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: ADAMTS4

    Description: "ADAM metallopeptidase with thrombospondin type 1 motif, 4"

    Entrez Gene ID: 9507

    SwissProt Acc Number: O75173

    RefSeq: NM_005099

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

    .."In conclusion, serum ADAMTS4 levels are associated with the presence and the severity of CAD, ADAMTS4 might serve as an independent factor for predicting CAD. Statin therapy reduces the serum levels of ADAMTS4."..

    From PMID: 21946608, in Journal Coron Artery Dis. , 2011


    References

    There were 3 potential papers with ADAMTS4 and CHD.

    PMIDTitleJournalsDetails
    21946608 Association of serum a disintegrin and metalloproteinase with thrombospodin motif 4 levels with the presence and severity of coronary artery disease.Coronary artery diseaseMore Details
    19944557 ADAMTS4 level in patients with stable coronary artery disease and acute coronary syndromes.Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapieMore Details
    20625753 Elevated level of ADAMTS4 in plasma and peripheral monocytes from patients with acute coronary syndrome.Clinical research in cardiology : official journal of the German Cardiac SocietyMore Details

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



    PPI interactions

    There were totally 12 unique genes interacted with ADAMTS4. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    BCAN in vitro10986281 No
    ADAMTS4 in vivo12202483 CHD related
    FURIN in vivo14744861 No
    SERPINA1 in vivo;yeast 2-hybrid16099106 CHD related
    SERPINA3 yeast 2-hybrid16099106 CHD related
    HP yeast 2-hybrid16099106 CHD related
    MT2A yeast 2-hybrid16099106 CHD related
    ACAN in vitro11854269,10751421,16188468,14701864 No
    UBC Affinity Capture-MS21139048 No
    ELAVL1 Affinity Capture-RNA19322201 No
    FN1 in vitro;yeast 2-hybrid15161923 CHD related
    SRPX2 in vitro;in vivo;yeast 2-hybrid18718938 No


    Involved FDA drugs

    There was no drug associated with ADAMTS4