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: FGF21

    Description: fibroblast growth factor 21

    Entrez Gene ID: 26291

    SwissProt Acc Number: Q9NSA1

    RefSeq: NM_019113

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

    ..serum FGF21 has been implicated as a potential biomarker for the early detection of these cardiometabolic disorders. ..

    From PMID: 23134073, in Journal Clin Endocrinol (Oxf) , 2012


    References

    There were 5 potential papers with FGF21 and CHD.

    PMIDTitleJournalsDetails
    23278761 "Serum FGF21 concentration is associated with hypertriglyceridaemia, hyperinsulinaemia and pericardial fat accumulation, independently of obesity, but not with current coronary artery status."Clinical endocrinologyMore Details
    23887638 Serum fibroblast growth factor-21 levels are associated with carotid atherosclerosis independent of established cardiovascular risk factors."Arteriosclerosis, thrombosis, and vascular biology"More Details
    23134073 Fibroblast growth factor 21 as an emerging metabolic regulator: clinical perspectives.Clinical endocrinologyMore Details
    23981342 Additive relationship between serum fibroblast growth factor 21 level and coronary artery disease.Cardiovascular diabetologyMore Details
    23064833 Cardioprotective proteins upregulated in the liver in response to experimental myocardial ischemia.American journal of physiology. Heart and circulatory physiologyMore Details

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



    PPI interactions

    There were totally 3 unique genes interacted with FGF21. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    KLB in vitro19059246 No
    NEDD4 Reconstituted Complex19953087 No
    ELAVL1 Affinity Capture-RNA19322201 No


    Involved FDA drugs

    There was no drug associated with FGF21