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: NQO1

    Description: "NAD(P)H dehydrogenase, quinone 1"

    Entrez Gene ID: 1728

    SwissProt Acc Number: P15559

    RefSeq: NM_000903

    It was suspected to be CHD related:

    ..Our work concludes that GPx-1 variants might contribute to the development of diabetes and both GPx-1 and NQO1 variants confirm the association of CAD in people with T2DM of South Indian population...

    From PMID: 21989715, in Journal Mol Cell Biochem. , 2012


    References

    There were 4 potential papers with NQO1 and CHD.

    PMIDTitleJournalsDetails
    24315498 Synergistic association of DNA repair relevant gene polymorphisms with the risk of coronary artery disease in northeastern Han Chinese.Thrombosis researchMore Details
    21989715 Genetic association of Glutathione peroxidase-1 (GPx-1) and NAD(P)H:Quinone Oxidoreductase 1(NQO1) variants and their association of CAD in patients with type-2 diabetes.Molecular and cellular biochemistryMore Details
    22685617 Phytochemical activation of Nrf2 protects human coronary artery endothelial cells against an oxidative challenge.Oxidative medicine and cellular longevityMore Details
    18950733 "Polymorphisms in the NQO1, GSTT and GSTM genes are associated with coronary heart disease and biomarkers of oxidative stress."Mutation researchMore Details

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



    PPI interactions

    There were totally 13 unique genes interacted with NQO1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    HSPA4 Affinity Capture-Western11821413 No
    NQO1 Co-crystal Structure10543876|10543876 CHD related
    RPS10P5 Co-fractionation22939629 No
    POLDIP3 Co-fractionation22939629 No
    YTHDF1 Co-fractionation22939629 No
    RPS19 Co-fractionation22939629 No
    ING1 Reconstituted Complex18388957|18388957 No
    STUB1 Biochemical Activity21220432 No
    UBC Affinity Capture-MS21139048|21906983 No
    TP53 Affinity Capture-Western14634213 CHD related
    LAMB1 Co-fractionation22939629 CHD related
    HSPA1A in vitro11821413 CHD related
    DNAJB1 in vitro;in vivo11821413 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approved;nutraceuticalDB00170Menadione"The primary known function of vitamin K is to assist in the normal clotting of blood, but it may also play a role in normal bone calcification."B02BA02
    approvedDB00266DicumarolFor decreasing blood clotting. Often used along with heparin for treatment of deep vein thrombosis.B01AA01
    experimentalDB01927Duroquinone
    experimentalDB02395"3-Hydroxymethyl-5-Aziridinyl-1methyl-2-[1h-Indole-4,7-Dione]-Propanol"
    experimentalDB02400"5-Methoxy-1,2-Dimethyl-3-(4-Nitrophenoxymethyl)Indole-4,7-Dione"
    experimentalDB02633Cibacron Blue
    experimentalDB03147Flavin-Adenine Dinucleotide
    experimentalDB03626"5-Methoxy-1,2-Dimethyl-3-(Phenoxymethyl)Indole-4,7-Dione"
    experimentalDB04090"2,5-Diaziridin-1-Yl-3-(Hydroxymethyl)-6-Methylcyclohexa-2,5-Diene-1,4-Dione"
    experimentalDB04392"Bishydroxy[2h-1-Benzopyran-2-One,1,2-Benzopyrone]"
    experimentalDB07385"3-(HYDROXYMETHYL)-1-METHYL-5-(2-METHYLAZIRIDIN-1-YL)-2-PHENYL-1H-INDOLE-4,7-DIONE"