A Model of Random Sequences for de novo Peptide Sequencing. - Kenneth D. Jarman; William R. Cannon; Kristin H. Jarman; Alejandro Heredia-Langner (BIBE, 2003)

Constrained De Novo Peptide Identification via Multi-Objective Optimization. - Joël M. Malard; Alejandro Heredia-Langner; Douglas J. Baxter; Kristin H. Jarman; William R. Cannon (IPDPS, 2004)

De Novo Analysis of Tandem Mass Spectrometry Data as a Non-Deterministic Optimization Problem. - Alejandro Heredia-Langner; William R. Cannon; Kenneth D. Jarman; Kristin H. Jarman (METMBS, 2004)

Sequence optimization as an alternative to de novo analysis of tandem mass spectrometry data. - Alejandro Heredia-Langner; William R. Cannon; Kenneth D. Jarman; Kristin H. Jarman (Bioinform., 2004)

Peptide identification via constrained multi-objective optimization: Pareto-based genetic algorithms. - Joël M. Malard; Alejandro Heredia-Langner; William R. Cannon; Ryan W. Mooney; Douglas J. Baxter (Concurr. Comput. Pract. Exp., 2005)

Session Introduction. - Bobbie-Jo M. Webb-Robertson; William R. Cannon; Joshua N. Adkins; Deborah K. Gracio (Pacific Symposium on Biocomputing, 2006)

Analytics challenge - High-throughput visual analytics biological sciences: turning data into knowledge. - Christopher S. Oehmen; Lee Ann McCue; Joshua N. Adkins; Katrina M. Waters; Tim Carlson; William R. Cannon; Bobbie-Jo M. Webb-Robertson; Douglas J. Baxter; Elena S. Peterson; Mudita Singhal; Anuj R. Shah; Kyle R. Klicker (SC, 2006)

SEBINI-CABIN: An Analysis Pipeline for Biological Network Inference, with a Case Study in Protein-Protein Interaction Network Reconstruction. - Ronald C. Taylor; Mudita Singhal; Don Simone Daly; Kelly Domico; Amanda M. White; Deanna L. Auberry; Kenneth J. Auberry; Brian Hooker; Gregory B. Hurst; Jason E. McDermott; W. Hayes McDonald; Dale Pelletier; et al. (ICMLA, 2007)

Support Vector Machine Classification of Probability Models and Peptide Features for Improved Peptide Identification from Shotgun Proteomics. - Bobbie-Jo M. Webb-Robertson; Christopher S. Oehmen; William R. Cannon (ICMLA, 2007)

Session Introduction. - William R. Cannon; Bobbie-Jo M. Webb-Robertson (Pacific Symposium on Biocomputing, 2007)

Current trends in computational inference from mass spectrometry-based proteomics. - Bobbie-Jo M. Webb-Robertson; William R. Cannon (Briefings Bioinform., 2007)

A Scalable Parallel Approach for Peptide Identification from Large-Scale Mass Spectrometry Data. - Gaurav Ramesh Kulkarni; Ananth Kalyanaraman; William R. Cannon; Douglas J. Baxter (ICPP Workshops, 2009)

Statistically appraising process quality of affinity isolation experiments. - Julia L. Sharp; John J. Borkowski; Denise Schmoyer; Don Simone Daly; Samuel O. Purvine; William R. Cannon; Gregory B. Hurst (Comput. Stat. Data Anal., 2009)

An analysis pipeline for the inference of protein-protein interaction networks. - Ronald C. Taylor; Mudita Singhal; Don Simone Daly; Jason M. Gilmore; William R. Cannon; Kelly Domico; Amanda M. White; Deanna L. Auberry; Kenneth J. Auberry; Brian Hooker; Gregory B. Hurst; Jason E. McDermott; et al. (Int. J. Data Min. Bioinform., 2009)

A Scalable Parallel Algorithm for Large-Scale Protein Sequence Homology Detection. - Changjun Wu; Ananth Kalyanaraman; William R. Cannon (ICPP, 2010)

Applications in Data-Intensive Computing. - Anuj R. Shah; Joshua N. Adkins; Douglas J. Baxter; William R. Cannon; Daniel G. Chavarría-Miranda; Sutanay Choudhury; Ian Gorton; Deborah K. Gracio; Todd D. Halter; Navdeep Jaitly; John R. Johnson; Richard T. Kouzes; et al. (Adv. Comput., 2010)

A support vector machine model for the prediction of proteotypic peptides for accurate mass and time proteomics. - Bobbie-Jo M. Webb-Robertson; William R. Cannon; Christopher S. Oehmen; Anuj R. Shah; Vidhya Gurumoorthi; Mary S. Lipton; Katrina M. Waters (Bioinform., 2010)

MapReduce implementation of a hybrid spectral library-database search method for large-scale peptide identification. - Ananth Kalyanaraman; William R. Cannon; Benjamin Latt; Douglas J. Baxter (Bioinform., 2011)

Proteotyping of Microbial Communities by Optimization of Tandem Mass Spectrometry Data Interpretation. - Alys Hugo; Douglas J. Baxter; William R. Cannon; Ananth Kalyanaraman; Gaurav Ramesh Kulkarni; Stephen J. Callister (Pacific Symposium on Biocomputing, 2012)

pGraph: Efficient Parallel Construction of Large-Scale Protein Sequence Homology Graphs. - Changjun Wu; Ananth Kalyanaraman; William R. Cannon (IEEE Trans. Parallel Distributed Syst., 2012)

Integrating machine learning and multiscale modeling - perspectives, challenges, and opportunities in the biological, biomedical, and behavioral sciences. - Mark S. Alber; Adrian Buganza Tepole; William R. Cannon; Suvranu De; Salvador Dura-Bernal; Krishna C. Garikipati; George E. Karniadakis; William W. Lytton; Paris Perdikaris; Linda R. Petzold; Ellen Kuhl (npj Digit. Medicine, 2019)

Computing with a Chemical Reservoir. - Connah G. M. Johnson; Nicolas Bohm Agostini; William R. Cannon; Antonino Tumeo (ICRC, 2024)

ChemComp: A Compilation Framework for Computing with Chemical Reaction Networks. - Nicolas Bohm Agostini; Connah Johnson; William R. Cannon; Antonino Tumeo (ASP-DAC, 2025)

ChemComp: Compiling and Computing with Chemical Reaction Networks. - Nicolas Bohm Agostini; Connah G. M. Johnson; William R. Cannon; Antonino Tumeo (DATE, 2025)