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: GJA1

    Description: "gap junction protein, alpha 1, 43kDa"

    Entrez Gene ID: 2697

    SwissProt Acc Number: P17302

    RefSeq: NM_000165

    It was suspected to be CHD related:

    .."miR-1 overexpression slowed conduction and depolarized the cytoplasmic membrane by post-transcriptionally repressing KCNJ2 (which encodes the K(+) channel subunit Kir2.1) and GJA1 (which encodes connexin 43), and this likely accounts at least in part for its arrhythmogenic potential. "..

    From PMID: 17401374, in Journal Nat Med. , 2007


    References

    There were 1 potential papers with GJA1 and CHD.

    PMIDTitleJournalsDetails
    17401374 The muscle-specific microRNA miR-1 regulates cardiac arrhythmogenic potential by targeting GJA1 and KCNJ2.Nature medicineMore Details

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



    PPI interactions

    There were totally 25 unique genes interacted with GJA1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    GJA1 Co-fractionation11739633 CHD related
    GJA3 Affinity Capture-Western11739633 No
    GJA5 Co-purification11557558 CHD related
    PRKCE Affinity Capture-Western10679481 CHD related
    CAV1 Co-fractionation11980479|11980479 CHD related
    UBC Affinity Capture-Western19907029|19808888|19808888|21554242|19835873 No
    NEDD4 Affinity Capture-Western19907029|19835873 No
    HGS Co-localization19808888 No
    TSG101 Co-localization19808888 No
    EPS15 Affinity Capture-Western21554242 No
    S100A1 Affinity Capture-Western12804600|12804600 CHD related
    MAPK7 Biochemical Activity12637502|12637502,8631994,9535909,9535905 No
    CSNK1D Biochemical Activity12270943|12270943 No
    TJP1 Affinity Capture-Western9707407|16944923|9707407 No
    PRKCA Affinity Capture-Western11273731|11273731,10871288 CHD related
    UBQLN4 Affinity Capture-Western20940304|18079109 No
    CNST Reconstituted Complex19864490 No
    NOV in vitro;in vivo15181016 No
    CSK in vitro11035005 No
    MAPK1 in vitro;in vivo12637502,8631994,9535909,9535905 CHD related
    PRKCB in vitro;in vivo10871288 CHD related
    PRKCG in vitro;in vivo10871288 No
    SRC in vitro;in vivo9278444,11514593 CHD related
    MAPK3 in vitro;in vivo12637502,8631994,9535909,9535905 CHD related
    SGSM3 in vitro;in vivo;yeast 2-hybrid15709751 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB01136CarvedilolFor the treatment of mild or moderate (NYHA class II or III) heart failure of ischemic or cardiomyopathic origin.C07AG02