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.

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  • 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.

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  • 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: CCL3

    Description: chemokine (C-C motif) ligand 3

    Entrez Gene ID: 6348

    SwissProt Acc Number: P10147

    RefSeq: NM_002983

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

    .."Since CCL3 specifically predicts future cardiovascular events, it may serve as a predictive biomarker."..

    From PMID: 18619972, in Journal J Mol Cell Cardiol. , 2008


    References

    There were 4 potential papers with CCL3 and CHD.

    PMIDTitleJournalsDetails
    23557933 One-year supplementation with a grape extract containing resveratrol modulates inflammatory-related microRNAs and cytokines expression in peripheral blood mononuclear cells of type 2 diabetes and hypertensive patients with coronary artery disease.Pharmacological research : the official journal of the Italian PharmacologicalMore Details
    19162037 CB(2) cannabinoid receptor activation is cardioprotective in a mouse model of ischemia/reperfusion.Journal of molecular and cellular cardiologyMore Details
    18619972 CCL3 (MIP-1 alpha) levels are elevated during acute coronary syndromes and show strong prognostic power for future ischemic events.Journal of molecular and cellular cardiologyMore Details
    17698927 Circulating chemokines accurately identify individuals with clinically significant atherosclerotic heart disease.Physiological genomicsMore Details

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



    PPI interactions

    There were totally 9 unique genes interacted with CCL3. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CCR5 Reconstituted Complex11700073 CHD related
    CCL3 Reconstituted Complex8077676|8460127 CHD related
    CCL4 Affinity Capture-MS11278300 No
    SRGN in vivo8613703 No
    CCR4 Reconstituted Complex8573157|8573157 CHD related
    CEBPB in vivo9885903 No
    TGFB1 in vivo8568261 CHD related
    CCR1 in vitro;in vivo10660125,10202040,7545673 CHD related
    CCR3 in vitro7594543 CHD related


    Involved FDA drugs

    There was no drug associated with CCL3