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: IL1B

    Description: "interleukin 1, beta"

    Entrez Gene ID: 3553

    SwissProt Acc Number: P01584

    RefSeq: NM_000576

    It was suspected to be CHD related:

    .."The polymorphism at position -511C/T in IL1B is associated with the severity of CHD, and the DNA variation at this position may affect the secretion of IL1B, and aggravate the reaction of inflammation and dyslipoidemia."..

    From PMID: 16456796, in Journal Zhonghua Yi Xue Yi Chuan Xue Za Zhi.? , 2006


    References

    There were 11 potential papers with IL1B and CHD.

    PMIDTitleJournalsDetails
    23375685 Expression pattern in human macrophages dependent on 9p21.3 coronary artery disease risk locus.AtherosclerosisMore Details
    24244322 Ethanol Inhibits Activation of NLRP3 and AIM2 Inflammasomes in Human Macrophages-A Novel Anti-Inflammatory Action of Alcohol.PloS oneMore Details
    22738689 Peripheral blood gene expression profile of atherosclerotic coronary artery disease in patients of different ethnicity in Malaysia.Journal of cardiologyMore Details
    22768033 Single nucleotide polymorphisms in IL1B and the risk of acute coronary syndrome: a Danish case-cohort study.PloS oneMore Details
    22780915 A novel multiplex polymerase chain reaction assay for profile analyses of gene expression in peripheral blood.BMC cardiovascular disordersMore Details
    21811191 Association of IL1B polymorphism with left ventricular systolic dysfunction: a relation with the release of interleukin-1beta in stress condition.Pharmacogenetics and genomicsMore Details
    21840356 Lack of association of interleukin-1 gene cluster polymorphisms with angiographically documented coronary artery disease: demonstration of association with hypertension in the Polish population.Archives of medical researchMore Details
    20112301 Green tea polyphenols improve cardiac muscle mRNA and protein levels of signal pathways related to insulin and lipid metabolism and inflammation in insulin-resistant rats.Molecular nutrition & food researchMore Details
    20206549 Interleukin-1 beta and interleukin-6 gene polymorphism associations with angiographically assessed coronary artery disease in Brazilians.CytokineMore Details
    20484148 Sex hormone modulation of proinflammatory cytokine and C-reactive protein expression in macrophages from older men and postmenopausal women.The Journal of endocrinologyMore Details
    19506932 The effect of fatty or lean fish intake on inflammatory gene expression in peripheral blood mononuclear cells of patients with coronary heart disease.European journal of nutritionMore Details

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



    PPI interactions

    There were totally 17 unique genes interacted with IL1B. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    MAPK8IP2 Phenotypic Suppression10756100 No
    ZNF675 Phenotypic Suppression11751921 No
    UBE2N Phenotypic Suppression11057907 No
    IL1R1 Reconstituted Complex7878046 CHD related
    EGR1 Two-hybrid22455954 No
    SP1 Two-hybrid22455954 No
    APP Reconstituted Complex21832049 No
    A2M in vitro;in vivo9714181,2466831 No
    IL1B in vitro;in vivo2946959 CHD related
    ELAVL1 Affinity Capture-RNA19322201 No
    MMP2 in vitro8663297 CHD related
    ADRB2 in vitro11238007 CHD related
    CASP4 in vitro1919001,7797510 No
    CASP1 in vitro;in vivo7797510,1919001 CHD related
    IL1R2 in vitro7878046 CHD related
    PRTN3 in vivo10339575 No
    IL1RAP in vitro9820540 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB01017Minocycline"For the treatment of infections caused by susceptible strains of microorganisms, such as Rocky Mountain spotted fever, typhus fever and the typhus group, Q fever, rickettsial pox and tick fevers caused by Rickettsiae, upper respiratory tract infections caused by <i>Streptococcus pneumoniae</i> and for the treatment of asymptomatic carriers of <i>Neisseria meningitidis</i>."A01AB23;J01AA08
    approvedDB05260Gallium nitrateFor the treatment of hypercalcemia. Also intended for the treatment of non-hodgkin's lymphoma.
    approvedDB06168Canakinumab"Investigated for use/treatment in rheumatoid arthritis, juvenile rheumatoid arthritis, inflammatory disorders (unspecified), and autoimmune diseases."L04AC08