How to Build CHD@ZJU

CHD related Articles were retrieved from Pubmed, by entering keywords "coronary heart disease" and constrict the publish date from 2000/1/1 to now (2013/1/23). As a result, totally 115898 articles were found and their abstracts were downloaded for text mining. Since some articles didn't contain abstracts, only 88396 abstracts remained.

The text-mining process to get CHD related genes could be divided in to 5 following steps:

  • 1) Extracting all keywords from abstracts and ignoring those keywords start with numbers. 101402 keywords were extracted.

  • 2) Input these keywords into Gene library in ArrayTrack and find possible related genes. 4674 genes were then found.

  • 3) Put these 4674 genes again into pubmed abstracts to find related aticles. Only genes which offical name or there keyword description (such as prolactin for gene PRL) could be found in the abstract would be remained. As a result, 1247 genes were remained.

  • 4) Manually examined on the 1247 genes to validate it was acutally related to CHD. Some genes would be filtered if it represents other meanings (such as gene CAD, Entrez ID:790, carbamoyl-phosphate synthetase 2, is mostly meant coronary arterial disease in articles). 681 genes were then validated with at least one reference.

  • 5) All genes was compared with 1078 CHD genes in RGD database, and 370 genes were overlapped. These 370 genes were labels as "RGD_Supported" and the other 293 genes were labels as "REFERED". All 663 genes had supported references in CHD@ZJU which were examined by step 4.
  • How To contact Us

    Collaboration Information: Prof. Xiaohui Fan (fanxh@zju.edu.cn)

    Website using assistance : Leihong Wu (11019004@zju.edu.cn)



    Basic Information

    Gene Name: PON3

    Description: paraoxonase 3

    Entrez Gene ID: 5446

    SwissProt Acc Number: Q15166

    RefSeq: NM_000940

    It was suspected to be CHD related:

    .."Clinical observations focusing on gene polymorphisms also indicate that PON1, PON2, and PON3 are protective against coronary artery disease."..

    From PMID: 21867409, in Journal Antioxid Redox Signal , 2012


    References

    There were 11 potential papers with PON3 and CHD.

    PMIDTitleJournalsDetails
    21867409 The human paraoxonase gene cluster as a target in the treatment of atherosclerosis.Antioxidants & redox signalingMore Details
    22153698 Serum paraoxonase-3 concentration is associated with insulin sensitivity in peripheral artery disease and with inflammation in coronary artery disease.AtherosclerosisMore Details
    22548179 Regulation of hepatic paraoxonase-1 expression.Journal of lipidsMore Details
    21223581 Association analysis of PON2 genetic variants with serum paraoxonase activity and systemic lupus erythematosus.BMC medical geneticsMore Details
    19426787 Molecular characterization and expression analysis of the porcine paraoxonase 3 (PON3) gene.GeneMore Details
    17900266 Genetic variation in the paraoxonase-3 (PON3) gene is associated with serum PON1 activity.Annals of human geneticsMore Details
    16319130 Polymorphisms in the PON gene cluster are associated with Alzheimer disease.Human molecular geneticsMore Details
    16239632 Evaluation of the paraoxonases as candidate genes for stroke: Gln192Arg polymorphism in the paraoxonase 1 gene is associated with increased risk of stroke.Stroke; a journal of cerebral circulationMore Details
    14996478 PON1 M/L55 mutation protects high-risk patients against coronary artery disease.International journal of cardiologyMore Details
    14551701 "Paraoxonase gene polymorphisms, oxidative stress, and diseases.""Journal of molecular medicine (Berlin, Germany)"More Details
    11803456 Codon 311 (Cys --> Ser) polymorphism of paraoxonase-2 gene is associated with apolipoprotein E4 allele in both Alzheimer's and vascular dementias.Molecular psychiatryMore Details

    NOTEs: These result is mostly from TEXT-MINING and there might have mismatches.



    PPI interactions

    There was NO PPI interaction information about PON3



    Involved FDA drugs

    There was no drug associated with PON3