A Novel Knowledge-driven Systems Biology Approach for Phenotype Prediction Upon Genetic Intervention.
01/2010; pp.724-733 In proceeding of: International Conference on Bioinformatics & Computational Biology, BIOCOMP 2010, July 12-15, 2010, Las Vegas Nevada, USA, 2 Volumes
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ABSTRACT: Generation of induced pluripotent stem cells (iPSCs) opens a new avenue in regenerative medicine. One of the major hurdles for therapeutic applications is to improve the efficiency of generating iPSCs and also to avoid the tumorigenicity, which requires searching for new reprogramming recipes. We present a systems biology approach to efficiently evaluate a large number of possible recipes and find those that are most effective at generating iPSCs. We not only recovered several experimentally confirmed recipes but we also suggested new ones that may improve reprogramming efficiency and quality. In addition, our approach allows one to estimate the cell-state landscape, monitor the progress of reprogramming, identify important regulatory transition states, and ultimately understand the mechanisms of iPSC generation.PLoS Computational Biology 12/2011; 7(12):e1002300. · 5.22 Impact Factor
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