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: ARG1

    Description: "arginase, liver"

    Entrez Gene ID: 383

    SwissProt Acc Number: P05089

    RefSeq: NM_000045

    It was suspected to be CHD related:

    .."These data support the role of ARG1 in vascular pathophysiology, but the functional mutations remain to be identified."..

    From PMID: 19303401, in Journal Clin Biochem.? , 2009


    References

    There were 1 potential papers with ARG1 and CHD.

    PMIDTitleJournalsDetails
    19303401 Characterization of arginase 1 gene polymorphisms in the Algerian population and association with blood pressure.Clinical biochemistryMore Details

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



    PPI interactions

    There were totally 8 unique genes interacted with ARG1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    ARG2 in vivo11849441 No
    NOS1 in vivo11849441 CHD related
    USP53 Affinity Capture-MS19615732 No
    C12orf44 Affinity Capture-MS20562859 No
    UCHL5 Affinity Capture-MS21800051|21800051 No
    UBC Affinity Capture-MS22118674|21139048 No
    RAD21 Affinity Capture-Western22145905 No
    FLOT1 in vitro17113085 No


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approved;nutraceuticalDB00129L-Ornithine"Used for nutritional supplementation, also for treating dietary shortage or imbalance. It has been claimed that ornithine improves athletic performance, has anabolic effects, has wound-healing effects, and is immuno-enhancing."A05BA06;D11AX16;P01CX03
    experimentalDB019832(S)-Amino-6-Boronohexanoic Acid
    experimentalDB02381Nor-N-Omega-Hydroxy-L-Arginine
    experimentalDB02499Dinor-N(Omega)-Hydroxy-L-Arginine
    experimentalDB02689S-{2-[Amino(Dihydroxy)-Lambda~4~-Sulfanyl]Ethyl}-D-Cysteine
    experimentalDB03144N-Omega-Hydroxy-L-Arginine
    experimentalDB03731S-2-(Boronoethyl)-L-Cysteine
    experimentalDB03904Urea
    experimentalDB04197Descarboxy-nor-N(Omega)-Hydroxy-L-Arginine
    experimentalDB04530"S,S-(2-Hydroxyethyl)Thiocysteine"
    experimentalDB04585DEHYDRO-2(S)-AMINO-6-BORONOHEXANOIC ACID
    experimentalDB04648S-propylamine-L-cysteine