Visualization of near-optimal sequence alignments. - Michael E. Smoot; Stephanie A. Guerlain; William R. Pearson (Bioinform., 2004)

A system for visualizing and analyzing near-optimal protein sequence alignments. - Michael E. Smoot; Ellen J. Bass; Stephanie A. Guerlain; William R. Pearson (Inf. Vis., 2005)

NetworkBLAST: comparative analysis of protein networks. - Maxim Kalaev; Michael E. Smoot; Trey Ideker; Roded Sharan (Bioinform., 2008)

Fast Statistical Alignment. - Robert K. Bradley; Adam Roberts; Michael E. Smoot; Sudeep Juvekar; Jaeyoung Do; Colin N. Dewey; Ian H. Holmes; Lior Pachter (PLoS Comput. Biol., 2009)

Improving pairwise sequence alignment accuracy using near-optimal protein sequence alignments. - Michael L. Sierk; Michael E. Smoot; Ellen J. Bass; William R. Pearson (BMC Bioinform., 2010)

PiNGO: a Cytoscape plugin to find candidate genes in biological networks. - Michael E. Smoot; Keiichiro Ono; Trey Ideker; Steven Maere (Bioinform., 2011)

Cytoscape 2.8: new features for data integration and network visualization. - Michael E. Smoot; Keiichiro Ono; Johannes Ruscheinski; Peng-Liang Wang; Trey Ideker (Bioinform., 2011)

Cytoscape: the network visualization tool for GenomeSpace workflows. - Barry Demchak; Tim Hull; Michael Reich; Ted Liefeld; Michael E. Smoot; Trey Ideker; Jill P. Mesirov (F1000Research, 2014)