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: LEP

    Description: leptin

    Entrez Gene ID: 3952

    SwissProt Acc Number: P41159

    RefSeq: NM_000230

    It was suspected to be CHD related:

    ..Both ischemia and reperfusion induce leptin (LEP) and leptin receptor (LEPR) gene expression. ..

    From PMID: 21584748, in Journal Heart Vessels. , 2012


    References

    There were 5 potential papers with LEP and CHD.

    PMIDTitleJournalsDetails
    21584748 "Leptin, leptin gene and leptin receptor gene polymorphism in heart failure with preserved ejection fraction."Heart and vesselsMore Details
    22100250 Expression of fat mobilizing genes in human epicardial adipose tissue.AtherosclerosisMore Details
    17879022 Are common leptin promoter polymorphisms associated with restenosis after coronary stenting?Heart and vesselsMore Details
    17587397 Genetic variation and decreased risk for obesity in the Atherosclerosis Risk in Communities Study."Diabetes, obesity & metabolism"More Details
    15790583 Abnormal cortical pain processing in patients with cardiac syndrome X.European heart journalMore Details

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



    PPI interactions

    There were totally 10 unique genes interacted with LEP. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CLU Reconstituted Complex12824284 No
    STAT3 Reconstituted Complex12824284 CHD related
    CRP in vitro;in vivo16582918 CHD related
    A2M Reconstituted Complex9724081 No
    HK3 Two-hybrid11068878|11068878 No
    UCN in vitro;in vivo12535698 CHD related
    PRKAA2 in vitro11797013 CHD related
    LEPR in vivo8608603 CHD related
    GHRL in vivo11196643 CHD related
    SIGLEC6 in vitro10428856 No


    Involved FDA drugs

    There was no drug associated with LEP