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: LIPC

    Description: "lipase, hepatic"

    Entrez Gene ID: 3990

    SwissProt Acc Number: P11150

    RefSeq: NM_000236

    It was suspected to be CHD related:

    ..514C→T of LIPC gene have a positive effect on HDL-C concentration especially in male gender..

    From PMID: 23113123, in Journal Iran J Public Health. , 2012


    References

    There were 26 potential papers with LIPC and CHD.

    PMIDTitleJournalsDetails
    23505323 Genomic study in Mexicans identifies a new locus for triglycerides and refines European lipid loci.Journal of medical geneticsMore Details
    23874450 "Association of hepatic lipase -514T allele with coronary artery disease and ankle-brachial index, dependence on the lipoprotein phenotype: the GENES study."PloS oneMore Details
    22359512 Genome-wide association study identifies novel loci associated with circulating phospho- and sphingolipid concentrations.PLoS geneticsMore Details
    22654671 Knowledge-driven analysis identifies a gene-gene interaction affecting high-density lipoprotein cholesterol levels in multi-ethnic populations.PLoS geneticsMore Details
    22229114 Common Variants in 6 Lipid-Related Genes Discovered by High-Resolution DNA Melting Analysis and Their Association with Plasma Lipids.Journal of clinical & experimental cardiologyMore Details
    21960661 Hepatic lipase gene -514C>T variant is associated with exercise training-induced changes in VLDL and HDL by lipoprotein lipase."Journal of applied physiology (Bethesda, Md. : 1985)"More Details
    21858147 Transcriptional profiling of human liver identifies sex-biased genes associated with polygenic dyslipidemia and coronary artery disease.PloS oneMore Details
    20075193 A genome-wide linkage scan identifies multiple quantitative trait loci for HDL-cholesterol levels in families with premature CAD and MI.Journal of lipid researchMore Details
    20851298 Quantitative assessment of the effect of hepatic lipase gene polymorphism on the risk of coronary heart disease.Archives of medical researchMore Details
    20855565 Common genetic variation in multiple metabolic pathways influences susceptibility to low HDL-cholesterol and coronary heart disease.Journal of lipid researchMore Details
    19558527 "Hepatic lipase promoter C-480T polymorphism is associated with serum lipids levels, but not subclinical atherosclerosis: the Cardiovascular Risk in Young Finns Study."Clinical geneticsMore Details
    19810818 Combined hepatic lipase -514C/T and cholesteryl ester transfer protein I405V polymorphisms are associated with the risk of coronary artery disease.Genetic testing and molecular biomarkersMore Details
    19878569 Candidate genetic analysis of plasma high-density lipoprotein-cholesterol and severity of coronary atherosclerosis.BMC medical geneticsMore Details
    19691831 "Gene polymorphisms in APOE, NOS3, and LIPC genes may be risk factors for cardiac adverse events after primary CABG."Journal of cardiothoracic surgeryMore Details
    17175070 Lack of association of hepatic lipase polymorphisms with late-onset Alzheimer's disease.Neurobiology of agingMore Details
    18193043 Newly identified loci that influence lipid concentrations and risk of coronary artery disease.Nature geneticsMore Details
    16928730 Identifying genetic susceptibilities to diabetes-related complications among individuals at low risk of complications: An application of tree-structured survival analysis.American journal of epidemiologyMore Details
    16822236 CETP (cholesteryl ester transfer protein) promoter -1337 C>T polymorphism protects against coronary atherosclerosis in Japanese patients with heterozygous familial hypercholesterolaemia."Clinical science (London, England : 1979)"More Details
    16570154 Genetic variation in the hepatic lipase gene and the risk of coronary heart disease among US diabetic men: potential interaction with obesity.DiabetologiaMore Details
    16603721 Transcriptional regulation of the human hepatic lipase (LIPC) gene promoter.Journal of lipid researchMore Details
    16324926 "Lipoprotein subclass and particle size differences in Afro-Caribbeans, African Americans, and white Americans: associations with hepatic lipase gene variation."Metabolism: clinical and experimentalMore Details
    16039291 Cholesterol ester transfer protein (CETP) Taq1B polymorphism influences the effect of a standardized cardiac rehabilitation program on lipid risk markers.AtherosclerosisMore Details
    15657615 Polymorphisms in APOA1 and LPL genes are statistically independently associated with fasting TG in men with CAD.European journal of human genetics : EJHGMore Details
    12964943 "Genetic study of common variants at the Apo E, Apo AI, Apo CIII, Apo B, lipoprotein lipase (LPL) and hepatic lipase (LIPC) genes and coronary artery disease (CAD): variation in LIPC gene associates with clinical outcomes in patients with established CAD."BMC medical geneticsMore Details
    14557872 Evidence for substantial effect modification by gender in a large-scale genetic association study of the metabolic syndrome among coronary heart disease patients.Human geneticsMore Details
    12642787 Hepatic lipase: a marker for cardiovascular disease risk and response to therapy.Current opinion in lipidologyMore Details

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



    PPI interactions

    There were totally 2 unique genes interacted with LIPC. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    APOB Reconstituted Complex9685400 CHD related
    LRP1 Reconstituted Complex7721852 CHD related


    Involved FDA drugs

    There was no drug associated with LIPC