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: RETN

    Description: resistin

    Entrez Gene ID: 56729

    SwissProt Acc Number: Q9HD89

    RefSeq: NM_020415

    It was suspected to be CHD related:

    .."The RETN -420C>G and +299G>A polymorphism was more prevalent in cases vs. controls (p<0.0001). The transmission disequilibrium test revealed a significant association of the -420 and +299 polymorphism with CAD ( (2)=34.4, p<0.0001 and (2)=31.6, p<0.0001, respectively)."..

    From PMID: 21382364, in Journal Clin Biochem , 2011


    References

    There were 7 potential papers with RETN and CHD.

    PMIDTitleJournalsDetails
    23755138 "Serum resistin, cardiovascular disease and all-cause mortality in patients with type 2 diabetes."PloS oneMore Details
    22843503 Genome-wide association analysis identifies TYW3/CRYZ and NDST4 loci associated with circulating resistin levels.Human molecular geneticsMore Details
    22577247 Association of the resistin gene promoter region polymorphism with Kawasaki disease in Chinese children.Mediators of inflammationMore Details
    21382364 Heritability of genetic variants of resistin gene in patients with coronary artery disease: a family-based study.Clinical biochemistryMore Details
    19381781 Association of -394C>G and -420C>G polymorphisms in the RETN gene with T2DM and CHD and a new potential SNP might be exist in exon 3 of RETN gene in Chinese.Molecular and cellular biochemistryMore Details
    17727677 A polymorphism in the resistin gene promoter and the risk of coronary artery disease in a Chinese population.Clinical endocrinologyMore Details
    17924842 A polymorphism in the resistin gene promoter is related to increased C-reactive protein levels in patients with coronary artery disease.Clinical chemistry and laboratory medicine : CCLM / FESCCMore Details

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



    PPI interactions

    There were totally 3 unique genes interacted with RETN. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    RETN Reconstituted Complex11358969|11358969|11358969 CHD related
    SF3A2 in vitro8211113 No
    A2M Two-hybrid21163940 No


    Involved FDA drugs

    There was no drug associated with RETN