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: CTGF

    Description: connective tissue growth factor

    Entrez Gene ID: 1490

    SwissProt Acc Number: P29279

    RefSeq: NM_001901

    It was suspected to be CHD related:

    .."High mRNA expression of connective tissue growth factor (CTGF) was present in chronic ischemic myocardium with a high degree of correlation between CTGF and mRNA expression of specific genes (e.g. thrombospondin 4, collagen type Ialpha2, versican, adlican, latent transforming growth factor beta binding protein 2 and fibronectin) involved in extracellular matrix remodelling."..

    From PMID: 17343875, in Journal J Mol Cell Cardiol.? , 2007


    References

    There were 9 potential papers with CTGF and CHD.

    PMIDTitleJournalsDetails
    23508392 "Elevated expression of connective tissue growth factor, osteopontin and increased collagen content in human ascending thoracic aortic aneurysms."VascularMore Details
    22986349 Early and Delayed Tranilast Treatment Reduces Pathological Fibrosis Following Myocardial Infarction."Heart, lung & circulation"More Details
    22681982 [Hypertension-induced fibrosis: a balance story].Annales de cardiologie et d'angeiologieMore Details
    23284892 Myocardial connective tissue growth factor (CCN2/CTGF) attenuates left ventricular remodeling after myocardial infarction.PloS oneMore Details
    21889313 Chlamydia pneumoniae heat shock protein 60 is associated with apoptotic signaling pathway in human atheromatous plaques of coronary artery disease patients.Journal of cardiologyMore Details
    19293040 Increased connective tissue growth factor expression in a rat model of chronic heart allograft rejection.Journal of the Formosan Medical Association = Taiwan yi zhiMore Details
    18505769 Serial analysis of the vascular endothelial transcriptome under static and shear stress conditions.Physiological genomicsMore Details
    17875610 "Effects of resveratrol (trans-3,5,4'-trihydroxystilbene) treatment on cardiac remodeling following myocardial infarction."The Journal of pharmacology and experimental therapeuticsMore Details
    17343875 "Gene expression signals involved in ischemic injury, extracellular matrix composition and fibrosis defined by global mRNA profiling of the human left ventricular myocardium."Journal of molecular and cellular cardiologyMore Details

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



    PPI interactions

    There were totally 14 unique genes interacted with CTGF. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    VEGFA Affinity Capture-Western11744618 CHD related
    ACTB Co-purification12470643|12470643 No
    LRP1 in vivo14585398 CHD related
    AP3D1 in vitro16457822 No
    FBLN1 Reconstituted Complex9927660 CHD related
    UBC Reconstituted Complex19850743 No
    ELAVL1 Affinity Capture-RNA19322201 No
    HDAC9 Negative Genetic22318606 No
    HSPG2 in vivo12811819 No
    NOV in vitro;yeast 2-hybrid9927660 No
    TGFB1 in vivo10457363 CHD related
    TGFB2 in vivo10457363 CHD related
    TGFB3 in vivo10457363 No
    ERBB4 in vitro12297288 No


    Involved FDA drugs

    There was no drug associated with CTGF