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: HRG

    Description: histidine-rich glycoprotein

    Entrez Gene ID: 3273

    SwissProt Acc Number: P04196

    RefSeq: NM_000412

    It was suspected to be CHD related:

    .."HRG may, therefore, play an important role in the development of coronary artery disease and the expansion of the atherosclerotic plaque and may locally regulate the expression of the angiogenetic factor CYR61."..

    From PMID: 16155362, in Journal J Vasc Res , 2005


    References

    There were 4 potential papers with HRG and CHD.

    PMIDTitleJournalsDetails
    22703881 "Genetic associations for activated partial thromboplastin time and prothrombin time, their gene expression profiles, and risk of coronary artery disease."American journal of human geneticsMore Details
    17084425 Predicting the impact of population level risk reduction in cardio-vascular disease and stroke on acute hospital admission rates over a 5 year period--a pilot study.Public healthMore Details
    16116047 Cardiovascular morbidity and mortality in hypertensive patients with lower versus higher risk: a LIFE substudy.HypertensionMore Details
    16155362 Expression of heregulin in human coronary atherosclerotic lesions.Journal of vascular researchMore Details

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



    PPI interactions

    There were totally 6 unique genes interacted with HRG. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    FGA Reconstituted Complex9276466|9276466 CHD related
    C1QA in vivo9184145 CHD related
    C1QB in vivo9184145 CHD related
    FCGR1A in vivo10421785 No
    PLG in vivo8478593 No
    THBS1 in vivo6438154 CHD related


    Involved FDA drugs

    There was no drug associated with HRG