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 (

    Website using assistance : Leihong Wu (

    Basic Information

    Gene Name: GATA4

    Description: GATA binding protein 4

    Entrez Gene ID: 2626

    SwissProt Acc Number: P43694

    RefSeq: NM_002052

    It was suspected to be CHD related:

    .."The transcription factor GATA4 is a critical regulator of cardiac gene expression, modulating cardiomyocyte differentiation and adaptive responses of the adult heart."..

    From PMID: 17975667, in Journal J Clin Invest , 2007


    There were 9 potential papers with GATA4 and CHD.

    23467912 Cardiomyocyte differentiation of perinatallyderived mesenchymal stem cells.Molecular medicine reportsMore Details
    23048191 Nitric oxide synthase-3 deficiency results in hypoplastic coronary arteries and postnatal myocardial infarction.European heart journalMore Details
    22522929 In vivo reprogramming of murine cardiac fibroblasts into induced cardiomyocytes.NatureMore Details
    22318994 Human gene copy number spectra analysis in congenital heart malformations.Physiological genomicsMore Details
    21077732 Gene expression profiles following intracoronary injection of mesenchymal stromal cells using a porcine model of chronic myocardial infarction.CytotherapyMore Details
    19411759 Fog2 is critical for cardiac function and maintenance of coronary vasculature in the adult mouse heart.The Journal of clinical investigationMore Details
    19715896 Gene expression profiles in a porcine model of infarction: differential expression after intracoronary injection of heterologous bone marrow mesenchymal cells.Transplantation proceedingsMore Details
    17975667 Cardiomyocyte GATA4 functions as a stress-responsive regulator of angiogenesis in the murine heart.The Journal of clinical investigationMore Details
    15464586 GATA4 is a dosage-sensitive regulator of cardiac morphogenesis.Developmental biologyMore Details

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

    PPI interactions

    There were totally 29 unique genes interacted with GATA4. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    NKX2-5 Affinity Capture-Western12845333|9312027|10948187|10948187|9312027,10948187 CHD related
    HAND2 Reconstituted Complex11994297|11994297|11994297 No
    ZFPM2 Two-hybrid9927675|9927675|9927675|10801815|9927675,11297508 No
    SRF Affinity Capture-Western11003651|11003651,11158291 CHD related
    ALX4 Two-hybrid20211142 No
    ZBTB3 Two-hybrid20211142 No
    SP1 Affinity Capture-Western14988427 No
    HDAC2 Affinity Capture-Western20833366 CHD related
    EZH2 Affinity Capture-Western22215809 No
    EZH1 Affinity Capture-Western22215809 No
    SUZ12 Affinity Capture-Western22215809 No
    JARID2 Affinity Capture-Western22215809|15542826 No
    MEF2C in vitro;in vivo10790371 No
    CRIP2 in vitro;in vivo12530967 No
    MAPK3 in vitro11585926 CHD related
    MED1 in vitro11724781 No
    FOS in vitro9207128 CHD related
    MDC1 Protein-peptide14578343 No
    TBX5 Affinity Capture-Western12845333 No
    NR5A1 Reconstituted Complex10446911 No
    MAPK1 Biochemical Activity11585926 CHD related
    ID1 Affinity Capture-Western16556596|16556596 No
    ID2 Affinity Capture-Western16556596|16556596 No
    ID3 Affinity Capture-Western16556596|16556596 No
    EP300 Affinity Capture-Western18252717 CHD related
    Cdk9 Affinity Capture-Western20081228|20081228 No
    KDM6A Affinity Capture-Western22192413 No
    NFATC4 in vitro;in vivo;yeast 2-hybrid9568714 No
    PIAS1 in vitro15337742 No

    Involved FDA drugs

    There was no drug associated with GATA4