BPDF - Mark R. Riley Publications

Mark R. Riley Publications

Refereed Publications

Fei Jia, Jeerwan Chawhuaymak, Mark R. Riley, Werner Zimmt, Kimberly L. Ogden, “Efficient extraction method to collect sugar from sweet sorghum,” Journal of Biological Engineering, 7, 1, 1, (2013). www.jbioleng.org/content/7/1/; doi:10.1186/1754-1611-7-1.

Scholz M.J., M.R. Riley, and J.L. Cuello, "Acid hydrolysis and fermentation of algal starches to ethanol by the yeast Saccharomyces cerevisiae." Biomass & Bioenergy, 48, 59-65 (2013).

Phat L Tran, Jessica R Gamboa, Katherine E McCracken, Mark R Riley, Marvin J Slepian, Jeong-Yeol Yoon, “Nanowell-Trapped Charged Ligand-Bearing Nanoparticle Surfaces - A Novel Method of Enhancing Flow-Resistant Cell Adhesion,” Advanced Healthcare Materials, 2, 7, 1019-1027 (2013) doi: 10.1002/adhm.201200250.

Lee-Montiel, F., K. A. Reynolds and M. R. Riley, “Detection and quantification of poliovirus infection using FTIR spectroscopy and cell culture,” Journal of Biological Engineering, 5:16 (2011), doi:10.1186/1754-1611-5-16.

Scholz, M., T. Hoshino, D. Johnson, M.R. Riley, J.L. Cuello, "Flocculation of wall-deficient cells of Chlamydomonas reinhardtii mutant cw15 by calcium and methanol," Biomass and Bioenergy 35, 12, 4835-4840, (2011), doi:10.1016/j.biombioe.2011.08.020.

Riley, M.R., C.P. Gerba, M. Elimelech, “Biological Approaches for Addressing the Grand Challenge of Providing Access to Clean Drinking Water,” Journal of Biological Engineering, 5:2 (2011).

Miles, S.L., R. G.G. Sinclair, M. R. Riley, I. L. Pepper, “Evaluation of Select Sensors for Real Time Monitoring of E. coli in Water Distribution Systems,” Applied and Environmental Microbiology, (2011), p. 2813-2816, Vol. 77, No. 8, doi:10.1128/AEM.02618-10.

Valerie H. Teetor, Denise V. Duclos, Elisabeth T. Wittenberg, Kelly M. Young, Jeerawan Chawhuaymak, Mark R. Riley, Dennis T. Ray, “Effects of planting date on sugar and ethanol yield of sweet sorghum grown in Arizona,” Industrial Crops and Products, 34, 2, 1293-1300 (2011) DOI: 10.1016/j.indcrop.2010.09.010.

Zhiyong Yang, Megan K. Fah, Kelly A. Reynolds, Jonathan D. Sexton, Mark R. Riley, Marie-Laure Anne, Bruno Bureau, and Pierre Lucas, “Opto-electrophoretic detection of bio-molecules using conducting chalcogenide glass sensors,” Optics Express Vol. 18, Iss. 25, pp. 26754–26759 (2010).

P. Cross, P., N. Odegaard, M.R. Riley, “Lipoic Acid Formulations for the Removal of Arsenic and Mercury from Museum Artifact Materials,” Journal of Archaeological Science, 37, 8, 1922-1928, (2010), http://dx.doi.org/10.1016/j.jas.2010.02.018.

Peterson, D.E., J.M. Collier, M.E. Katterman, R.A. Turner, M.R. Riley, "Cytotoxicity of bacterial-derived toxins to transformed lung epithelial and macrophage cells,” Applied Biochemistry and Biotechnology, 160:751–763 (2010), DOI 10.1007/s12010-009-8526-y.

Miles, SL, IL Pepper, RG Sinclair, M.R. Riley, “Real Time Monitoring for Pathogens in Water,” Water Distribution Systems Analysis, 303-308, (2010). dx.doi.org/10.1061/41203(425)28 .

Vargas, C. A., A. A. Wilhelm, J. Williams, P. Lucas, K. A. Reynolds, M. R. Riley, “Integrated capture and spectroscopic detection of viruses,” Applied Environmental Microbiology, 6431-6440, 75, 20 (2009), doi:10.1128/AEM.02036-08.

Diaz-Felix, W., M. R. Riley, W. Zimmt, M. Kazz, “Pretreatment of Yellow Grease for Efficient Production of Biodiesel,” Biomass & Bioenergy, 33, 4, 558-563 (2009) doi:10.1016/j.biombioe.2008.09.009.

Sinclair, R. G. G., C. Y. Choi, M. R. Riley, C. P. Gerba, “Pathogen surveillance through monitoring of sewer systems,” Advances in Applied Microbiology, 65, 249-269 (2008).

