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: IL10RA

    Description: "interleukin 10 receptor, alpha"

    Entrez Gene ID: 3587

    SwissProt Acc Number: Q13651

    RefSeq: NM_001558

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

    .."Activation of the JAK/STAT pathway is confirmed by the up-regulation of IL-6, STAT1, ISGF3G and IL10RA genes in coronary and carotid plaques."..

    From PMID: 19134193, in Journal BMC Genomics. , 2009


    References

    There were 1 potential papers with IL10RA and CHD.

    PMIDTitleJournalsDetails
    19134193 Reconstruction and functional analysis of altered molecular pathways in human atherosclerotic arteries.BMC genomicsMore Details

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



    PPI interactions

    There were totally 5 unique genes interacted with IL10RA. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    JAK1 Reconstituted Complex12374810|12133952 CHD related
    IL10 Co-purification8248239|11485736,8248239,8897595,11717514,10231374,7759550 CHD related
    BTRC Affinity Capture-Western22087322 No
    UBC Affinity Capture-Western22087322 No
    IL10RB Affinity Capture-Western9312047 No


    Involved FDA drugs

    There was no drug associated with IL10RA