PhysBinder: improving the prediction of transcription factor binding sites by flexible inclusion of biophysical properties. - Stefan Broos; Arne Soete; Bart Hooghe; Raymond Moran; Frans van Roy; Pieter J. De Bleser (Nucleic Acids Res., 2013)

ConTra v3: a tool to identify transcription factor binding sites across species, update 2017. - Lukasz Kreft; Arne Soete; Paco Hulpiau; Alexander Botzki; Yvan Saeys; Pieter J. De Bleser (Nucleic Acids Res., 2017)

SpliceRover: interpretable convolutional neural networks for improved splice site prediction. - Jasper Zuallaert; Fréderic Godin; Mijung Kim; Arne Soete; Yvan Saeys; Wesley De Neve (Bioinform., 2018)

TISRover: ConvNets learn biologically relevant features for effective translation initiation site prediction. - Jasper Zuallaert; Mijung Kim; Arne Soete; Yvan Saeys; Wesley De Neve (Int. J. Data Min. Bioinform., 2018)