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: SELL

    Description: selectin L

    It was suspected to be CHD related:

    .."Eight genes, namely MMP2, PTGS2, PECAM1, SELP, SELL, CYP1A1, MMRN1, and HSPA1A, were involved in atherosclerosis and myocardial infarction."..

    From PMID: 14641238, in Journal Ann Hum Genet. , 2003


    References

    There were 2 potential papers with SELL and CHD.

    PMIDTitleJournalsDetails
    23459498 31st g. Heiner sell lectureship: secondary medical consequences of spinal cord injury.Topics in spinal cord injury rehabilitationMore Details
    22780915 A novel multiplex polymerase chain reaction assay for profile analyses of gene expression in peripheral blood.BMC cardiovascular disordersMore Details

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



    PPI interactions

    There were totally 16 unique genes interacted with SELL. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    EMCN Affinity Capture-Western15249540 No
    PODXL Affinity Capture-Western9625756|9625756 No
    CFH Reconstituted Complex10377245|10377245 CHD related
    GRB2 Affinity Capture-Western8986819|8986819 CHD related
    MUC7 Reconstituted Complex9538010 No
    VCAN Reconstituted Complex10950950 CHD related
    MSN Reconstituted Complex11706008|11706008 No
    EZR Reconstituted Complex11706008|11706008 No
    SELE Affinity Capture-Luminescence9024699|9024699 CHD related
    PRKCQ Reconstituted Complex15192100 No
    CD4 in vitro7539755 CHD related
    SELPLG in vitro;in vivo10725346 CHD related
    PODXL2 Reconstituted Complex12889478|12889478 No
    UBC Affinity Capture-MS22505724 No
    PRKCA Biochemical Activity15192100|15192100 CHD related
    PRKG1 Biochemical Activity15192100 CHD related


    Involved FDA drugs

    There was no drug associated with SELL