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: SELPLG

    Description: selectin P ligand

    It was suspected to be CHD related:

    .."P-selectin and P-selectin glycoprotein ligand (SELPLG, selectin P ligand) constitute a receptor/ligand complex that is likely to be involved in the development of atherosclerosis and its complications."..

    From PMID: 14641238, in Journal Ann Hum Genet. , 2003


    References

    There were 2 potential papers with SELPLG and CHD.

    PMIDTitleJournalsDetails
    23906684 Genetic associations with coronary heart disease: meta-analyses of 12 candidate genetic variants.GeneMore Details
    21816455 High levels of platelet-monocyte aggregates after valve replacement for aortic stenosis: relation to soluble P-selectin and P-selectin glycoprotein ligand-1 genes.Thrombosis researchMore Details

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



    PPI interactions

    There were totally 14 unique genes interacted with SELPLG. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    SELPLG Affinity Capture-Western10713099|10713099 CHD related
    SELP Affinity Capture-Western10713099|9128259,10713099,17064811 CHD related
    MSN Reconstituted Complex12115638|12115638 No
    PIK3R1 Affinity Capture-Western17632516 CHD related
    VCAN in vitro;in vivo;yeast 2-hybrid15522894 CHD related
    SYK in vitro12387735 No
    SELE in vitro;in vivo8621728,9128259 CHD related
    TNIP1 Affinity Capture-Western17632516 No
    SELL in vitro;in vivo10725346 CHD related
    GALNT4 in vitro9804815 CHD related
    CTSG in vivo11520793 No
    BACE1 in vitro14507929 No
    TPST1 in vitro17558413 No
    TPST2 in vitro17558413 No


    Involved FDA drugs

    There was no drug associated with SELPLG