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Various methods of reconstructing transcriptional regulatory networks infer transcriptional regulatory interactions (TRIs) between strongly coexpressed gene pairs (as determined from microarray experiments measuring mRNA levels). Alternatively, however, the coexpression of two genes might imply that they are coregulated by one or more transcription factors(More)
Epigenetic modifications to histones may promote either activation or repression of the transcription of nearby genes. Recent experimental studies show that the promoters of many lineage-control genes in stem cells have "bivalent domains" in which the nucleosomes contain both active (H3K4me3) and repressive (H3K27me3) marks. It is generally agreed that(More)
  • Wai Lim Ku, Dissertation Directed, +14 authors Wolfgang
  • 2014
In this thesis, which consists of three parts, we investigate problems related to systems biology and collective behavior in complex systems. The first part studies genetic networks that are inferred using gene expression data. Here we use established transcriptional regulatory interactions (TRIs) in combination with microarray expression data from both(More)
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