Alva Munoz, L. E. and M. R. Riley, “Utilization of cellulosic waste from tequila bagasse and production of polyhydroxyalkanoate (PHA) bioplastics by Saccharophagus degradans,” Biotechnology and Bioengineering, 100, 5, 882-888, (2008).

Goeller, L J. and M. R. Riley, “Discrimination of bacteria and bacteriophages by Raman spectroscopy and surface enhanced Raman spectroscopy,” Applied Spectroscopy, 6, 7, 1-7, (2007).

Liu, H., S. Guo, R. Roll, J. Li, Z. Diao, N. Shao, M. R. Riley, A. M. Cole, J. P. Robinson, N. Snead, G. Shen, P. Guo, “Phi29 pRNA vector for efficient escort of hammerhead ribozyme targeting survivin in multiple cancer cells,” Cancer Biology & Therapy, 6, 5, (2007).

Katterman, M. E., S. Birchard, S. Seraphin, M. R. Riley, “Cellular evaluation of the toxicity of combustion derived particulate matter: influence of particle grinding and washing on cellular response,” Chemosphere, 66, 567–573 (2007).

Wilhelm, A., P. Lucas, D. L. DeRosa, M. R. Riley, “Biocompatibility of Te-As-Se glass fibers for Cell-Based Bio-Optic Infrared Sensors,” Journal of Materials Research, 22, 1098-1104, (2007).

Boesewetter, D. E., J. M. Collier, A. M. Kim, and M. R. Riley, “Alterations of A549 lung cell gene expression in response to biochemical toxins,” Cell Biology and Toxicology, 22, 101–118 (2006).

Lucas, P., M R. Riley, C. Boussard-Plédel, B. Bureau, “Advances in chalcogenide fibers evanescent-wave biochemical sensing,” Analytical Biochemistry, 351, 1, 1-10 (2006).

Riley, M. R., D. L. DeRosa, J. Blaine, B.G. Potter, Jr., P. Lucas, D. Le Coq, C. Juncker, D. E. Boesewetter, J. M. Collier, C. Boussard-Plédel, B. Bureau , “Biologically-inspired sensing: infrared spectroscopic analysis of cell responses to inhalation health hazards,” Biotechnology Progress, 22, 24-31 (2006).

Riley, M.R., P. Lucas, D. Le Coq, J. M. Collier, D. E. Boesewetter, D.M. DeRosa, M. E. Katterman, C. Boussard-Plédel, B. Bureau, “Lung cell fiber evanescent wave spectroscopic biosensing of inhalation health hazards,” Biotechnology and Bioengineering, 95, 4, 599-612 (2006).

Lucas, P., M. A. Solis, D. Le Coq, C. Juncker, M. R. Riley, J. Collier, D. E. Boesewetter, C. Boussard-Plédel, B. Bureau, “Spectroscopic properties of chalcogenide fibers for bio-sensor applications,” Physics and Chemistry of Glasses: European Journal of Glass Science and Technology B, 47 (2), 88–91 (2006).

Lucas, P., M. A. Solis, D. Le Coq, C. Juncker, M. R. Riley, J. Collier, D. E. Boesewetter, C. Boussard-Plédel, B. Bureau, “Infrared biosensors using hydrophobic chalcogenide fibers sensitized with live cells,” Sensors and actuators B, 119, 355–362 (2006).

Riley, M.R., I.M. Fernandez, P. Lucas, “Spectroscopic analysis of cell physiology and function,” Frontiers in Drug Design and Discovery, 2, 259-272, (2006).

Garcia, R.A., M.R. Riley, “Application of design-of-experiments procedures to optimize efficiently pretreatment of lipase for use in a nonaqueous reaction,” Applied Biochemistry and Biotechnology, 127, 2, 69-78, (2005).

Riley, M.R., D.E. Boesewetter, R. A. Turner, A. M. Kim, J. M. Collier, and A. Hamilton, “Comparison of the sensitivity of three lung derived cell lines to metals from combustion derived particulate matter,” Toxicology in Vitro, 19, 3, 411-419 (2005).

Lucas, P., D. Le Coq, J. M. Collier, D. E. Boesewetter, C. Boussard-Plédel, B. Bureau, M. R. Riley, “Evaluation of toxic agent effects on lung cells by Fiber Evanescent Wave Spectroscopy (FEWS),” Applied Spectroscopy, 59, 1, 1-9 (2005).

Garcia, R.A., M.R. Riley, “Relative effectiveness of different pretreatments on the performance of Rhizomucor miehei lipase in non-polar reaction media,” Applied Biochemistry and Biotechnology, 120, 2, 081-096 (2005).

Bureau, B., X. H. Zhang, F. Smektala, J.-L. Adam, J. Troles, H.-l. Ma, C. Boussard-Plédel, J. Lucas, P. Lucas, D. Le Coq, M. R. Riley, J. H. Simmons, “Recent advances in chalcogenide glasses,” Journal of Non-Crystalline Solids, 345&346, 276 –283 (2004).

