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: AMPD1

    Description: adenosine monophosphate deaminase 1 (isoform M)

    Entrez Gene ID: 270

    SwissProt Acc Number: P23109

    RefSeq: NM_000036

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

    .."In CAD patients, suggestive associations were found in the GR, CNTF and the AMPD1 gene with an improved change in aerobic capacity after three months of training."..

    From PMID: 21967077, in Journal BMC Genet. , 2011


    References

    There were 10 potential papers with AMPD1 and CHD.

    PMIDTitleJournalsDetails
    22984364 A Multinomial Ordinal Probit Model with Singular Value Decomposition Method for a Multinomial Trait.Journal of probability and statisticsMore Details
    21108053 AMPD1 gene mutations are associated with obesity and diabetes in Polish patients with cardiovascular diseases.Journal of applied geneticsMore Details
    21967077 A genetic predisposition score for muscular endophenotypes predicts the increase in aerobic power after training: the CAREGENE study.BMC geneticsMore Details
    19845893 Plasma concentrations of TNF-alpha and its soluble receptors sTNFR1 and sTNFR2 in patients with coronary artery disease.Tissue antigensMore Details
    18855224 Association of C34T AMPD1 gene polymorphism with features of metabolic syndrome in patients with coronary artery disease or heart failure.Scandinavian journal of clinical and laboratory investigationMore Details
    17376785 Augmented hyperaemia and reduced tissue injury in response to ischaemia in subjects with the 34C > T variant of the AMPD1 gene.European heart journalMore Details
    16875916 Evaluation of AMPD1 C34T genotype as a predictor of mortality in heart failure and post-myocardial infarction patients.American heart journalMore Details
    17565237 Association between AMPD1 gene polymorphism and coagulation factors in patients with coronary heart disease.Pathophysiology of haemostasis and thrombosisMore Details
    15882662 AMPD1 (C34T) polymorphism and clinical outcomes in patients undergoing myocardial revascularization.International journal of cardiologyMore Details
    15135700 Role of adenosine monophosphate deaminase-1 gene polymorphism in patients with congestive heart failure (influence on tumor necrosis factor-alpha level and outcome).The American journal of cardiologyMore Details

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



    PPI interactions

    There were totally 6 unique genes interacted with AMPD1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CUL3 Affinity Capture-MS21145461 No
    CUL1 Affinity Capture-MS21145461 No
    COPS5 Affinity Capture-MS21145461 No
    CAND1 Affinity Capture-MS21145461 No
    Htt Affinity Capture-MS17500595 No
    MYH2 in vivo9730972 No


    Involved FDA drugs

    There was no drug associated with AMPD1