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: NPC1L1

    Description: "NPC1 (Niemann-Pick disease, type C1, gene)-like 1"

    Entrez Gene ID: 29881

    SwissProt Acc Number: Q9UHC9

    RefSeq: NM_001101648

    It was suspected to be CHD related:

    .."Homozygotes for the rare alleles also had a significant increase in the risk of CHD events on trial (range of hazard ratios 1.50-1.67; P < 0.02), regardless of the treatment regimen.Our data indicate that variation in the NPC1L1 gene is associated with plasma total and LDL-C levels and CHD risk."..

    From PMID: 19752398, in Journal J Lipid Res. , 2010


    References

    There were 6 potential papers with NPC1L1 and CHD.

    PMIDTitleJournalsDetails
    23406852 [Targets of anti-hyperlipidemia drugs].Zhong nan da xue xue bao. Yi xue ban = Journal of Central South University.More Details
    21862702 "Mechanisms and genetic determinants regulating sterol absorption, circulating LDL levels, and sterol elimination: implications for classification and disease risk."Journal of lipid researchMore Details
    19752398 "Genetic variation at the NPC1L1 gene locus, plasma lipoproteins, and heart disease risk in the elderly."Journal of lipid researchMore Details
    20227438 Molecular pathways and agents for lowering LDL-cholesterol in addition to statins.Pharmacology & therapeuticsMore Details
    20686565 "Biological, clinical and population relevance of 95 loci for blood lipids."NatureMore Details
    14976318 Niemann-Pick C1 Like 1 protein is critical for intestinal cholesterol absorption."Science (New York, N.Y.)"More Details

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



    PPI interactions

    There was NO PPI interaction information about NPC1L1



    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB00973Ezetimibe"For use as adjunctive therapy to diet for the reduction of elevated total-C, LDL-C, and Apo B in patients with primary (heterozygous familial and non-familial) hypercholesterolemia."C10AX09