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: CD163

    Description: CD163 molecule

    Entrez Gene ID: 9332

    SwissProt Acc Number: Q86VB7

    RefSeq: NM_004244

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

    ..The macrophage hemoglobin scavenger receptor (CD163) as a genetically determined disease modifying pathway in atherosclerosis...

    From PMID: 12048140, in Journal Atherosclerosis. , 2002


    References

    There were 10 potential papers with CD163 and CHD.

    PMIDTitleJournalsDetails
    23223950 CXCR4 positive and angiogenic monocytes in myocardial infarction.Thrombosis and haemostasisMore Details
    24041790 Noncalcified Coronary Atherosclerotic Plaque and Immune Activation in HIV-Infected Women.The Journal of infectious diseasesMore Details
    22820791 Arterial inflammation in patients with HIV.JAMA : the journal of the American Medical AssociationMore Details
    21606088 In vitro and in vivo evidence for the role of elastase shedding of CD163 in human atherothrombosis.European heart journalMore Details
    21917896 "Soluble CD163, a novel marker of activated macrophages, is elevated and associated with noncalcified coronary plaque in HIV-infected patients."The Journal of infectious diseasesMore Details
    20131226 Cardiovascular disease in patients with inflammatory rheumatic disease is associated with up-regulation of markers of inflammation in cardiac microvessels and cardiomyocytes.Arthritis and rheumatismMore Details
    19234137 Coronary intraplaque hemorrhage evokes a novel atheroprotective macrophage phenotype.The American journal of pathologyMore Details
    19556258 Enhanced expression of haemoglobin scavenger receptor in accumulated macrophages of culprit lesions in acute coronary syndromes.European heart journalMore Details
    17458880 Monocyte cholesterol homeostasis correlates with the presence of detergent resistant membrane microdomains.Cytometry. Part A : the journal of the International Society for AnalyticalMore Details
    15979079 The monocytic lineage specific soluble CD163 is a plasma marker of coronary atherosclerosis.AtherosclerosisMore Details

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



    PPI interactions

    There were totally 4 unique genes interacted with CD163. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CSNK2B Two-hybrid11298324|11298324|11298324 No
    HP in vivo11854028 CHD related
    MYH9 in vivo15479433 No
    PRKCA in vitro;in vivo;yeast 2-hybrid11298324 CHD related


    Involved FDA drugs

    There was no drug associated with CD163