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: S100P

    Description: S100 calcium binding protein P

    Entrez Gene ID: 6286

    SwissProt Acc Number: P25815

    RefSeq: NM_005980

    It was supported literatures to be a novel CHD related gene:

    .."his study indicates that serum levels of S100B, S100A6 and S100P are associated with ACS, and serum levels and myocardial expression of these proteins are related to infarct size."..

    From PMID: 21663912, in Journal Atherosclerosis. , 2011


    References

    There were 1 potential papers with S100P and CHD.

    PMIDTitleJournalsDetails
    21663912 "Association of increased S100B, S100A6 and S100P in serum levels with acute coronary syndrome and also with the severity of myocardial infarction in cardiac tissue of rat models with ischemia-reperfusion injury."AtherosclerosisMore Details

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



    PPI interactions

    There were totally 15 unique genes interacted with S100P. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    S100P Two-hybrid10924150|1633809|12507480|12507480|12507480|12507480,1633809,10924150,15171681 CHD related
    AGER Affinity Capture-Western14617629|14617629 CHD related
    EZR Affinity Capture-MS12808036|12808036|12808036 No
    S100Z Two-hybrid11747429|11747429 No
    SUGT1 Co-fractionation22939629 No
    S100A4 in vitro;yeast 2-hybrid15171681 No
    S100A2 in vitro;yeast 2-hybrid15171681 No
    S100A1 Two-hybrid16189514|16189514,15171681 CHD related
    TERF2IP Two-hybrid21044950 No
    LRRC45 Co-fractionation22939629 No
    PPM1G Co-fractionation22939629 No
    SNRPF Co-fractionation22939629 No
    IGBP1 Co-fractionation22939629 No
    PSMD4 Co-fractionation22939629 No
    CACYBP in vivo12042313 CHD related


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB01003Cromoglicic acid"For the management of patients with bronchial asthma. Also used in the treatment of vernal keratoconjunctivitis, vernal conjunctivitis, and vernal keratitis."R01AC01;A07EB01;S01GX01;R03BC01