Okeson, C.D., M.R. Riley, E. Riley-Saxton, “In-vitro Alveolar Cytotoxicity of Soluble Components of Airborne Particulate Matter: Effects of Serum on Toxicity of Transition Metals” Toxicology In Vitro, 18, 673-680 (2004).

Riley, M.R., K. A. Jordan, M. L. Cox, “Development of a cell-based biosensor to evaluate the toxicity of inhaled materials,” Biochemical Engineering Journal, Volume 19, Issue 2, 95-99 (2004).

Riley, M.R., D.E. Boesewetter, A.M. Kim, F.P. Sirvent, “Effects of metals Cu, Fe, Ni, V, and Zn on rat lung epithelial cells,” Toxicology, 190, 171-185 (2003).

Boonmung, S., M.R. Riley, “Quantitative Analysis of Added Ammonium and Nitrate in Silica Sand Using Diffuse Reflectance Infrared Spectroscopy,” Spectroscopy Letters, 36, 3, 251-274, (2003).

Okeson, C.D., M. R. Riley, A. Fernandez, J.O.L. Wendt, “Impact of the composition of combustion generated fine particles on epithelial cell toxicity: influences of metals and metabolism,” Chemosphere, 51, 10, 1121-1128 (2003).

Riley, M.R., L.C. Canaves, “FT-NIR spectroscopic analysis of nitrogen in cotton leaves,” Applied Spectroscopy, 56 (11), 1484-1489, (2002).

Okeson, C.D. and M.R. Riley, "Glutamine replenishment and ammonia removal in hybridoma cell cultures via immobilized glutamine synthetase," Biochemical Engineering Journal, 9, 2, 125-133 (2001).

Riley, M.R., H.M Crider, M.E. Nite, R.A. Garcia, J. Woo, R. M. Wegge, "Simultaneous measurement of 19 components in animal cell culture media by near infrared spectroscopy," Biotechnology Progress, 17, 2, 376-378, (2001).

Frazier, B.L., P. Larmour, and M.R. Riley, "Noninvasive measurement of effective diffusivities in cell immobilization gels through use of near infrared spectroscopy," Biotechnology and Bioengineering, 72, 3, 364-368, (2001).

Riley, M.R., and H. M. Crider, “The effect of analyte concentration range on measurement errors obtained by NIR spectroscopy,” Talanta, 52, 473-484, (2000).

Riley, M.R., M.A. Arnold, and D.W. Murhammer, “Effect of sample complexity on quantification of analytes in aqueous samples by near infrared spectroscopy,” Applied Spectroscopy, 54, 2, 255-261, (2000).

Riley, M.R., C.D. Okeson, and B.L. Frazier, “Rapid calibration development for near infrared spectroscopic monitoring of mammalian cell cultivations,” Biotechnology Progress, 15, 6, 1133-1141, (1999).

Riley, M.R., F.J. Muzzio, and S.C. Reyes, “Experimental and modeling studies of diffusion in immobilized cell systems: a review of the recent literature and patents,” invited article Applied Biochemistry and Biotechnology, 80, 2, 151-188, (1999).

Riley, M.R., M.A. Arnold, and D.W. Murhammer, “Matrix enhanced calibration procedure for multivariate calibration models with near-infrared spectra,” Applied Spectroscopy, 52, 10, 1339-1347 (1998).

Riley, M.R., M.A. Arnold, and D.W. Murhammer, E.L. Walls, and N. DelaCruz, “Adaptive calibration scheme for quantification of metabolites in insect cell media by near infrared spectroscopy,” Biotechnology Progress, 14, 527-533 (1998).

Riley, M.R., F.J. Muzzio, and S.C. Reyes, “Calculation of effective diffusivities and rates of reaction in immobilized cell systems using finite difference methods,” Computers and Chemical Engineering, 22: (4-5) 525-534 (1998).

Riley, M.R., M. Rhiel, X. Zhou, M.A. Arnold, and D.W. Murhammer, “Simultaneous monitoring of glucose and glutamine in insect cell cultures by NIR spectroscopy,” Biotechnology and Bioengineering, 55, 1, 11-15 (1997).

Riley, M.R., F.J. Muzzio, and S.C. Reyes, “Effect of oxygen limitations on monoclonal antibody production by immobilized hybridoma cells,” Biotechnology Progress, 13, 3, 301-310 (1997).

Riley, M.R., F.J. Muzzio, H.M. Buettner, and S.C. Reyes, “A simple correlation for predicting effective diffusivities in immobilized cell systems,” Biotechnology and Bioengineering, 49, 223-227 (1996).

