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: COMT

    Description: catechol-O-methyltransferase

    Entrez Gene ID: 1312

    SwissProt Acc Number: P21964

    RefSeq: NM_000754

    It was suspected to be CHD related:

    .."The functional SNP in the COMT gene associated with the severity of atherosclerosis in a Japanese elderly population, whereby the influence of the genotype appears to be stronger in females than in males."..

    From PMID: 22790479, in Journal J Atheroscler Thromb , 2012


    References

    There were 5 potential papers with COMT and CHD.

    PMIDTitleJournalsDetails
    18545092 Val/Met polymorphism of the COMT gene moderates the association between job strain and early atherosclerosis in young men.Journal of occupational and environmental medicine / American College ofMore Details
    17264883 "Functional COMT Val158Met polymorphism, risk of acute coronary events and serum homocysteine: the Kuopio ischaemic heart disease risk factor study."PloS oneMore Details
    17205121 Catechol-o-methyltransferase gene polymorphism modifies the effect of coffee intake on incidence of acute coronary events.PloS oneMore Details
    15614425 "The COMT inhibitor, entacapone, reduces levodopa-induced elevations in plasma homocysteine in healthy adult rats.""Journal of neural transmission (Vienna, Austria : 1996)"More Details
    15486358 Exercise training improves overall physical fitness and quality of life in older women with coronary artery disease.ChestMore Details

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



    PPI interactions

    There were totally 7 unique genes interacted with COMT. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    XRN2 Two-hybrid15231747 No
    TRIP13 Two-hybrid16189514|16189514 No
    LITAF yeast 2-hybrid16169070 No
    ACE in vivo12729939 CHD related
    RGS2 Two-hybrid21900206 No
    KIAA0101 Affinity Capture-MS21628590 No
    UBC Affinity Capture-MS21139048|21890473|21906983|22053931|22505724 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approved;nutraceuticalDB00118S-Adenosylmethionine"S-Adenosylmethionine (SAMe) is used as a drug in Europe for the treatment of depression, liver disorders, fibromyalgia, and osteoarthritis. It has also been introduced into the United States market as a dietary supplement for the support of bone and joint health, as well as mood and emotional well being."
    approved;withdrawnDB00323TolcaponeUsed as an adjunct to levodopa/carbidopa therapy for the symptomatic treatment of Parkinson's Disease. This drug is generally reserved for patients with parkinsonian syndrome receiving levodopa/carbidopa who are experiencing symptom fluctuations and are not responding adequately to or are not candidates for other adjunctive therapies.N04BX01
    approvedDB00494Entacapone"Used as an adjunct to levodopa / carbidopa in the symptomatic treatment of patients with idiopathic Parkinson's Disease who experience the signs and symptoms of end-of-dose ""wearing-off""."N04BX02
    experimentalDB02105"3,5-Dinitrocatechol"
    experimentalDB03336BIA
    experimentalDB03907"N-{3-[5-(6-Amino-Purin-9-Yl)-3,4-Dihydroxy-Tetrahydro-Furan-2-Yl]-Allyl}-2,3-Dihydroxy-5-Nitro-Benzamide"
    withdrawnDB04820NialamideN06AF02
    experimentalDB07462"(3,4-DIHYDROXY-2-NITROPHENYL)(PHENYL)METHANONE"
    experimentalDB08049"7,8-dihydroxy-4-phenyl-2H-chromen-2-one"