PUBLISHED WORK
"User, data, and job submission patterns for a highly accessed science gateway." Miller, M. A., Schwartz, T., and Pfeiffer, W.P. in Proceedings of the 2016 XSEDE Conference: Scientific Advancements Enabled by Enhanced Cyberinfrastructure, ACM. (2016)
"A RESTful API for Access to Phylogenetic Tools via the CIPRES Science Gateway." Miller, M. A., Schwartz, T., Pickett, B. E., He, S., Klem, E. B., Scheuermann, R. H., Passarotti, M., Kaufman, S., and O’Leary, M. A. Evolutionary Bioinformatics 11, 43-48. (2015)
"The CIPRES workbench: a flexible framework for creating science gateways." Miller, M. A., Schwartz, T., Hoover, P., Yoshimoto, K., Sivagnanam, S., and Majumdar, A. in Proceedings of the 2015 XSEDE Conference: Scientific Advancements Enabled by Enhanced Cyberinfrastructure, ACM (2015).
"Embedding CIPRES Science Gateway capabilities in phylogenetics software environments" M.A. Miller, T. Schwartz, and W. Pfeiffer, in Proc. XSEDE, 2013, pp.40-40 (2013).

"The CIPRES Science Gateway: enabling high-impact science for phylogenetics researchers with limited resources" Miller, M.A., Pfeiffer, W., and Schwartz, T. in XSEDE12, Proceedings of the 2012 XSEDE Conference: Bridging from the eXtreme to the campus and beyond. ACM New York, NY, USA. (2012).

" An All-Atom Model of the Structure of Human Copper Transporter 1." Tsigelny, I., Sharikov, Y., Greenberg, J., Miller, M., Kouznetsova, V., Larson, C., and Howell, S. (2012) Cell Biochemistry and Biophysics 63, 223-234.DOI: 10.1007/s12013-012-9358-x

"The CIPRES Science Gateway: A Community Resource for Phylogenetic Analyses" Miller, M.A., Pfeiffer, W., and Schwartz, T. in TG '11, Proceedings of the 2011 TeraGrid Conference: Extreme Digital Discovery.  Salt Lake City, Utah, ACM New York, NY, USA. pp 1-8 (2011).

"Creating the CIPRES Science Gateway for inference of large phylogenetic trees," Miller, M.A., Pfeiffer, W., and Schwartz, T. in Gateway Computing Environments Workshop (GCE), New Orleans, LA, Nov 14, 2010; pp.1-8 (2010).

"MAPAS: a Tool for Predicting Membrane Contacting Protein Surfaces." Sharikov, Y., Walker, R. C., Greenberg, J., Kouznetsova, V., Nigam, S., Miller, M. A., Masliah, E., Tsigelny, I. E. Nature Methods 5(2) 119 (2008).
"Dynamics of alpha-synuclein aggregation and inhibition of pore-like oligomer development by beta-synuclein." Tsigelny, I.F., P. Bar-On, Y. Sharikov, L. Crews, M. Hashimoto, M.A. Miller, S.H. Keller , O. Platoshyn , J. X-J. Yuan , E. Masliah FEBS J. 274(7):1862-77 (2007).
"SWAMI: Integrating Biological Databases and Analysis Tools Within A User Friendly Environment." Rifaieh, R., R., Unwin, J. Carver, & Miller, M.A. 4th International Workshop, DILS Data Integration in the Life Sciences, p.48-58 (2007).