Predicting genetic regulatory response using classification. - Manuel Middendorf; Anshul Kundaje; Chris Wiggins 001; Yoav Freund; Christina S. Leslie (ISMB/ECCB (Supplement of Bioinformatics), 2004)

Predicting Genetic Regulatory Response Using Classification: Yeast Stress Response. - Manuel Middendorf; Anshul Kundaje; Chris Wiggins 001; Yoav Freund; Christina S. Leslie (Regulatory Genomics, 2004)

Discriminative topological features reveal biological network mechanisms. - Manuel Middendorf; Etay Ziv; Carter Adams; Jen Hom; Robin Koytcheff; Chaya Levovitz; Gregory Woods; Linda Chen; Chris Wiggins 001 (BMC Bioinform., 2004)

Motif Discovery Through Predictive Modeling of Gene Regulation. - Manuel Middendorf; Anshul Kundaje; Mihir Shah; Yoav Freund; Chris Wiggins 001; Christina S. Leslie (RECOMB, 2005)

Combining Sequence and Time Series Expression Data to Learn Transcriptional Modules. - Anshul Kundaje; Manuel Middendorf; Feng Gao; Chris Wiggins 001; Christina S. Leslie (IEEE ACM Trans. Comput. Biol. Bioinform., 2005)

A classification-based framework for predicting and analyzing gene regulatory response. - Anshul Kundaje; Manuel Middendorf; Mihir Shah; Chris Wiggins 001; Yoav Freund; Christina S. Leslie (BMC Bioinform., 2006)