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: APOM

    Description: apolipoprotein M

    Entrez Gene ID: 55937

    SwissProt Acc Number: O95445

    RefSeq: NM_019101

    It was suspected to be CHD related:

    .."High-density lipoprotein (HDL) is widely accepted as a lipoprotein that protects against coronary artery and other atherosclerotic diseases. Recently, a new apolipoprotein encoded by the APOM gene, which plays an important role in affecting the intrinsic properties of HDL, has been reported."..

    From PMID: 17973931, in Journal Clin Exp Pharmacol Physiol.? , 2008


    References

    There were 8 potential papers with APOM and CHD.

    PMIDTitleJournalsDetails
    24040766 Apolipoprotein M T-778C polymorphism is associated with serum lipid levels and the risk of coronary artery disease in the Chinese population: a meta-analysis.Lipids in health and diseaseMore Details
    20660599 Regulation of human apolipoprotein m gene expression by orphan and ligand-dependent nuclear receptors.The Journal of biological chemistryMore Details
    20360257 Opposing effects of apolipoprotein m on catabolism of apolipoprotein B-containing lipoproteins and atherosclerosis.Circulation researchMore Details
    19100249 Evaluation of apolipoprotein M as a biomarker of coronary artery disease.Clinical biochemistryMore Details
    19153651 Apolipoprotein M affecting lipid metabolism or just catching a ride with lipoproteins in the circulation?Cellular and molecular life sciences : CMLSMore Details
    18490703 Levels of apolipoprotein M are not associated with the risk of coronary heart disease in two independent case-control studies.Journal of lipid researchMore Details
    17973931 A genetic variant of apolipoprotein M increases susceptibility to coronary artery disease in a Chinese population.Clinical and experimental pharmacology & physiologyMore Details
    17674965 A prospective evaluation of apolipoprotein M gene T-778C polymorphism in relation to coronary artery disease in Han Chinese.Clinical biochemistryMore Details

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



    PPI interactions

    There were totally 3 unique genes interacted with APOM. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    KLF6 Two-hybrid16169070|16169070 No
    FAM203A Two-hybrid16169070 No
    C8orf30A yeast 2-hybrid16169070 No


    Involved FDA drugs

    There was no drug associated with APOM