 2 | LHGDN |
| umls:C0002965 | Angina, Unstable | 1 | BeFree,LHGDN |
| umls:C0003855 | Arteriovenous fistula | 1 | BeFree |
| umls:C0003860 | Arteritis | 1 | LHGDN |
| umls:C0003864 | Arthritis | 1 | BeFree |
| umls:C0004364 | Autoimmune Diseases | 1 | LHGDN |
| umls:C0007570 | Celiac Disease | 1 | BeFree |
| umls:C0009402 | Colorectal Carcinoma | 1 | BeFree |
| umls:C0010414 | Infection by Cryptococcus neoformans | 1 | BeFree |
| umls:C0010674 | Cystic Fibrosis | 1 | BeFree |
| umls:C0010692 | Cystitis | 1 | BeFree |
| umls:C0014038 | Encephalitis | 1 | LHGDN |
| umls:C0017638 | Glioma | 1 | BeFree |
| umls:C0018801 | Heart failure | 1 | BeFree |
| umls:C0018802 | Congestive heart failure | 1 | BeFree |
| umls:C0019829 | Hodgkin Disease | 1 | BeFree |
| umls:C0020179 | Huntington Disease | 1 | BeFree |
| umls:C0021368 | Inflammation | 1 | LHGDN |
| umls:C0022658 | Kidney Diseases | 1 | LHGDN |
| umls:C0022661 | Kidney Failure, Chronic | 1 | LHGDN |
| umls:C0023827 | liposarcoma | 1 | BeFree |
| umls:C0024116 | Lung Diseases, Fungal | 1 | LHGDN |
| umls:C0024117 | Chronic Obstructive Airway Disease | 1 | BeFree |
| umls:C0024623 | Malignant neoplasm of stomach | 1 | BeFree |
| umls:C0025202 | melanoma | 1 | BeFree |
| umls:C0026691 | Mucocutaneous Lymph Node Syndrome | 1 | BeFree |
| umls:C0032000 | Pituitary Adenoma | 1 | BeFree |
| umls:C0032002 | Pituitary Diseases | 1 | BeFree |
| umls:C0032463 | Polycythemia Vera | 1 | BeFree |
| umls:C0032914 | Pre-Eclampsia | 1 | LHGDN |
| umls:C0032962 | Pregnancy Complications | 1 | BeFree |
| umls:C0033860 | Psoriasis | 1 | LHGDN |
| umls:C0034069 | Pulmonary Fibrosis | 1 | CTD_human |
| umls:C0036220 | Kaposi Sarcoma | 1 | LHGDN |
| umls:C0036690 | Septicemia | 1 | BeFree |
| umls:C0037274 | Dermatologic disorders | 1 | CTD_human |
| umls:C0040028 | Thrombocythemia, Essential | 1 | BeFree |
| umls:C0041296 | Tuberculosis | 1 | GAD |
| umls:C0041327 | Tuberculosis, Pulmonary | 1 | BeFree,LHGDN |
| umls:C0041948 | Uremia | 1 | BeFree |
| umls:C0042029 | Urinary tract infection | 1 | BeFree |
| umls:C0042373 | Vascular Diseases | 1 | LHGDN |
| umls:C0042384 | Vasculitis | 1 | BeFree |
| umls:C0149931 | Migraine Disorders | 1 | BeFree |
| umls:C0152031 | Joint swelling | 1 | BeFree |
| umls:C0153690 | Secondary malignant neoplasm of bone | 1 | BeFree |
| umls:C0156149 | Gastrointestinal tract vascular insufficiency | 1 | BeFree |
| umls:C0220650 | Metastatic malignant neoplasm to brain | 1 | BeFree |
| umls:C0238013 | invasive aspergillosis | 1 | BeFree |
| umls:C0242172 | Pelvic Inflammatory Disease | 1 | BeFree |
| umls:C0243026 | Sepsis | 1 | BeFree |
| umls:C0276653 | Invasive Pulmonary Aspergillosis | 1 | BeFree |
| umls:C0278488 | Carcinoma breast stage IV | 1 | BeFree |
| umls:C0311375 | Arsenic Poisoning | 1 | CTD_human |
| umls:C0340293 | Anterior myocardial infarction | 1 | BeFree |
| umls:C0497406 | Overweight | 1 | BeFree |
| umls:C0520575 | Acute pyelonephritis | 1 | BeFree |
| umls:C0524620 | Metabolic Syndrome X | 1 | BeFree |
| umls:C0577698 | Exercise-induced angina | 1 | BeFree |
| umls:C0699791 | Stomach Carcinoma | 1 | BeFree |
| umls:C0741923 | cardiac event | 1 | BeFree |
| umls:C0850024 | Gluten sensitivity | 1 | BeFree |
| umls:C0876973 | Infectious disease of lung | 1 | BeFree |
| umls:C0948089 | Acute Coronary Syndrome | 1 | BeFree |
| umls:C1096184 | West Nile viral infection | 1 | BeFree |
| umls:C1290884 | Inflammatory disorder | 1 | BeFree |
| umls:C1458155 | Mammary Neoplasms | 1 | BeFree |
| umls:C1519670 | Tumor Angiogenesis | 1 | BeFree |
| umls:C1527249 | Colorectal Cancer | 1 | BeFree |
| umls:C1536220 | ST segment elevation myocardial infarction | 1 | BeFree |
| umls:C1561643 | Chronic Kidney Diseases | 1 | BeFree |
| umls:C1561921 | Non-ST elevation (NSTEMI) myocardial infarction | 1 | BeFree |
| umls:C1800706 | Idiopathic Pulmonary Fibrosis | 1 | BeFree |
| umls:C2004435 | Vascular insufficiency of intestine | 1 | BeFree |
| umls:C2711053 | Non-celiac gluten sensitivity | 1 | BeFree |
| umls:C3495559 | Juvenile arthritis | 1 | BeFree |
| umls:C3714757 | Juvenile rheumatoid arthritis | 1 | BeFree |
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