Background: Microarray technology is generating huge amounts of data about the expression level of thousands of genes, or even whole genomes, across different experimental conditi...
MicroRNAs (miRNAs) regulate a large proportion of mammalian genes by hybridizing to targeted messenger RNAs (mRNAs) and down-regulating their translation into protein. Although mu...
In this study, we combined the ChIP-seq and the transcriptome data and integrated these data into signaling cascades. Integration was realized through a framework based on data- a...
We present a novel classification-based algorithm called GeneClass for learning to predict gene regulatory response. Our approach is motivated by the hypothesis that in simple orga...
Manuel Middendorf, Anshul Kundaje, Chris Wiggins, ...
Background: Boolean network (BN) modeling is a commonly used method for constructing gene regulatory networks from time series microarray data. However, its major drawback is that...