Yezhou Sun

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XML is rapidly emerging on the World Wide Web as a standard for representing and exchanging data. It is critical to have efficient mechanisms to store and query XML documents to exploit the full power of this new technology. While one approach is to develop native XML repositories that support XML data models and query languages directly, the other approach(More)
XML has emerged as the standard for representing and exchanging data on the World Wide Web. It is critical to have efficient mechanisms to store and query XML data to exploit the full power of this new technology. Several researchers have proposed to use relational databases to store and query XML data. While several algorithms of schema mapping and query(More)
BACKGROUND/AIM Diabetes-associated myocardial dysfunction results in altered gene expression in the heart. We aimed to investigate the changes in gene expression profiles accompanying diabetes-induced cardiomyopathy and its phenotypic rescue by restoration of SERCA2a expression. METHODS/RESULTS Using the Otsuka Long-Evans Tokushima Fatty rat model of type(More)
We developed an RNA-Seq-based method to simultaneously capture prokaryotic and eukaryotic expression profiles of cells infected with intracellular bacteria. As proof of principle, this method was applied to Chlamydia trachomatis-infected epithelial cell monolayers in vitro, successfully obtaining transcriptomes of both C. trachomatis and the host cells at 1(More)
  • Kavita Bhalla, Wan-Ju Liu, Keyata Thompson, Lars Anders, Srikripa Devarakonda, Ruby Dewi +7 others
  • 2014
Hepatic gluconeogenesis is crucial to maintain normal blood glucose during periods of nutrient deprivation. Gluconeogenesis is controlled at multiple levels by a variety of signal transduction and transcriptional pathways. However, dysregulation of these pathways leads to hyperglycemia and type 2 diabetes. While the effects of various signaling pathways on(More)
Recently, XML has emerged as a standard for representing and exchanging data on the World Wide Web. As a result, there is a trend of increasing amount of XML documents that publish information on the Web from various data sources. A Document Type Definition (DTD) describes the structure of a set of similar XML documents and serves as the schema for XML(More)
Numerous methods exist for enriching bacterial or mammalian mRNA prior to transcriptome experiments. Yet there persists a need for methods to enrich for mRNA in non-mammalian animal systems. For example, insects contain many important and interesting obligate intracellular bacteria, including endosymbionts and vector-borne pathogens. Such obligate(More)
Chromatin compactness has been considered a major determinant of gene activity and has been associated with specific chromatin modifications in studies on a few individual genetic loci. At the same time, genome-wide patterns of open and closed chromatin have been understudied, and are at present largely predicted from chromatin modification and gene(More)
  • Jessica Shiu, Steven J. Czinn, Koichi S. Kobayashi, Yezhou Sun, Thomas G. Blanchard
  • 2013
Helicobacter pylori (H. pylori) infects the gastric mucosa and persists for the life of the host. Bacterial persistence may be due to the induction of regulatory T cells (Tregs) whichmay have protective effects against other diseases such as asthma. It has been shown that H. pylori modulates the T cell response through dendritic cell reprogramming but the(More)
Nucleosomes are the building blocks of chromatin where gene regulation takes place. Chromatin landscapes have been profiled for several species, providing insights into the fundamental mechanisms of chromatin-mediated transcriptional regulation of gene expression. However, knowledge is missing for several major and deep-branching eukaryotic groups, such as(More)