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: CCL7

    Description: chemokine (C-C motif) ligand 7

    Entrez Gene ID: 6354

    SwissProt Acc Number: P80098

    RefSeq: NM_006273

    It was suspected to be CHD related:

    .."We simultaneously measured serum levels of seven chemokines [CXCL10 (IP-10), CCL11 (eotaxin), CCL3 (MIP1 alpha), CCL2 (MCP1), CCL8 (MCP2), CCL7 (MCP3), and CCL13 (MCP4)] ( as features to build predictive model for diagnosis of CAD)"..

    From PMID: 17698927, in Journal Physiol Genomics , 2007


    References

    There were 1 potential papers with CCL7 and CHD.

    PMIDTitleJournalsDetails
    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 17 unique genes interacted with CCL7. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    FEZ1 Two-hybrid16169070|16169070 No
    CCL7 Co-crystal Structure9109648|9109648 CHD related
    MMP2 Two-hybrid10947989|10947989|10947989|10947989|10947989,12149192 CHD related
    CCBP2 Reconstituted Complex9405404|9364936,9405404 No
    CCR1 Reconstituted Complex8530354|8530354,7545673 CHD related
    CCR3 Reconstituted Complex8642344|8642344 CHD related
    ELAVL1 Affinity Capture-RNA19322201 No
    DARC in vivo13679391 No
    MMP1 in vitro;in vivo12149192,10947989 CHD related
    AES yeast 2-hybrid16169070 No
    MMP3 in vitro;in vivo12149192,10947989 CHD related
    MMP13 in vitro;in vivo12149192,10947989 CHD related
    CCR10 in vivo9364936 No
    MMP14 in vitro;in vivo12149192,10947989 CHD related
    CCR2 in vitro8530354 CHD related
    CCR5 in vitro10477718 CHD related
    CCRL1 in vitro10734104 No


    Involved FDA drugs

    There was no drug associated with CCL7