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: PRL

    Description: prolactin

    Entrez Gene ID: 5617

    SwissProt Acc Number: P01236

    RefSeq: NM_000948

    It was suspected to be CHD related:

    .."Elevated systemic prolactin levels do not predict CAD in the general population. However, prolactin receptors were found in human coronary artery plaques. This observation may indicate a role of prolactin within atherosclerotic plaques."..

    From PMID: 20031611, in Journal Circ Cardiovasc Genet , 2009


    References

    There were 4 potential papers with PRL and CHD.

    PMIDTitleJournalsDetails
    24146100 Study of molecular mechanism of Prostaglandin E1 in inhibiting coronary heart disease.Molecular biology reportsMore Details
    22307461 Circulating microparticles as indicators of peripartum cardiomyopathy.European heart journalMore Details
    19272447 Chemical and immunochemical identification of propanoyllysine derived from oxidized n-3 polyunsaturated fatty acid.Free radical biology & medicineMore Details
    15513313 Cardioprotection afforded by ischemic preconditioning interferes with chronic beta-blocker treatment.Scandinavian cardiovascular journal : SCJMore Details

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



    PPI interactions

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

    Gene nameInteraction typereference PMIDCHD relation
    PPIB Affinity Capture-Western10935542|10935542|10935542|10935542 No
    PRLR in vitro;in vivo9626554,10966654,7984244 No
    UBQLN4 Two-hybrid11162551 No


    Involved FDA drugs

    There was no drug associated with PRL