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: MIA3

    Description: "melanoma inhibitory activity family, member 3"

    Entrez Gene ID: 375056

    SwissProt Acc Number: Q5JRA6

    RefSeq: NM_198551

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

    .."In conclusion, our results suggest a potential association of the MIA3 rs17465637 with CV disease in dyslipidemic patients with RA. "..

    From PMID: 22577832, in Journal DNA Cell Biol. , 2012


    References

    There were 5 potential papers with MIA3 and CHD.

    PMIDTitleJournalsDetails
    24125424 Meta-analysis identifies robust association between SNP rs17465637 in MIA3 on chromosome 1q41 and coronary artery disease.AtherosclerosisMore Details
    21804106 "Comparative analysis of genome-wide association studies signals for lipids, diabetes, and coronary heart disease: Cardiovascular Biomarker Genetics Collaboration."European heart journalMore Details
    22577832 Association study of MIA3 rs17465637 polymorphism with cardiovascular disease in rheumatoid arthritis patients.DNA and cell biologyMore Details
    21463265 Association of SNP rs17465637 on chromosome 1q41 and rs599839 on 1p13.3 with myocardial infarction in an American caucasian population.Annals of human geneticsMore Details
    21264445 Extended evidence for association between the melanoma inhibitory activity 3 gene and myocardial infarction.Thrombosis and haemostasisMore Details

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



    PPI interactions

    There were totally 3 unique genes interacted with MIA3. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CACNA1A Two-hybrid21078624 No
    MINOS1 Affinity Capture-MS22114354 No
    UBC Affinity Capture-MS21139048|21890473 No


    Involved FDA drugs

    There was no drug associated with MIA3