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: IL8

    Description: interleukin 8

    Entrez Gene ID: 3576

    SwissProt Acc Number: P10145

    RefSeq: NM_000584

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

    .."Compared with controls, gene expression levels of IL1B, IL6, IL8 and MCP-1 increased significantly in group C. The primary data suggested that gene expression was related to CAD."..

    From PMID: 22780915, in Journal BMC Cardiovasc Disord. , 2012


    References

    There were 8 potential papers with IL8 and CHD.

    PMIDTitleJournalsDetails
    23163821 Transcription factor complex AP-1 mediates inflammation initiated by Chlamydia pneumoniae infection.Cellular microbiologyMore Details
    24117069 Anti-inflammatory effects of danshen on human vascular endothelial cells in culture.The American journal of Chinese medicineMore Details
    22780915 A novel multiplex polymerase chain reaction assay for profile analyses of gene expression in peripheral blood.BMC cardiovascular disordersMore Details
    18092353 "Interactions between stainless steel, shear stress, and monocytes."Journal of biomedical materials research. Part AMore Details
    18573392 High-dose insulin therapy attenuates systemic inflammatory response in coronary artery bypass grafting patients.The Annals of thoracic surgeryMore Details
    18309103 Simvastatin reduces Chlamydophila pneumoniae-mediated histone modifications and gene expression in cultured human endothelial cells.Circulation researchMore Details
    17466485 Simvastatin and fluvastatin reduce interleukin-6 and interleukin-8 lipopolysaccharide (LPS) stimulated production by isolated human monocytes from chronic kidney disease patients.Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapieMore Details
    15364876 Differences in gene expression profiles of diabetic and nondiabetic patients undergoing cardiopulmonary bypass and cardioplegic arrest.CirculationMore Details

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



    PPI interactions

    There were totally 17 unique genes interacted with IL8. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    SDC1 Reconstituted Complex12902511 CHD related
    IL8 Reconstituted Complex8077676|2184886|10368283,10707023,1988949,2184886,2681204,9141135 CHD related
    EP300 Affinity Capture-Western11940655 CHD related
    DARC in vitro;in vivo9921412,17416748 No
    PF4 in vitro;in vivo15531763,12586630 CHD related
    GNAI2 in vivo8662698 No
    CXCR1 in vitro;in vivo1840701 CHD related
    CXCR2 Reconstituted Complex9464567 CHD related
    CCL5 Reconstituted Complex11509627 CHD related
    CSNK2A1 Biochemical Activity10764593 CHD related
    tat Affinity Capture-MS18226242|18226242|18226242 No
    RELA Affinity Capture-Western22590978 CHD related
    CTSL1 in vitro12818188 No
    MMP9 in vitro11023497 CHD related
    WASF1 in vitro16862120 No
    IL12A in vitro16862120 CHD related
    CCL4 in vitro8077676 No


    Involved FDA drugs

    There was no drug associated with IL8