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.

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  • 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.

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  • 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)




    Translational studies of lipoprotein-associated phospholipase A(2) in inflammation and atherosclerosis.
  • Author:"Ferguson, Jane F;Hinkle, Christine C;Mehta, Nehal N;Bagheri, Roshanak;Derohannessian, Stephanie L;Shah, Rhia;Mucksavage, Megan I;Bradfield, Jonathan P;Hakonarson, Hakon;Wang, Xuexia;Master, Stephen R;Rader, Daniel J;Li, Mingyao;Reilly, Muredach P"

  • Published Year:2012

  • Journal:Journal of the American College of Cardiology

  • Abstract:"OBJECTIVES: This study sought to examine the role of lipoprotein-associated phospholipase A(2) (Lp-PLA(2)/PLA2G7) in human inflammation and coronary atherosclerosis. BACKGROUND: Lp-PLA(2) has emerged as a potential therapeutic target in coronary heart disease. Data supporting Lp-PLA(2) are indirect and confounded by species differences; whether Lp-PLA(2) is causal in coronary heart disease remains in question. METHODS: We examined inflammatory regulation of Lp-PLA(2) during experimental endotoxemia in humans, probed the source of Lp-PLA(2) in human leukocytes under inflammatory conditions, and assessed the relationship of variation in PLA2G7, the gene encoding Lp-PLA(2), with coronary artery calcification. RESULTS: In contrast to circulating tumor necrosis factor-alpha and C-reactive protein, blood and monocyte Lp-PLA(2) messenger ribonucleic acid decreased transiently, and plasma Lp-PLA(2) mass declined modestly during endotoxemia. In vitro, Lp-PLA(2) expression increased dramatically during human monocyte to macrophage differentiation and further in inflammatory macrophages and foamlike cells. Despite only a marginal association of single nucleotide polymorphisms in PLA2G7 with Lp-PLA(2) activity or mass, numerous PLA2G7 single nucleotide polymorphisms were associated with coronary artery calcification. In contrast, several single nucleotide polymorphisms in CRP were significantly associated with plasma C-reactive protein levels but had no relation with coronary artery calcification. CONCLUSIONS: Circulating Lp-PLA(2) did not increase during acute phase response in humans, whereas inflammatory macrophages and foam cells, but not circulating monocytes, are major leukocyte sources of Lp-PLA(2). Common genetic variation in PLA2G7 is associated with subclinical coronary atherosclerosis. These data link Lp-PLA(2) to atherosclerosis in humans while highlighting the challenge in using circulating Lp-PLA(2) as a biomarker of Lp-PLA(2) actions in the vasculature."

  • 10.1016/j.jacc.2011.11.019

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