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.

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  • 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.

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  • 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: LIPG

    Description: "lipase, endothelial"

    Entrez Gene ID: 9388

    SwissProt Acc Number: Q9Y5X9

    RefSeq: NM_006033

    It was suspected to be CHD related:

    .."Our data support a modest association between the LIPG rs2000813 variant and parameters of HDL metabolism, but no association between common genetic variants in LIPG and CAD or DVT risk."..

    From PMID: 20466371, in Journal Atherosclerosis , 2010


    References

    There were 8 potential papers with LIPG and CHD.

    PMIDTitleJournalsDetails
    23243195 The impact of partial and complete loss-of-function mutations in endothelial lipase on high-density lipoprotein levels and functionality in humans.Circulation. Cardiovascular geneticsMore Details
    23673478 The effects of endothelial lipase gene (LIPG) variants on inflammation marker levels and atherosclerosis development.Molecular biology reportsMore Details
    22498810 Using bioinformatics and systems genetics to dissect HDL-cholesterol genetics in an MRL/MpJ x SM/J intercross.Journal of lipid researchMore Details
    22952570 "Segregation of LIPG, CETP, and GALNT2 mutations in Caucasian families with extremely high HDL cholesterol."PloS oneMore Details
    20466371 Lack of association between common genetic variation in endothelial lipase (LIPG) and the risk for CAD and DVT.AtherosclerosisMore Details
    19895941 The genetics of high-density lipoprotein metabolism: clinical relevance for therapeutic approaches.The American journal of cardiologyMore Details
    19411665 The T111I variant in the endothelial lipase gene and risk of coronary heart disease in three independent populations.European heart journalMore 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 1 unique genes interacted with LIPG. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    FANCA Two-hybrid14499622 No


    Involved FDA drugs

    There was no drug associated with LIPG