Riley, M.R., F.J. Muzzio, H.M. Buettner, and S.C. Reyes, “The effect of structure on diffusion and reaction in immobilized cell systems,” Chemical Engineering Science, 50, 21, 3357-3367 (1995).

Riley, M.R., H.M. Buettner, F.J. Muzzio, and S.C. Reyes, “Monte Carlo simulation of diffusion and reaction in two-dimensional cell structures,” Biophysical Journal, 68, 5, 1716-1726 (1995).

Riley, M.R., F.J. Muzzio, H.M. Buettner, and S.C. Reyes, “Diffusion in heterogeneous media: application to immobilized cell systems,” AIChE J, 41, 3, 691-700 (1995).

Riley, M.R., F.J. Muzzio, H.M. Buettner, and S.C. Reyes, “Monte Carlo calculation of effective diffusivities in two- and three-dimensional heterogeneous materials of variable structure,” Physical Review E, 49, 4, 3500-3503 (1994).

Ozturk, S.S., M.R. Riley, and B.Ǿ. Palsson, “Effects of ammonia and lactate on hybridoma growth, metabolism, and antibody production,” Biotechnology and Bioengineering, 39, 418-431 (1992).

Non-peer reviewed publications

Teetor V.H., J. Chawhuaymak, M.R. Riley, D.T. Ray, “Fermentation of Sweet Sorghum Juice,” HORTSCIENCE, 44, 4, 1030-1031, (2009).

Brown, T. C. Chang, B. Heinze, P. Hollinger, J. Kittleson, K. MacDow, D. Reavis, J. Curry, and M.R. Riley, “Development of an inducible three color bacterial water color system,” IET Synthetic Biology, 1, (1–2), 21–24 (2007).

Editorials

Riley, M.R., “Concept for reinvigorating the training of irrigation engineers,” Resource, 2015.

Yoon, J.Y. and M. R. Riley, “Grand challenges for biological engineering,” Journal of Biological Engineering 2009, 3:16; doi:10.1186/1754-1611-3-16.

Riley, M.R., “Review of Career Development in Bioengineering and Biotechnology by Guruprasad Madhavan, Barbara Oakley, and Luis Kun (editors),” Journal of Biological Engineering, 2008, 2:16 (25 November 2008).

Riley, M.R., “Addressing uncertainty – pondering how biological systems respond to their environment” Resource, pgs 14-16, October, (2008).

Riley, M.R., “Introducing Journal of Biological Engineering,” Journal of Biological Engineering, 2007, 1:1 (10 October 2007).

Riley, M.R. “Alternate methods for assessing respiratory toxicity using non-animal methods,” invited editorial on the Alternate Toxicology Web Site (AltTox.org) Posted December 6, 2007.

Chapters in Books (invited)

James H. Dooley, Mark R. Riley, Brahm Verma, “Biological Engineering Definition,” accepted for publication in Encyclopedia of Agricultural, and Food, and Biological Engineering Marcel Dekker Pub., New York, NY, 11 pages, Electronic publication, 2nd edition (2010).

P. S. Cross, N. Odegaard, and M. R. Riley, “Aqueous α-lipoic acid solutions for removal of arsenic and mercury from materials used for museum artifacts,” Chapter 3, pp 7-10 (2010). Pesticide Mitigation in Museum Collections: Science in Conservation. A.E. Charola and R.J. Koestler, Eds. Smithsonian Contributions to Museum Conservation No.1, Smithsonian Institution Scholarly Press, Washington, DC.

W. Zimmt, N. Odegaard, T.K. Moreno, R.A. Turner, M. R. Riley, B. Xie, and A.J. Muscat, “Pesticide extraction studies using supercritical carbon dioxide,” Chapter 8, pp 51-57 (2010) Pesticide Mitigation in Museum Collections: Science in Conservation. A.E. Charola and R.J. Koestler, Eds. Smithsonian Contributions to Museum Conservation No.1, Smithsonian Institution Scholarly Press, Washington, DC.

M.R. Riley, “Instrumentation and Process Control,” chapter in Cell Culture Technology, S.S. Ozturk and W.-S. Hu, ed., Taylor and Francis Pub., New York, NY, 249-298, (2006).

M.R. Riley, "Techniques for screening toxins," Encyclopedia of Agricultural, and Food, and Biological Engineering Marcel Dekker Pub., New York, NY, 5 pages, Electronic publication DOI: 10.1081/E-EAFE-120037701 (2005).

M.R. Riley, "Enzyme Kinetics," Encyclopedia of Agricultural, and Food, and Biological Engineering Marcel Dekker Pub., New York, NY, 261-263 (2003).

M.R. Riley, "Monitoring of animal cell cultivations by near-infrared spectroscopy," Recent Research Developments in Biotechnology & Bioengineering, Research Signpost Pub., Trivandrum, India, 3, 143-166 (2000).