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: CCR7

    Description: chemokine (C-C motif) receptor 7

    Entrez Gene ID: 1236

    SwissProt Acc Number: P32248

    RefSeq: NM_001838

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

    .."CD4(+)CCR7(+) T cells were specifically depleted from peripheral blood during the first 30 min of myocardial reperfusion after PPCI, suggesting a potential role for the chemokine receptor CCR7 in T-cell redistribution to either peripheral tissues or migration to the infarcted heart during ischemia/reperfusion following PPCI."..

    From PMID: 23077561, in Journal PLoS One. , 2012


    References

    There were 6 potential papers with CCR7 and CHD.

    PMIDTitleJournalsDetails
    23912984 Laser capture microdissection for analysis of macrophage gene expression from atherosclerotic lesions."Methods in molecular biology (Clifton, N.J.)"More Details
    23077561 High-throughput 13-parameter immunophenotyping identifies shifts in the circulating T-cell compartment following reperfusion in patients with acute myocardial infarction.PloS oneMore Details
    18243370 Blood dendritic cell levels and phenotypic characteristics in relation to etiology of end-stage heart failure: implications for dilated cardiomyopathy.International journal of cardiologyMore Details
    18321997 Heterogeneity of human macrophages in culture and in atherosclerotic plaques.The American journal of pathologyMore Details
    17170367 Enhanced expression of the homeostatic chemokines CCL19 and CCL21 in clinical and experimental atherosclerosis: possible pathogenic role in plaque destabilization."Arteriosclerosis, thrombosis, and vascular biology"More Details
    16456237 Altered chemokine receptor profile on circulating leukocytes in human heart failure.Cell biochemistry and biophysicsMore Details

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



    PPI interactions

    There were totally 3 unique genes interacted with CCR7. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    CCL19 Reconstituted Complex9153236 CHD related
    CCR10 in vitro10706668 No
    CCL21 in vivo9507024,9585422 CHD related


    Involved FDA drugs

    There was no drug associated with CCR7