Functional RNAs (fRNAs) play a key role in gene regulation, at both the transcriptional and translational levels. Identification of fRNA genes can be difficult, given that some cla...
We develop a method for integrating time series expression profiles and factor-gene binding data to quantify dynamic aspects of gene regulation. We estimate latencies for transcr...
The increasing significance of RNAs in transcriptional or post-transcriptional gene regulation processes has generated considerable interest towards the prediction of RNA folding ...
Joohyun Kim, Wei Huang, Sharath Maddineni, Fareed ...
Armed with increasingly fast supercomputers and greater knowledge of the molecular mechanisms of gene expression, it is now practical to numerically simulate complex networks of r...
Background: The detection of conserved motifs in promoters of orthologous genes (phylogenetic footprints) has become a common strategy to predict cis-acting regulatory elements. S...