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: KCNE1

    Description: "potassium voltage-gated channel, Isk-related family, member 1"

    Entrez Gene ID: 3753

    SwissProt Acc Number: P15382

    RefSeq: NM_000219

    It was suspected to be CHD related:

    .."ive genes have been implicated in Romano-Ward syndrome, the autosomal dominant form of LQTS:?KVLQT1,?HERG,?SCN5A,?KCNE1, and?KCNE2.?"..

    From PMID: 10973849, in Journal Circulation. , 2000


    References

    There were 4 potential papers with KCNE1 and CHD.

    PMIDTitleJournalsDetails
    21410720 Mutation analysis ion channel genes ventricular fibrillation survivors with coronary artery disease.Pacing and clinical electrophysiology : PACEMore Details
    20381460 "Dynamic changes in HCN2, HCN4, KCNE1, and KCNE2 expression in ventricular cells from acute myocardial infarction rat hearts."Biochemical and biophysical research communicationsMore Details
    18674739 "Effect of common KCNE1 and SCN5A ion channel gene variants on T-wave alternans, a marker of cardiac repolarization, during clinical exercise stress test: the Finnish Cardiovascular Study."Translational research : the journal of laboratory and clinical medicineMore Details
    16497176 Regulation of neuronal type genes in congestive heart failure rats."Acta physiologica (Oxford, England)"More Details

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



    PPI interactions

    There were totally 3 unique genes interacted with KCNE1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    KCNH2 Affinity Capture-Western9230439|9230439 CHD related
    KCNQ1 Reconstituted Complex11101505|19114714|11104781 CHD related
    PRKCA in vitro1553557 CHD related


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00808Indapamide"For the treatment of hypertension, alone or in combination with other antihypertensive drugs, as well as for the treatment of salt and fluid retention associated with congestive heart failure or edema from pregnancy (appropriate only in the management of edema of pathologic origin during pregnancy when clearly needed). Also used for the management of edema as a result of various causes."C03BA11