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: CASR

    Description: calcium-sensing receptor

    Entrez Gene ID: 846

    SwissProt Acc Number: P41180

    RefSeq: NM_000388

    It was suspected to be CHD related:

    .."Serine at position 986 of CASR may be an independent genetic predictor of angiographic CAD, previous MI, and cardiovascular mortality."..

    From PMID: 17374704, in Journal J Clin Endocrinol Metab , 2007


    References

    There were 3 potential papers with CASR and CHD.

    PMIDTitleJournalsDetails
    24120622 The calcium-sensing receptor R990G polymorphism is associated with increased risk of hypertriglyceridemia in obese Chinese.GeneMore Details
    22527939 Increased expression of calcium-sensing receptors in atherosclerosis confers hypersensitivity to acute myocardial infarction in rats.Molecular and cellular biochemistryMore Details
    17374704 "Alanine to serine polymorphism at position 986 of the calcium-sensing receptor associated with coronary heart disease, myocardial infarction, all-cause, and cardiovascular mortality."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 11 unique genes interacted with CASR. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CASR Reconstituted Complex9722601|9722601 CHD related
    CHD8 Affinity Capture-Western19151705 No
    RNF19A Affinity Capture-Western16513638|16513638 No
    UBC Affinity Capture-Western16513638 No
    STAMBP Two-hybrid16854379|16854379 No
    FLNA Two-hybrid11390380|11390380|11390379 No
    VCP Affinity Capture-Western16513638 No
    PRKCA in vitro9694886 CHD related
    PRKCB in vitro;in vivo9694886,12356761 CHD related
    PRKCG in vitro9694886 No
    PI4K2B in vivo11907035 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB01012CinacalcetFor the treatment of secondary hyperparathyroidism in patients with Chronic Kidney Disease who are on hemodialysis or peritoneal dialysis. Also for the treatment of hypercalcemia in patients with parathyroid carcinoma.H05BX01