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: ANGPTL3

    Description: angiopoietin-like 3

    Entrez Gene ID: 27329

    SwissProt Acc Number: Q9Y5C1

    RefSeq: NM_014495

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

    .."ANGPTL3 rs12042319 was associated with CHD risk (OR 1.11; 1.03, 1.19), total- and LDL-cholesterol, triglycerides, and interleukin-6."..

    From PMID: 21804106, in Journal Eur Heart J. , 2012


    References

    There were 6 potential papers with ANGPTL3 and CHD.

    PMIDTitleJournalsDetails
    21804106 "Comparative analysis of genome-wide association studies signals for lipids, diabetes, and coronary heart disease: Cardiovascular Biomarker Genetics Collaboration."European heart journalMore Details
    21862702 "Mechanisms and genetic determinants regulating sterol absorption, circulating LDL levels, and sterol elimination: implications for classification and disease risk."Journal of lipid researchMore Details
    19851103 Impacts of angiopoietin-like proteins on lipoprotein metabolism and cardiovascular events.Current opinion in lipidologyMore Details
    20056168 Modulation of plasma TG lipolysis by Angiopoietin-like proteins and GPIHBP1.Biochimica et biophysica actaMore Details
    18193044 "Six new loci associated with blood low-density lipoprotein cholesterol, high-density lipoprotein cholesterol or triglycerides in humans."Nature geneticsMore Details
    18193043 Newly identified loci that influence lipid concentrations and risk of coronary artery disease.Nature geneticsMore Details

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



    PPI interactions

    There were totally 3 unique genes interacted with ANGPTL3. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    ITGB3 in vitro11877390 CHD related
    ITGAV in vivo11877390 CHD related
    ITGA5 in vitro11877390 CHD related


    Involved FDA drugs

    There was no drug associated with ANGPTL3