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: ITGA2

    Description: "integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)"

    Entrez Gene ID: 3673

    SwissProt Acc Number: P17301

    RefSeq: NM_002203

    It was suspected to be CHD related:

    .."Our study has identified three SNPs within ITGA2, PON1 and THBS2 that are associated with coronary atherosclerosis."..

    From PMID: 20485444, in Journal J Hum Genet. , 2010


    References

    There were 4 potential papers with ITGA2 and CHD.

    PMIDTitleJournalsDetails
    24244288 "The Association of Four Common Polymorphisms from Four Candidate Genes (COX-1, COX-2, ITGA2B, ITGA2) with Aspirin Insensitivity: A Meta-Analysis."PloS oneMore Details
    22948415 Idiopathic sudden sensorineural hearing loss: classic cardiovascular and new genetic risk factors.Audiology & neuro-otologyMore 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
    20485444 "Common polymorphisms in ITGA2, PON1 and THBS2 are associated with coronary atherosclerosis in a candidate gene association study of the Chinese Han population."Journal of human geneticsMore Details

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



    PPI interactions

    There were totally 17 unique genes interacted with ITGA2. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CD46 Affinity Capture-Western10741407 No
    MMP1 Reconstituted Complex11359774|11359774,11359786 CHD related
    RABIF Two-hybrid10094488 No
    Sharpin Affinity Capture-Western21947080|21947080 No
    ITGB1 Affinity Capture-Western21947080|1690718,1693624,3546305,14681217 CHD related
    ACTA1 in vitro7503723 CHD related
    COL1A2 in vitro2156854 CHD related
    COL8A1 in vitro12482545,10666376 No
    ITGA2 in vivo14681217 CHD related
    COL1A1 Co-purification2156854 CHD related
    AUP1 Two-hybrid12042322|12042322 No
    LAMA1 Reconstituted Complex9688542 CHD related
    UBC Affinity Capture-MS21139048|21906983 No
    PSMD4 Affinity Capture-Western16762342 No
    ERGIC1 Co-fractionation22939629 No
    CD9 in vivo9812906,9813091 CHD related
    HSPG2 in vitro15240572 No


    Involved FDA drugs

    There was no drug associated with ITGA2