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: F2R

    Description: coagulation factor II (thrombin) receptor

    Entrez Gene ID: 2149

    SwissProt Acc Number: P25116

    RefSeq: NM_001992

    It was suspected to be CHD related:

    ..Our results demonstrate that in men F2R genetic variants influence the risk of MI mainly through an interaction with IL6 serum levels...

    From PMID: 19404549, in Journal Thromb Haemost , 2009


    References

    There were 2 potential papers with F2R and CHD.

    PMIDTitleJournalsDetails
    21742104 Polymorphisms associated with in vitro aspirin resistance are not associated with clinical outcomes in patients with coronary artery disease who report regular aspirin use.American heart journalMore Details
    17347481 Retrospective analysis of coagulation factor II receptor (F2R) sequence variation and coronary heart disease in hypertensive patients."Arteriosclerosis, thrombosis, and vascular biology"More Details

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



    PPI interactions

    There were totally 21 unique genes interacted with F2R. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    UBC Affinity Capture-Western21965661 No
    CHMP4A Affinity Capture-Western22547407 No
    PDCD6IP Affinity Capture-Western22547407|22833563 No
    GNAQ Affinity Capture-Western8982657 CHD related
    GNAI2 Affinity Capture-Western8982657|10644723,8982657 No
    FLOT2 Affinity Capture-Western15492257 No
    AP3D1 Affinity Capture-Western22833563 No
    GNA15 in vitro10644723 No
    SNX1 Reconstituted Complex12058063|12058063 No
    GNA12 Affinity Capture-Western8290554|8290554 No
    GNA13 Affinity Capture-Western8290554|10922491,8290554 No
    ATP13A2 Two-hybrid22645275 No
    F2 in vivo10644723,12563219,9058715,10978167 CHD related
    ITGAV in vitro11278329 CHD related
    CTSG in vitro10978167 No
    GNAT1 in vitro10583385 No
    PLG in vitro10978167 No
    ELANE in vitro10978167 CHD related
    PRTN3 in vitro10978167 No
    CAPN1 in vitro10978167 No
    GPRASP1 in vitro15452121 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00086Streptokinase"For the treatment of acute evolving transmural myocardial infarction, pulmonary embolism, deep vein thrombosis, arterial thrombosis or emolism and occlusion of arteriovenous cannulae"B01AD01;B06AA55