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: NPR2

    Description: natriuretic peptide receptor B/guanylate cyclase B (atrionatriuretic peptide receptor B)

    Entrez Gene ID: 4882

    SwissProt Acc Number: P20594

    RefSeq: NM_003995

    It was suspected to be CHD related:

    ..NPR2 rs10758325 was associated with smaller LVMI (p<0.02)...

    From PMID: 21276798, in Journal J Mol Cell Cardiol. , 2011


    References

    There were 1 potential papers with NPR2 and CHD.

    PMIDTitleJournalsDetails
    21276798 Association of genetic variation in the natriuretic peptide system with cardiovascular outcomes.Journal of molecular and cellular cardiologyMore Details

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



    PPI interactions

    There were totally 5 unique genes interacted with NPR2. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    NPPC Reconstituted Complex1309330 CHD related
    NPPB Reconstituted Complex1309330 CHD related
    NPPA Reconstituted Complex1309330 CHD related
    NPR2 in vitro8765168 CHD related
    UBC Affinity Capture-MS21139048 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB01613Erythrityl TetranitrateFor the prevention of angina.C01DA13
    approvedDB04899NesiritideFor the intravenous treatment of patients with acutely decompensated congestive heart failure who have dyspnea at rest or with minimal activity.C01DX19