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: PROS1

    Description: protein S (alpha)

    Entrez Gene ID: 5627

    SwissProt Acc Number: P07225

    RefSeq: NM_000313

    It was suspected to be CHD related:

    .."he minor alleles of PROC rs2069901 and PROS1 rs4857343 were weakly associated with lower protein C and free protein S levels, respectively."..

    From PMID: 18680534, in Journal J Thromb Haemost , 2008


    References

    There were 1 potential papers with PROS1 and CHD.

    PMIDTitleJournalsDetails
    18680534 "PROC, PROCR and PROS1 polymorphisms, plasma anticoagulant phenotypes, and risk of cardiovascular disease and mortality in older adults: the Cardiovascular Health 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 8 unique genes interacted with PROS1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    F5 Reconstituted Complex10593904 CHD related
    C4BPA Reconstituted Complex9628846|9628846|10744423,1534488,1833851 No
    PROC in vitro1615482,2461936 CHD related
    F8 Reconstituted Complex7620160|7620160 No
    F2 in vitro12490286 CHD related
    F10 in vitro;in vivo8146182,12490286 No
    TYRO3 in vivo8641360 No
    C4BPB in vitro12492479 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00055Drotrecogin alfaFor reduction of mortality in patients with severe sepsis.B01AD10
    approved;nutraceuticalDB00170Menadione"The primary known function of vitamin K is to assist in the normal clotting of blood, but it may also play a role in normal bone calcification."B02BA02
    approvedDB00464Sodium Tetradecyl SulfateFor the treatment of small uncomplicated varicose veins of the lower extremities that show simple dilation with competent valves.C05BB04