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: CPB2

    Description: carboxypeptidase B2 (plasma)

    Entrez Gene ID: 1361

    SwissProt Acc Number: Q96IY4

    RefSeq: NM_001872

    It was suspected to be CHD related:

    ..the association of thrombin activatable fibrinolysis inhibitor (TAFI) and its encoding gene CPB2 polymorphism in patients with coronary heart disease (CHD)...

    From PMID: 18683146, in Journal Zhonghua Yi Xue Yi Chuan Xue Za Zhi , 2008


    References

    There were 2 potential papers with CPB2 and CHD.

    PMIDTitleJournalsDetails
    21505719 Identification of human thrombin-activatable fibrinolysis inhibitor in vascular and inflammatory cells.Thrombosis and haemostasisMore Details
    19017260 Activated thrombin activatable fibrinolysis inhibitor levels are associated with the risk of cardiovascular death in patients with coronary artery disease: the AtheroGene study.Journal of thrombosis and haemostasis : JTHMore Details

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



    PPI interactions

    There were totally 6 unique genes interacted with CPB2. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    A2M Reconstituted Complex8662763 No
    C5 Biochemical Activity11939578 CHD related
    F2 Reconstituted Complex8663147|10777524 CHD related
    PLG Co-purification1939207 No
    UBC Reconstituted Complex19850743 No
    PZP in vitro8662763 No


    Involved FDA drugs

    There was no drug associated with CPB2