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: ADAM17

    Description: ADAM metallopeptidase domain 17

    Entrez Gene ID: 6868

    SwissProt Acc Number: P78536

    RefSeq: NM_003183

    It was suspected to be CHD related:

    .."Two newly identified polymorphisms, obtained by a systematic sequencing of the ADAM17 gene, C-154A and Ser747leu, slightly influence respectively sTNF plasma levels and the risk of cardiovascular death."..

    From PMID: 18600307, in Journal J Mol Med (Berl) , 2008


    References

    There were 2 potential papers with ADAM17 and CHD.

    PMIDTitleJournalsDetails
    21938018 LOX-1 abrogation reduces cardiac hypertrophy and collagen accumulation following chronic ischemia in the mouse.Gene therapyMore Details
    18600307 Polymorphisms of the tumor necrosis factor-alpha (TNF) and the TNF-alpha converting enzyme (TACE/ADAM17) genes in relation to cardiovascular mortality: the AtheroGene study."Journal of molecular medicine (Berlin, Germany)"More Details

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



    PPI interactions

    There were totally 15 unique genes interacted with ADAM17. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    DLG1 Two-hybrid12668732|12668732|12668732 No
    MAPK1 Reconstituted Complex12058067|12058067 CHD related
    NOTCH1 in vitro;in vivo10882063,9620803 CHD related
    TNF in vitro;in vivo12135369,10799478 CHD related
    ERBB4 in vitro15534001 No
    TGFA in vitro11823465 No
    PTPN3 in vitro;in vivo;yeast 2-hybrid12207026 No
    FHL2 in vitro;in vivo;yeast 2-hybrid16619241 No
    MAD2L1 Two-hybrid10527948|10527948 No
    TIMP3 Reconstituted Complex12044879 CHD related
    UBC Affinity Capture-MS21890473|21906983 No
    FBXO6 Affinity Capture-MS22268729 No
    MAD2L2 in vitro;in vivo10527948 No
    SH3D19 in vivo15280379 No
    TNFSF11 in vivo10224132 CHD related


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    experimentalDB06943(3S)-1-{[4-(BUT-2-YN-1-YLOXY)PHENYL]SULFONYL}PYRROLIDINE-3-THIOL
    experimentalDB070793-{[4-(but-2-yn-1-yloxy)phenyl]sulfonyl}propane-1-thiol
    experimentalDB07121"4-({4-[(4-AMINOBUT-2-YNYL)OXY]PHENYL}SULFONYL)-N-HYDROXY-2,2-DIMETHYLTHIOMORPHOLINE-3-CARBOXAMIDE"
    experimentalDB07145(2R)-N-HYDROXY-2-[(3S)-3-METHYL-3-{4-[(2-METHYLQUINOLIN-4-YL)METHOXY]PHENYL}-2-OXOPYRROLIDIN-1-YL]PROPANAMIDE
    experimentalDB07147"methyl (1R,2S)-2-(hydroxycarbamoyl)-1-{4-[(2-methylquinolin-4-yl)methoxy]benzyl}cyclopropanecarboxylate"
    experimentalDB07189"(1S,3R,6S)-4-oxo-6-{4-[(2-phenylquinolin-4-yl)methoxy]phenyl}-5-azaspiro[2.4]heptane-1-carboxylic acid"
    experimentalDB07233N-{[4-(but-2-yn-1-yloxy)phenyl]sulfonyl}-5-methyl-D-tryptophan
    experimentalDB07964"(3S)-4-{[4-(BUT-2-YNYLOXY)PHENYL]SULFONYL}-N-HYDROXY-2,2-DIMETHYLTHIOMORPHOLINE-3-CARBOXAMIDE"