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: CCL3L1

    Description: chemokine (C-C motif) ligand 3-like 1

    Entrez Gene ID: 6349

    SwissProt Acc Number: P16619

    RefSeq: NM_021006

    It was supported literatures to be a novel CHD related gene:

    ..Genetic variations in the receptor-ligand pair CCR5 and CCL3L1 are important determinants of susceptibility to Kawasaki disease...

    From PMID: 15962231, in Journal J Infect Dis. , 2005


    References

    There were 3 potential papers with CCL3L1 and CHD.

    PMIDTitleJournalsDetails
    22450355 Variations in the number of CCL3L1 gene copies and Kawasaki disease in Korean children.Pediatric cardiologyMore Details
    20628649 "Association of CCR2-CCR5 haplotypes and CCL3L1 copy number with Kawasaki Disease, coronary artery lesions, and IVIG responses in Japanese children."PloS oneMore Details
    15962231 Genetic variations in the receptor-ligand pair CCR5 and CCL3L1 are important determinants of susceptibility to Kawasaki disease.The Journal of infectious diseasesMore Details

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



    PPI interactions

    There were totally 4 unique genes interacted with CCL3L1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CCR5 Reconstituted Complex11734558|11449371|11734558,11449371 CHD related
    CCR1 Reconstituted Complex11449371|11449371 CHD related
    CCR3 Reconstituted Complex11449371|11449371 CHD related
    DPP4 in vitro;in vivo10961862,11390394 CHD related


    Involved FDA drugs

    There was no drug associated with CCL3L1