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: RGS5

    Description: regulator of G-protein signaling 5

    Entrez Gene ID: 8490

    SwissProt Acc Number: O15539

    RefSeq: NM_003617

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

    ..The association between loss of expression and arterial wall disease has prompted the new hypothesis that prolonged inhibition by RGS5 of vasoactive or trophic G protein signaling is critical to normal peripheral artery function...

    From PMID: 15337883, in Journal J Vasc Surg. , 2004


    References

    There were 2 potential papers with RGS5 and CHD.

    PMIDTitleJournalsDetails
    17236131 Multiple genes for essential-hypertension susceptibility on chromosome 1q.American journal of human geneticsMore Details
    15337883 Regulator of G protein signaling 5 marks peripheral arterial smooth muscle cells and is downregulated in atherosclerotic plaque.Journal of vascular surgeryMore Details

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



    PPI interactions

    There were totally 6 unique genes interacted with RGS5. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    GNAI3 Reconstituted Complex9079700|11253162|9079700 No
    GNAI2 Reconstituted Complex9079700|11253162|9079700 No
    GNAO1 Reconstituted Complex9079700|11253162|9079700 No
    GNAI1 Affinity Capture-Western11253162 CHD related
    GNAQ Affinity Capture-Western11253162|11253162 CHD related
    APP Reconstituted Complex21832049 No


    Involved FDA drugs

    There was no drug associated with RGS5