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: F2RL3

    Description: coagulation factor II (thrombin) receptor-like 3

    Entrez Gene ID: 9002

    SwissProt Acc Number: Q96RI0

    RefSeq: NM_003950

    It was supported literatures to be a novel CHD related gene:

    ..The results seem to indicate methylation in F2RL3 to be a potential mediator of the detrimental impact of smoking and to be strongly related to mortality among patients with stable coronary heart disease...

    From PMID: 22511653, in Journal EurHeartJ. , 2012


    References

    There were 3 potential papers with F2RL3 and CHD.

    PMIDTitleJournalsDetails
    23640490 Current genetics and epigenetics of smoking/tobacco-related cardiovascular disease."Arteriosclerosis, thrombosis, and vascular biology"More Details
    22511653 "Smoking, F2RL3 methylation, and prognosis in stable coronary heart disease."European heart journalMore Details
    22228373 Polymorphism in the protease-activated receptor-4 gene region associates with platelet activation and perioperative myocardial injury.American journal of hematologyMore Details

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



    PPI interactions

    There were totally 2 unique genes interacted with F2RL3. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    F2 in vitro12732212 CHD related
    F2RL2 in vivo10766244 No


    Involved FDA drugs

    There was no drug associated with F2RL3