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: KCNJ8

    Description: "potassium inwardly-rectifying channel, subfamily J, member 8"

    Entrez Gene ID: 3764

    SwissProt Acc Number: Q15842

    RefSeq: NM_004982

    It was suspected to be CHD related:

    .."Deletion of KCNJ8 blunted the responsiveness of coronary vessels to cytokine- or metabolic-mediated vasodilation necessary to support myocardial perfusion in the wild-type (WT), creating a deficit in adaptive response in the Kir6.1 knockout."..

    From PMID: 17077304, in Journal FASEB J , 2006


    References

    There were 4 potential papers with KCNJ8 and CHD.

    PMIDTitleJournalsDetails
    24068186 Role of genetic polymorphisms of ion channels in the pathophysiology of coronary microvascular dysfunction and ischemic heart disease.Basic research in cardiologyMore Details
    19120683 Ventricular fibrillation with prominent early repolarization associated with a rare variant of KCNJ8/KATP channel.Journal of cardiovascular electrophysiologyMore Details
    17077304 Gene knockout of the KCNJ8-encoded Kir6.1 K(ATP) channel imparts fatal susceptibility to endotoxemia.FASEB journal : official publication of the Federation of American Societies for More Details
    11984590 Mouse model of Prinzmetal angina by disruption of the inward rectifier Kir6.1.Nature medicineMore Details

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



    PPI interactions

    There were totally 5 unique genes interacted with KCNJ8. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    ABCC8 in vitro11160857 CHD related
    KCNJ2 in vitro;in vivo10559219 CHD related
    KCNJ8 in vitro;in vivo10559219 CHD related
    KCNJ11 Affinity Capture-Western11136227|11136227,10559219 No
    ABCC9 in vitro11007308,11136227 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approved;withdrawnDB00914PhenforminFor the reatment of type II diabetes mellitus.A10BA01
    approvedDB00922LevosimendanFor short term treatment of acutely decompensated severe chronic heart failure (CHF). Also being investigated for use/treatment in heart disease.C01CX08
    approvedDB01154Thiamylal"Used for the production of complete anaesthesia of short duration, for the induction of general anaesthesia, and for inducing a hypnotic state."
    approvedDB01251GliquidoneUsed in the treatment of diabetes mellitus type 2.A10BB08
    approvedDB01289GlisoxepideFor the treatment of diabetes mellitus type 2.A10BB11