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: CXCL2

    Description: chemokine (C-X-C motif) ligand 2

    Entrez Gene ID: 2920

    SwissProt Acc Number: P19875

    RefSeq: NM_002089

    It was suspected to be CHD related:

    .."Recent GWASs have identified several inflammation-related loci associated with CAD risk. These include CXCL2, encoding an atheroprotective chemokine,"..

    From PMID: 22902153, in Journal Can J Cardiol , 2012


    References

    There were 4 potential papers with CXCL2 and CHD.

    PMIDTitleJournalsDetails
    22030025 Enhanced IL-17 signalling following myocardial ischaemia/reperfusion injury.International journal of cardiologyMore Details
    22902153 Inflammation and coronary artery disease: insights from genetic studies.The Canadian journal of cardiologyMore Details
    19162037 CB(2) cannabinoid receptor activation is cardioprotective in a mouse model of ischemia/reperfusion.Journal of molecular and cellular cardiologyMore Details
    16926016 Sequential patterns of chemokine- and chemokine receptor-synthesis following vessel wall injury in porcine coronary arteries.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 CXCL2. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CXCL2 in vitro10600366 CHD related
    PIK3R1 Two-hybrid18624398 CHD related
    COPS5 Affinity Capture-MS21145461 No
    CXCR2 in vitro;in vivo8702798,9260277 CHD related
    CXCR1 in vitro;in vivo9260277 CHD related
    PLG in vivo10928473 No


    Involved FDA drugs

    There was no drug associated with CXCL2