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: IGFBP1

    Description: insulin-like growth factor binding protein 1

    Entrez Gene ID: 3484

    SwissProt Acc Number: P08833

    RefSeq: NM_000596

    It was suspected to be CHD related:

    .."In older men, higher IGF1 and an increased ratio of IGF1/IGFBP3 are associated with AAA, while IGFBP1 is independently associated with increased aortic diameter."..

    From PMID: 22113073, in Journal Eur J Endocrinol. , 2012


    References

    There were 1 potential papers with IGFBP1 and CHD.

    PMIDTitleJournalsDetails
    22113073 Associations of IGF1 and its binding proteins with abdominal aortic aneurysm and aortic diameter in older men.European journal of endocrinology / European Federation of Endocrine SocietiesMore Details

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



    PPI interactions

    There were totally 4 unique genes interacted with IGFBP1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    IGF2 Reconstituted Complex10810289|10810289 CHD related
    IGF1 in vitro10350456 CHD related
    TF in vitro11297622 No
    MMP26 in vitro;in vivo12119297 No


    Involved FDA drugs

    There was no drug associated with IGFBP1