Informative Structure Priors: Joint Learning of Dynamic Regulatory Networks from Multiple Types of Data. - Allister Bernard; Alexander J. Hartemink (Pacific Symposium on Biocomputing, 2005)

Reconstructing the Topology of Protein Complexes. - Allister Bernard; David S. Vaughn; Alexander J. Hartemink (RECOMB, 2007)

Branching process deconvolution algorithm reveals a detailed cell-cycle transcription program. - Xin Guo 020; Allister Bernard; David A. Orlando; Steven B. Haase; Alexander J. Hartemink (Proc. Natl. Acad. Sci. USA, 2013)