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: ABCG1

    Description: "ATP-binding cassette, sub-family G (WHITE), member 1"

    Entrez Gene ID: 9619

    SwissProt Acc Number: P45844

    RefSeq: NM_004915

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

    ..The two SNPs of the ABCG1 gene might be associated with the susceptibility and severity of CAD in Chinese Han population...

    From PMID: 20931526, in Journal Zhonghua Yi Xue Yi Chuan Xue Za Zhi , 2010


    References

    There were 15 potential papers with ABCG1 and CHD.

    PMIDTitleJournalsDetails
    22402736 Diet-induced weight loss in overweight or obese women and changes in high-density lipoprotein levels and function."Obesity (Silver Spring, Md.)"More Details
    21840418 The HDL proteome in acute coronary syndromes shifts to an inflammatory profile.Biochimica et biophysica actaMore Details
    22363809 Monocyte gene expression signature of patients with early onset coronary artery disease.PloS oneMore Details
    21930241 "Trimerized apolipoprotein A-I (TripA) forms lipoproteins, activates lecithin: cholesterol acyltransferase, elicits lipid efflux, and is transported through aortic endothelial cells."Biochimica et biophysica actaMore Details
    21722899 A polymorphism in the ABCG1 promoter is functionally associated with coronary artery disease in a Chinese Han population.AtherosclerosisMore Details
    22022364 Genome-wide linkage scan of a pedigree with familial hypercholesterolemia suggests susceptibility loci on chromosomes 3q25-26 and 21q22.PloS oneMore Details
    20931526 [Association of the ABCG1 gene polymorphism with the susceptibility and severity of coronary atherosclerotic disease].Zhonghua yi xue yi chuan xue za zhi = Zhonghua yixue yichuanxue zazhi = ChineseMore Details
    20075335 Coffee consumption enhances high-density lipoprotein-mediated cholesterol efflux in macrophages.Circulation researchMore Details
    20374257 Rate-limiting factors of cholesterol efflux in reverse cholesterol transport: acceptors and donors.Clinical and experimental pharmacology & physiologyMore Details
    20138281 "ABC transporters, atherosclerosis and inflammation."AtherosclerosisMore Details
    19539140 "Promoting mechanisms of vascular health: circulating progenitor cells, angiogenesis, and reverse cholesterol transport."Journal of the American College of CardiologyMore Details
    18420105 Antiarrhythmogenic effect of reconstituted high-density lipoprotein against ischemia/reperfusion in rats.Journal of the American College of CardiologyMore Details
    18321997 Heterogeneity of human macrophages in culture and in atherosclerotic plaques.The American journal of pathologyMore Details
    17372331 "Common ABCA1 variants, HDL levels, and cellular cholesterol efflux in subjects with familial low HDL."Journal of lipid researchMore Details
    17521614 Adiponectin accelerates reverse cholesterol transport by increasing high density lipoprotein assembly in the liver.Biochemical and biophysical research communicationsMore Details

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



    PPI interactions

    There were totally 4 unique genes interacted with ABCG1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    UBC Affinity Capture-Western21817095 No
    ABCG1 in vitro;in vivo16870176 CHD related
    ELAVL1 Affinity Capture-RNA19322201 No
    ABCG4 in vitro;in vivo15240127 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approved;nutraceuticalDB00171Adenosine triphosphate"For nutritional supplementation, also for treating dietary shortage or imbalance"