TreeViewJ: An application for viewing and analyzing phylogenetic trees. - Matthew W. Peterson; Marc E. Colosimo (Source Code Biol. Medicine, 2007)

Co-Design in Synthetic Biology: A System-Level Analysis of the Development of an Environmental Sensing Device. - David A. Ball; Matthew W. Lux; Russell R. Graef; Matthew W. Peterson; Jane D. Valenti; John Dileo; Jean Peccoud (Pacific Symposium on Biocomputing, 2010)

Open-Target Sparse Sensing of Biological Agents using DNA Microarray. - Mojdeh Mohtashemi; David K. Walburger; Matthew W. Peterson; Felicia N. Sutton; Haley B. Skaer; James C. Diggans (BMC Bioinform., 2011)

Nephele: genotyping via complete composition vectors and MapReduce. - Marc E. Colosimo; Matthew W. Peterson; Scott A. Mardis; Lynette Hirschman (Source Code Biol. Medicine, 2011)

Pathogen metadata platform: software for accessing and analyzing pathogen strain information. - Wenling E. Chang; Matthew W. Peterson; Christopher D. Garay; Tonia Korves (BMC Bioinform., 2016)

Hallmarks of Human-Machine Collaboration: A framework for assessment in the DARPA Communicating with Computers Program. - Robyn Kozierok; John S. Aberdeen; Cheryl Clark; Christopher D. Garay; Bradley Goodman; Tonia Korves; Lynette Hirschman; Patricia L. McDermott; Matthew W. Peterson (CoRR, 2021)

Assessing Open-Ended Human-Computer Collaboration Systems: Applying a Hallmarks Approach. - Robyn Kozierok; John S. Aberdeen; Cheryl Clark; Christopher D. Garay; Bradley Goodman; Tonia Korves; Lynette Hirschman; Patricia L. McDermott; Matthew W. Peterson (Frontiers Artif. Intell., 2021)