Articles in journals

• R. Tharakan, N. Edwards, and D. Graham. "Data Maximization by Multipass Analysis of Protein Mass Spectra." Proteomics (2010).
• C. Wynne, C. Fenselau, P. Demirev, and N. Edwards. "Top-down identification of protein biomarkers in bacteria with unsequenced genomes." Analytical Chemistry (2009): Article ASAP.
• A. Phillippy, K. Ayanbule, N. Edwards, and S. Salzberg. "Insignia: a DNA signature search web server for diagnostic assay development." Nucleic Acids Research 37.S2 (2009): W229-W234.
• N. Edwards, X. Wu, and C.-W. Tseng. "An Unsupervised, Model-Free, Machine-Learning Combiner for Peptide Identifications from Tandem Mass Spectra." Clinical Proteomics 5.1 (2009): 23-36.
• C. Fenselau, C. Havey, N.Teerakulkittipong, S. Swatkoski, O. Laine, and N. Edwards. "Identification of beta-lactamase in antibiotic-resistant bacillus cereus spores." Applied and Enviromental Microbiology 74.3 (2008): 904-906.
• S. Swatkoski, P. Gutierrez, C. Wynne, A. Petrov, J. D. Dinman, N. Edwards, and C. Fenselau. "Evaluation of microwave-accelerated residue-specific acid cleavage for proteomic applications." Journal of Proteome Research 7.2 (2008): 579–586.
• J. Wang, P. Gutierrez, N. Edwards, and C. Fenselau. "Integration of 18O Labeling and Solution Isoelectric Focusing in a Shotgun Analysis of Mitochondrial Proteins." Journal of Proteome Research 6.12 (2007): 4601-4607.
• J. Xu, O. Laine, M. Masciocchi, J. Manoranjan, J. Smith, S. Du, J. Shao, N. Edwards, X. Zhu, C. Fenselau, and L.-Y. Gao.. "A unique Mycobacterium ESX-1 protein co-secretes with CFP-10/ESAT-6 and is necessary for inhibiting phagosome maturation." Molecular Microbiology 66.3 (2007): 787-800.
• S. Swatkoski, P. Gutierrez, J. Ginter, A. Petrov, J.D. Dinman, N. Edwards, and C. Fenselau. "Integration of residue-specific acid cleavage into proteomic workflows." Journal of Proteome Research 6.11 (2007): 4525-4527.
• X. Wu, C.-W. Tseng, and N. Edwards. "HMMatch: Peptide Identification by Spectral Matching of Tandem Mass Spectra using Hidden Markov Models." Journal of Computational Biology 14.8 (2007): 1025-1043.
• S. Russell, N. Edwards, and C. Fenselau. "Detection of Plasmid Insertion in Escherichia coli by MALDI-TOF Mass Spectrometry." Analytical Chemistry 79.14 (2007): 5399-5409.
• N.J. Edwards. "Novel Peptide Identification using Expressed Sequence Tags and Sequence Database Compression." Molecular Systems Biology 3.102 (2007).
• S. Swatkoski, S. Russell, N. Edwards, and C. Fenselau. "Analysis of a Model Virus Using Residue-Specific Chemical Cleavage and MALDI-TOF Mass Spectrometry." Analytical Chemistry 79.2 (2007): 654-658.
• C. Fenselau, S. Russell, S. Swatkoski, and N. Edwards. "Proteomic Strategies for Rapid Analysis of Microorganisms." European Journal of Mass Spectrometry 13.1 (2007): 35-39.
• S. Swatkoski, S.C. Russell, N. Edwards, and C. Fenselau. "Rapid chemical digestion of small acid-soluble spore proteins for analysis of Bacillus spores." Analytical Chemistry 78.1 (2006): 181-188.
• S. Istrail, et al. "Whole-genome shotgun assembly and comparison of human genome assemblies." Proceedings of the National Academy of Sciences 101.7 (2004): 1916-1921.

Articles in conference proceedings

• D. Fasulo, A.-K. Emde, L.-Y. Wang, K. Noy, and N.J. Edwards. "Alignment of Mass Spectrometry Data by Clique Finding and Optimization." Proceedings of the RECOMB Satellite Workshop on Computational Proteomics: Systems Biology and Computational Proteomics. : Lecture Notes in Computer Science, 2007.
• N. Edwards and R. Lippert. "Sequence database compression for peptide identification." 4th Workshop on Algorithms in Bioinformatics (WABI). : Lecture Notes in Computer Science, 2004.
• B.V. Halldorsson, V. Bafna, N. Edwards, R. Lippert, S. Yooseph, and S. Istrail. "A survey of computational methods for determining haplotypes." Computational Methods for SNPs and Haplotype Inference: DIMACS/RECOMB Satellite Workshop. : Lecture Notes in Computer Science, 2004.
• V. Bafna and N. Edwards. "On de novo interpretation of peptide spectra." 7th Annual International Conference on Research in Computational Molecular Biology (RECOMB). : ACM Press, 2003.
• B.V. Halldorsson, V. Bafna, N. Edwards, R. Lippert, S. Yooseph, and S. Istrail. "Combinatorial problems arising in SNP and haplotype analysis." 4th International Conference on Discrete Mathematics and Theoretical Computer Science. : Lecture Notes in Computer Science (vol. 2731), 2003.
• N. Edwards and R. Lippert. "Generating peptide candidates from amino-acid sequence databases for protein identification via mass spectrometry." 2nd Workshop on Algorithms in Bioinformatics (WABI). : Lecture Notes in Computer Science, 2002.
• V. Bafna and N.J. Edwards. "SCOPE: a probabilistic model for scoring tandem mass spectra against a peptide database." 9th International Conference on Intelligent Systems for Molecular Biology (ISMB). : Bioinformatics, 2001.