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: MC4R

    Description: melanocortin 4 receptor

    Entrez Gene ID: 4160

    SwissProt Acc Number: P32245

    RefSeq: NM_005912

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

    .."Implication of genetic variants near TMEM18, BCDIN3D/FAIM2, and MC4R with?coronary?artery disease and obesity in Chinese: a?angiography-based study."..

    From PMID: 21625854, in Journal Mol Biol Rep. , 2012


    References

    There were 6 potential papers with MC4R and CHD.

    PMIDTitleJournalsDetails
    21625854 "Implication of genetic variants near TMEM18, BCDIN3D/FAIM2, and MC4R with coronary artery disease and obesity in Chinese: a angiography-based study."Molecular biology reportsMore Details
    22643178 A novel missense mutation in the signal peptide of the human POMC gene: a possible additional link between early-onset type 2 diabetes and obesity.European journal of human genetics : EJHGMore Details
    20371568 Genetic and pharmacologic blockade of central melanocortin signaling attenuates cardiac cachexia in rodent models of heart failure.The Journal of endocrinologyMore Details
    19955787 Gene-environment interactions in obesity.Forum of nutritionMore Details
    17587397 Genetic variation and decreased risk for obesity in the Atherosclerosis Risk in Communities Study."Diabetes, obesity & metabolism"More Details
    16278267 The 103I variant of the melanocortin 4 receptor is associated with low serum triglyceride levels.The Journal of clinical endocrinology and metabolismMore Details

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



    PPI interactions

    There were totally 9 unique genes interacted with MC4R. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    ATRNL1 Two-hybrid14531729|14531729 No
    AGRP Reconstituted Complex12815165|10318826|10318826,11747427,12815165 No
    POMC Reconstituted Complex11101306|9058374|12165561,11101306 No
    MGRN1 Affinity Capture-Western19737927 No
    ADRBK1 in vitro12639913 CHD related
    MC1R in vitro;in vivo12165561 No
    NPY in vitro;in vivo12015205 CHD related
    ASIP in vitro9058374 No
    PRKACA in vitro12639913 CHD related


    Involved FDA drugs

    There was no drug associated with MC4R