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: ACP1

    Description: "acid phosphatase 1, soluble"

    Entrez Gene ID: 52

    SwissProt Acc Number: P24666

    RefSeq: NM_001040649

    It was suspected to be CHD related:

    .."The data suggest an interaction between p53 codon 72 and ACP1 wherein a positive effect of the p53 *Pro allele on susceptibility to CAD occurs, //The fact that the association of ACP1 with CAD is evident only in diabetic subjects,"..

    From PMID: 23197232, in Journal Med Sci Monit. , 2012


    References

    There were 3 potential papers with ACP1 and CHD.

    PMIDTitleJournalsDetails
    23811572 Cytosolic Low Molecular Weight Protein-Tyrosine Phosphatase Activity and Clinical Manifestations of Diabetes.The American journal of the medical sciencesMore Details
    20581655 "The interaction of ACP1, ADA1, diabetes and gender in coronary artery disease."The American journal of the medical sciencesMore Details
    19246900 ACP1 genetic polymorphism and coronary artery disease: an association study.CardiologyMore Details

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



    PPI interactions

    There were totally 19 unique genes interacted with ACP1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    SFMBT1 Two-hybrid16189514|16189514 No
    MRPL20 Two-hybrid16169070|16169070 No
    FNBP1L Two-hybrid16169070|16169070 No
    RPL12 Co-fractionation22939629 No
    SPTAN1 in vitro;yeast 2-hybrid11971983 No
    FABP4 in vitro1304913 CHD related
    INSR in vitro1304913 No
    CTNNB1 Co-localization12438242 CHD related
    EPHB1 Affinity Capture-Western9499402|9499402 No
    EPHB2 Affinity Capture-Western9499402 No
    ZAP70 Affinity Capture-Western11976341 No
    KDR Two-hybrid10608891 CHD related
    EPHA2 Affinity Capture-Western12167657 No
    KIAA0101 Affinity Capture-MS21628590 No
    UBC Affinity Capture-MS21139048|21890473|21853274|22505724 No
    CDK2 Affinity Capture-MS21319273 No
    COPS5 Affinity Capture-MS21145461 No
    FYN in vitro;in vivo9038134 No
    LCK in vitro;in vivo9038134 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approved;nutraceuticalDB00173Adenine"For nutritional supplementation, also for treating dietary shortage or imbalance"
    experimentalDB042144-Nitrophenyl Phosphate