ASIA unversity:Item 310904400/12434
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    Please use this identifier to cite or link to this item: http://asiair.asia.edu.tw/ir/handle/310904400/12434


    Title: Investigation of Microarray Data Using Gene Set Enrichment Analysis - Arabidopsis thaliana infected with Xanthomonas campestris pv. campestris
    Authors: Chen, Ching-yi
    Contributors: Department of Biomedical informatics
    Ka-Lok Ng
    Keywords: Arabidopsis;Xanthomonas campestris pv. campestris （Xcc）;microarray;differentially expressed genes;gene set enrichment analysis
    Date: 2012
    Issue Date: 2012-11-18 08:08:12 (UTC+0)
    Publisher: Asia University
    Abstract: Gaining a better understanding of the biotic and abiotic stress responses for plant systems provide a model system for studying human diseases and drug-related research. Understanding how plant systems defense against environment stress is of great significance for the world's food and agricultural production.In this study, the microarray data for Arabidopsis thaliana infected with Xanthomonas campestris pv. campestris （Xcc） is analyzed. Microarray data for Arabidopsis infected with Xcc are retrieved from the ArrayExpress database, where differentially expressed genes （DEGs） and Gene Set Enrichment Analysis (GSEA) for pathogen-resistant pathways are deduced by adopting the R language, Bioconductor and KEGG information. Finally, the found results are validated by published literature.It is found that the SGT1 and HSP90 protein complexes utilize the SKp1 protein in the ubiquitin - proteasome system to regulate the hypersensitivity resistance mechanism, which is mediated by the resistance protein RPM1.Furthermore, DEG results for Xcc under different experimental conditions, as well as bacteria Agrobacterium tumefaciens, are also determined. The mentioned results can be accessed at http://ppi.bioinfo.asia.edu.tw/R_At_xcc/index.htm .
    Appears in Collections:[Department of Biomedical informatics  ] Theses & dissertations

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