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: GP1BA

    Description: "glycoprotein Ib (platelet), alpha polypeptide"

    Entrez Gene ID: 2811

    SwissProt Acc Number: P07359

    RefSeq: NM_000173

    It was suspected to be CHD related:

    .."Platelet glycoprotein GP1BA rs2243093 (-5T/C), angiotensin-converting enzyme ACE rs4332 (547C/T) and ATIII rs2227589 (893C/T) were associated with CHD in old Han Chinese patients."..

    From PMID: 23252292, in Journal Zhongguo Ying Yong Sheng Li Xue Za Zhi.? , 2012


    References

    There were 3 potential papers with GP1BA and CHD.

    PMIDTitleJournalsDetails
    22388798 Gene panels to help identify subgroups at high and low risk of coronary heart disease among those randomized to antihypertensive treatment: the GenHAT study.Pharmacogenetics and genomicsMore Details
    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
    17105818 Effect of genetic variations in platelet glycoproteins Ibalpha and VI on the risk for coronary heart disease events in postmenopausal women taking hormone therapy.BloodMore Details

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



    PPI interactions

    There were totally 16 unique genes interacted with GP1BA. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    VWF Co-crystal Structure12183630|12183630,12087105,6336654 CHD related
    F12 Reconstituted Complex10801853 CHD related
    YWHAZ Two-hybrid9454760|8631758 No
    FLNA Affinity Capture-Western11700320 No
    F11 Reconstituted Complex11696542 No
    SELP Reconstituted Complex10499919|10499919 CHD related
    FLNB Two-hybrid9651345|9651345 No
    GP9 in vivo2436691 No
    F2 in vitro2933256,11024046 CHD related
    KNG1 in vitro;in vivo9269768 No
    CTSG in vitro8400294 No
    GP1BA in vitro12087105 CHD related
    ITGAM in vivo10899906 CHD related
    GP5 Affinity Capture-Western1730602 No
    TPST1 in vivo7721887 No
    OSGEP in vitro9092683 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB02944Alpha-D-Mannose