PASTAA: identifying transcription factors associated with sets of co-regulated genes (2009)
Roider, Helge G., Manke, Thomas, O'Keeffe, Sean, Vingron, Martin, Haas, Stefan A.
Motivation: A major challenge in regulatory genomics is the identification of associations between functional categories of genes (e.g. tissues, metabolic pathways) and their regulating transcription...
Manke, Thomas, Roider, Helge G., Vingron, Martin
Recent experimental and theoretical efforts have highlighted the fact that binding of transcription factors to DNA can be more accurately described by continuous measures of their binding affinities,...
A biophysical approach to large-scale protein-DNA binding data (2008)
Manke, Thomas, Roider, Helge G., Vingron, Martin
About this book * Cutting-edge genome analysis methods from leading bioinformaticians An accurate description of current scientific developments in the field of bioinformatics and computational...
Predicting transcription factor affinities to DNA from a biophysical model (2007)
Roider, Helge G., Kanhere, Aditi, Manke, Thomas, Vingron, Martin
Motivation: Theoretical efforts to understand the regulation of gene expression are traditionally centered around the identification of transcription factor binding sites at specific DNA positions....
Predicting transcription factor affinities to DNA from a biophysical model (2007)
Roider, Helge G., Kanhere, Aditi, Manke, Thomas, Vingron, Martin
Motivation: Theoretical efforts to understand the regulation of gene expression are traditionally centered around the identification of transcription factor binding sites at specific DNA positions....
Statistical Modeling of Transcription Factor Binding Affinities Predicts Regulatory Interactions
Manke, Thomas, Roider, Helge G., Vingron, Martin
Recent experimental and theoretical efforts have highlighted the fact that binding of transcription factors to DNA can be more accurately described by continuous measures of their binding affinities,...
PASTAA: identifying transcription factors associated with sets of co-regulated genes
Roider, Helge G., Manke, Thomas, O'Keeffe, Sean, Vingron, Martin, Haas, Stefan A.
Motivation: A major challenge in regulatory genomics is the identification of associations between functional categories of genes (e.g. tissues, metabolic pathways) and their regulating transcription...
Roider, Helge G., Lenhard, Boris, Kanhere, Aditi, Haas, Stefan A., Vingron, Martin
Motif overrepresentation analysis of proximal promoters is a common approach to characterize the regulatory properties of co-expressed sets of genes. Here we show that these approaches perform well...