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: CELSR2

    Description: "cadherin, EGF LAG seven-pass G-type receptor 2 (flamingo homolog, Drosophila)"

    Entrez Gene ID: 1952

    SwissProt Acc Number: Q9HCU4

    RefSeq: NM_001408

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

    .."Four of the polymorphisms (in APOC1, CELSR2, SCARB1, ZNF259), but not PLA2G7, were significantly associated with CHD in a second study."..

    From PMID: 22003152, in Journal Eur Heart J. , 2012


    References

    There were 9 potential papers with CELSR2 and CHD.

    PMIDTitleJournalsDetails
    24005217 From genotype to phenotype in human atherosclerosis--recent findings.Current opinion in lipidologyMore Details
    23404648 An association study between genetic polymorphisms related to lipoprotein-associated phospholipase A(2) and coronary heart disease.Experimental and therapeutic medicineMore Details
    22003152 Eight genetic loci associated with variation in lipoprotein-associated phospholipase A2 mass and activity and coronary heart disease: meta-analysis of genome-wide association studies from five community-based studies.European heart journalMore Details
    21860704 Implications of discoveries from genome-wide association studies in current cardiovascular practice.World journal of cardiologyMore Details
    20864672 Genetic variants influencing circulating lipid levels and risk of coronary artery disease."Arteriosclerosis, thrombosis, and vascular biology"More Details
    18649068 The novel genetic variant predisposing to coronary artery disease in the region of the PSRC1 and CELSR2 genes on chromosome 1 associates with serum cholesterol."Journal of molecular medicine (Berlin, Germany)"More Details
    18462017 Mapping the genetic architecture of gene expression in human liver.PLoS biologyMore Details
    18179892 Genome-wide association study identifies genes for biomarkers of cardiovascular disease: serum urate and dyslipidemia.American journal of human geneticsMore Details
    18193044 "Six new loci associated with blood low-density lipoprotein cholesterol, high-density lipoprotein cholesterol or triglycerides in humans."Nature geneticsMore Details

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



    PPI interactions

    There were totally 5 unique genes interacted with CELSR2. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    GARS yeast 2-hybrid16169070 No
    PHF10 yeast 2-hybrid16169070 No
    RYK Affinity Capture-MS21875946 No
    UBC Affinity Capture-MS21906983 No
    KLF6 yeast 2-hybrid16169070 No


    Involved FDA drugs

    There was no drug associated with CELSR2