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: KCNQ1

    Description: "potassium voltage-gated channel, KQT-like subfamily, member 1"

    Entrez Gene ID: 3784

    SwissProt Acc Number: P51787

    RefSeq: NM_000218

    It was suspected to be CHD related:

    ..Our data implicate rs2237892 in KCNQ1 as a protective gene variant against premature CAD ..

    From PMID: 19575309, in Journal Mol Biol Rep. , 2010


    References

    There were 5 potential papers with KCNQ1 and CHD.

    PMIDTitleJournalsDetails
    21985337 KCNE5 polymorphism rs697829 is associated with QT interval and survival in acute coronary syndromes patients.Journal of cardiovascular electrophysiologyMore Details
    21410720 Mutation analysis ion channel genes ventricular fibrillation survivors with coronary artery disease.Pacing and clinical electrophysiology : PACEMore Details
    21860640 Deoxyribonucleic Acid copy number aberrations in vasospastic angina patients using an array comparative genomic hybridization.Korean circulation journalMore Details
    19575309 Association study of four variants in KCNQ1 with type 2 diabetes mellitus and premature coronary artery disease in a Chinese population.Molecular biology reportsMore Details
    20701788 KCNQ1 gene polymorphisms are associated with lipid parameters in a Chinese Han population.Cardiovascular diabetologyMore Details

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



    PPI interactions

    There were totally 13 unique genes interacted with KCNQ1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    AKAP9 Affinity Capture-Western11799244|11799244|11799244 No
    PRKAR2A Affinity Capture-Western11799244 No
    PPP1CA Affinity Capture-Western11799244|11799244 No
    PRKACA Affinity Capture-Western11799244|11799244 CHD related
    KCNE1 Reconstituted Complex11101505|19114714|11104781 CHD related
    KCNE2 Reconstituted Complex11101505|11101505 CHD related
    KCNQ2 Affinity Capture-Western12524525 No
    UBC Affinity Capture-Western19114714|22024150 No
    HSPA4 Affinity Capture-Western19114714 No
    NEDD4 Affinity Capture-Western22024150|22024150 No
    USP2 Affinity Capture-Western22024150|22024150 No
    TRAF6 Affinity Capture-MS14743216|14743216 No
    KCNE4 in vivo12670483 No


    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
    approvedDB01244BepridilFor the treatment of chronic stable angina (classic effort-associated angina).C08EA02