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: CCR4

    Description: chemokine (C-C motif) receptor 4

    Entrez Gene ID: 1233

    SwissProt Acc Number: P51679

    RefSeq: NM_005508

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

    .."gene expression of several chemokines (i.e., macrophage inflammatory protein [MIP]-1alpha, MIP-1beta, and interleukin [IL]-8) and chemokine receptors (i.e., CC chemokine receptor [CCR]1, CCR2, CCR4, and CCR5) was markedly increased among CAD patients compared with healthy control subjects; 2)"..

    From PMID: 12742282, in Journal J Am Coll Cardiol , 2003


    References

    There were 3 potential papers with CCR4 and CHD.

    PMIDTitleJournalsDetails
    24134608 The effect of statin therapy withdrawal on monocyte subsets.European journal of clinical investigationMore Details
    22396788 Lymphocyte subpopulations in lymph nodes and peripheral blood: a comparison between patients with stable angina and acute coronary syndrome.PloS oneMore Details
    17015796 The chemokine and chemokine receptor profile of infiltrating cells in the wall of arteries with cardiac allograft vasculopathy is indicative of a memory T-helper 1 response.CirculationMore Details

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



    PPI interactions

    There were totally 8 unique genes interacted with CCR4. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    ADRBK1 Affinity Capture-Western10754297|10754297 CHD related
    ADRBK2 Affinity Capture-Western10754297|10754297 No
    CNOT8 Two-hybrid10637334 No
    CCL5 Reconstituted Complex8573157|12270118,8573157 CHD related
    CCL3 Reconstituted Complex8573157|8573157 CHD related
    CCL17 in vitro;in vivo9430724,9169480 No
    BRCA1 Synthetic Rescue18197258 CHD related
    CCL22 Reconstituted Complex9430724 No


    Involved FDA drugs

    There was no drug associated with CCR4