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: CCL11

    Description: chemokine (C-C motif) ligand 11

    Entrez Gene ID: 6356

    SwissProt Acc Number: P51671

    RefSeq: NM_002986

    It was suspected to be CHD related:

    .."Eotaxin (CCL11) is a CC chemokine, whose systemic levels might be associated with coronary artery disease (CAD) and genetic variants predispose to the myocardial infarction (MI). In conclusion, our results show that there is no clear association between the presence of eotaxin 67G>A SNP, its plasma levels and CAD parameters in post-MI patients"..

    From PMID: 16510147, in Journal Atherosclerosis , 2006


    References

    There were 7 potential papers with CCL11 and CHD.

    PMIDTitleJournalsDetails
    22773402 "Association between three single nucleotide polymorphisms in eotaxin (CCL 11) gene, hexanucleotide repetition upstream, severity and course of coronary atherosclerosis."Journal of applied geneticsMore Details
    21849651 "Systemic chemokine levels, coronary heart disease, and ischemic stroke events: the PRIME study."NeurologyMore Details
    20536507 "Independent predictive roles of eotaxin Ala23Thr, paraoxonase 2 Ser311Cys and beta-adrenergic receptor Trp64Arg polymorphisms on cardiac disease in Type 2 Diabetes--an 8-year prospective cohort analysis of 1297 patients."Diabetic medicine : a journal of the British Diabetic AssociationMore Details
    19421322 Atorvastatin reduces plasma levels of chemokine (CXCL10) in patients with Crohn's disease.PloS oneMore Details
    17698927 Circulating chemokines accurately identify individuals with clinically significant atherosclerotic heart disease.Physiological genomicsMore Details
    16084515 Association of plasma eotaxin levels with the presence and extent of angiographic coronary artery disease.AtherosclerosisMore Details
    16510147 Influence of eotaxin 67G>A polymorphism on plasma eotaxin concentrations in myocardial infarction survivors and healthy controls.AtherosclerosisMore Details

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



    PPI interactions

    There were totally 9 unique genes interacted with CCL11. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CCL11 Co-purification9712872|9712872 CHD related
    TPI1 yeast 2-hybrid16169070 No
    CCR3 Reconstituted Complex8642344|9712872,8642344,8609214,8676064 CHD related
    NUDT3 Two-hybrid21900206 No
    DPP4 in vitro11390394 CHD related
    CCR2 in vivo11264152 CHD related
    CCR5 in vitro;in vivo11264152,10477718 CHD related
    CCRL1 in vitro10734104 No
    CCBP2 in vivo9405404 No


    Involved FDA drugs

    There was no drug associated with CCL11