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: GAS6

    Description: growth arrest-specific 6

    Entrez Gene ID: 2621

    SwissProt Acc Number: Q14393

    RefSeq: NM_000820

    It was suspected to be CHD related:

    .."In addition, the AA genotype and A allele of the GAS6 gene relate to ACS, which may have a protective role against ACS."..

    From PMID: 19369636, in Journal Am J Clin Pathol , 2009


    References

    There were 1 potential papers with GAS6 and CHD.

    PMIDTitleJournalsDetails
    19369636 Plasma level of growth arrest-specific 6 (GAS6) protein and genetic variations in the GAS6 gene in patients with acute coronary syndrome.American journal of clinical pathologyMore Details

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



    PPI interactions

    There were totally 4 unique genes interacted with GAS6. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    MERTK Reconstituted Complex8939948 No
    AXL Reconstituted Complex8939948|8621659,16362042 No
    TYRO3 Reconstituted Complex8621659 No
    UBC Affinity Capture-MS21139048 No


    Involved FDA drugs

    There was no drug associated with GAS6