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: ABCG5

    Description: "ATP-binding cassette, sub-family G (WHITE), member 5"

    Entrez Gene ID: 64240

    SwissProt Acc Number: Q9H222

    RefSeq: NM_022436

    It was suspected to be CHD related:

    .."In our replication study of 24 promising common variants, we identified novel associations of variants in or near LIPA, IL5, TRIB1, and ABCG5/ABCG8, with per-allele odds ratios for CAD risk with each of the novel variants ranging from 1.06-1.09."..

    From PMID: 21966275, in Journal PLoS Genet. , 2011


    References

    There were 12 potential papers with ABCG5 and CHD.

    PMIDTitleJournalsDetails
    23926302 Platelet hyperreactivity explains the bleeding abnormality and macrothrombocytopenia in a murine model of sitosterolemia.BloodMore Details
    23025809 Essential role of transient receptor potential vanilloid type 1 in evodiamine-mediated protection against atherosclerosis."Acta physiologica (Oxford, England)"More Details
    21860704 Implications of discoveries from genome-wide association studies in current cardiovascular practice.World journal of cardiologyMore Details
    21576934 A phytosterolemia patient presenting exclusively with macrothrombocytopenia and stomatocytic hemolysis.Acta haematologicaMore Details
    20138281 "ABC transporters, atherosclerosis and inflammation."AtherosclerosisMore Details
    19217458 The metabolism of plant sterols is disturbed in postmenopausal women with coronary artery disease.Metabolism: clinical and experimentalMore Details
    19060911 Loci influencing lipid levels and coronary heart disease risk in 16 European population cohorts.Nature geneticsMore Details
    17483372 Update on dyslipidemia.The Journal of clinical endocrinology and metabolismMore Details
    16472606 Liver transplantation in a patient with sitosterolemia and cirrhosis.GastroenterologyMore Details
    15599566 Sitosterolemia--a rare disease. Are elevated plant sterols an additional risk factor?Zeitschrift fur KardiologieMore Details
    15030301 Primary hypercholesterolemia: genetic causes and treatment of five monogenic disorders.Expert review of cardiovascular therapyMore Details
    11138003 "Identification of a gene, ABCG5, important in the regulation of dietary cholesterol absorption."Nature geneticsMore Details

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



    PPI interactions

    There were totally 1 unique genes interacted with ABCG5. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    ABCG8 Affinity Capture-Western12208867 CHD related


    Involved FDA drugs

    There was no drug associated with ABCG5