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: ADAMTS1

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

    Entrez Gene ID: 9510

    SwissProt Acc Number: Q9UHI8

    RefSeq: NM_006988

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

    .."In men not on pravastatin, those homozygous for the 227Pro allele of ADAMTS1 have a nearly 2-fold increased risk of coronary heart disease events compared with noncarriers."..

    From PMID: 18174457, in Journal Arterioscler Thromb Vasc Biol. , 2008


    References

    There were 2 potential papers with ADAMTS1 and CHD.

    PMIDTitleJournalsDetails
    18174457 "Association between ADAMTS1 matrix metalloproteinase gene variation, coronary heart disease, and benefit of statin therapy.""Arteriosclerosis, thrombosis, and vascular biology"More Details
    15625312 Dynamic induction of ADAMTS1 gene in the early phase of acute myocardial infarction.Journal of biochemistryMore Details

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



    PPI interactions

    There were totally 7 unique genes interacted with ADAMTS1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    VEGFA Co-purification12716911|12716911|12716911|12716911 CHD related
    VCAN in vitro;in vivo11278559,12907688 CHD related
    ACAN in vitro12054629 No
    A2M Affinity Capture-Western10373500 No
    USP17 Affinity Capture-MS19615732 No
    UBC Affinity Capture-MS21890473 No
    FURIN in vitro;in vivo10373500 No


    Involved FDA drugs

    There was no drug associated with ADAMTS1