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: CCL18

    Description: chemokine (C-C motif) ligand 18 (pulmonary and activation-regulated)

    Entrez Gene ID: 6362

    SwissProt Acc Number: P55774

    RefSeq: NM_002988

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

    .."Chemokines CCL3/MIP1 , CCL5/RANTES and CCL18/PARC are independent risk predictors of short-term mortality in patients with acute coronary syndromes."..

    From PMID: 23029252, in Journal PLoS One. , 2012


    References

    There were 3 potential papers with CCL18 and CHD.

    PMIDTitleJournalsDetails
    21764664 Transcriptional fingerprint of human whole blood at the site of coronary occlusion in acute myocardial infarction.EuroIntervention : journal of EuroPCR in collaboration with the Working Group on More Details
    20674579 Cardiovascular determinants and prognostic significance of CC Chemokine Ligand-18 (CCL18/PARC) in patients with stable coronary artery disease.Journal of molecular and cellular cardiologyMore Details
    19036375 Expression of chemokine (C-C motif) ligand 18 in human macrophages and atherosclerotic plaques.AtherosclerosisMore Details

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



    PPI interactions

    There were totally 6 unique genes interacted with CCL18. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    C14orf1 Two-hybrid16169070|16169070 No
    TLE1 Two-hybrid16169070 No
    CRMP1 Two-hybrid16169070 No
    TP53 Two-hybrid16169070 CHD related
    UNC119 Two-hybrid16169070|16169070 No
    EEF1A1 Two-hybrid16169070 No


    Involved FDA drugs

    There was no drug associated with CCL18