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Downard Laboratory WWW site

Publications

Journal articles (2013-present)

 

Akand EH, Downard KM (2019) Mechanisms of Antiviral Resistance in Influenza Neuraminidase Revealed by a Mass Spectrometry Based Phylonumerics Approach, Mol. Phylogen. Evol. 135: 286-296.   https://doi.org/10.1016/j.ympev.2019.03.009

 

Downard KM (2019) Concentration of Hydroxyl Radicals during Electrical Discharge for Radical Probe Protein Footprinting Mass Spectrometry, Rapid Commun. Mass Spectrom., in press.   https://doi.org/10.1002/rcm.8484

 

Downard KM, Maleknia SD (2019) Mass Spectrometry in Structural Proteomics: The Case for Radical Probe Protein Footprinting, Trends in Anal. Chem., 110: 293-302.   https://doi.org/10.1016/j.trac.2018.11.016

 

Downard KM (2019) A Molecular Immunoproteomics Approach to Assess the Viral Antigenicity of Influenza, in Methods in Molecular Biology: Immunoproteomics, 2nd edition (Ed. S. Twine & K. Fulton), in press.   https://doi.org/10.1007/978-1-4939-9597-4_24

 

Maleknia SD, Downard KM (2019) Protein Footprinting with Radical Probe Mass Spectrometry - Two Decades of Achievement, in Current Perspectives on Footprinting as a Tool for Structural Biology (ed. Ralston CY),  Protein Peptide Letters, 26(1):  4-15.  https://doi.org/10.2174/0929866526666181128124241

 

Akand EH, Downard KM (2018) Ancestral and Compensatory Mutations that Promote Antiviral Resistance in Influenza N1 Neuraminidase Revealed by a Phylonumerics Approach, J. Mol. Evol., 86(8): 546-553.   https://doi.org/10.1007/s00239-018-9866-4

 

Uddin R, Downard KM (2018) Molecular Basis of Benzimidazole Inhibitors to Hepatitis C Virus Envelope Glycoprotein, Chem. Biol. Drug Design, 92(3): 1638-1646. (cover article)   https://doi.org/10.1111/cbdd.13329

 

Akand EH, Downard KM (2018) Identification of Epistatic Mutations and Insights into the Evolution of the Influenza Virus Using a Mass-Based Protein Phylogenetic Approach, Mol. Phylogenet. Evol., 121: 132-138.   http://dx.doi.org/10.1016/j.ympev.2018.01.009

 

Cody RB, Tamura J, Downard KM (2018) Quantitation of Anthocyanins in Elderberry Fruit Extracts and Nutraceutical Formulations with Paper Spray Ionization Mass Spectrometry, J. Mass Spectrom., 53: 58-64.  http://www.dx.doi.org/10.1002/jms.4033

 

Akand EH, Downard KM (2017) Mutational Analysis Employing a Phylogenetic Mass Tree Approach in a Study of the Evolution of the Influenza Virus, Mol. Phylogenet. Evol., 112: 209-217.  http://dx.doi.org/10.1016/j.ympev.2017.04.005

 

Uddin R, Downard KM (2017) Subtyping of Hepatitis C Virus with High Resolution Mass Spectrometry, Clin. Mass Spectrom., 4-5: 19-24.   http://dx.doi.org/10.1016/j.clinms.2017.08.003

 

Ma S, Downard KM, Wong JWH (2017) Phylogenetic Analysis using Protein Mass Spectrometry, in Methods in Molecular Biology: Proteome Bioinformatics (eds. Mathivanan S, Keerthikumar S), Humana Press, NJ USA, pg. 135-146. (ISBN 978-1-4939-6738-4).   http://www.springer.com/gp/book/9781493967384

 

Akashi S, Downard KM (2016) Effect of Charge on the Conformation of Highly Basic Peptides including the Tail Regions of Histone Proteins by Ion Mobility Mass Spectrometry,  Anal. Bio. Chem., 408: 6637-6648.  http://dx.doi.org/10.1007/s00216-016-9777-4

 

Maleknia SD, Downard KM (2016) New Anthocyanins from Black Elderberry of Inhibitory Potential Revealed by Mass Spectrometry, Nat. Prod. J., 6: 94-102.   http://dx.doi.org/10.2174/2210315506666160115214231

 

Downard KM (2016) Indirect Study of Non-Covalent Protein Complexes by MALDI Mass Spectrometry. Origins, Advantages and Applications of the "Intensity-Fading" Approach, Mass Spectrom. Rev., 35: 559-573.   http://dx.doi.org/10.1002/mas.21480

 

Lu R, Müller P, Downard KM (2015) Molecular Basis of Influenza Hemagglutinin Inhibition with an Entry-Blocker Peptide by Computational Docking and Mass Spectrometry, Antivir. Chem. Chemother., 24(3-4): 109-117.   http://dx.doi.org/10.1177/2040206615622920

 

Ma S, Downard KM, Wong JWH (2015) FluClass: A Novel Algorithm and Approach to Score and Visualize the Phylogeny of the Influenza Virus using Mass Spectrometry, Anal. Chim. Acta,  895: 54-61.   http://dx.doi.org/10.1016/j.aca.2015.09.004

 

Müller P, Downard KM (2015) Catechins Inhibit Influenza Neuraminidase and its Molecular Basis with Mass Spectrometry, J. Pharmaceut. Biomed. Anal. 111: 222-230.  http://dx.doi.org/10.1016/j.jpba.2015.03.014

 

Downard KM (2015) in Encyclopedia of Mass Spectrometry, Vol 9B, eds. Nier KA, Yergey AL, Gale PJ, Elsevier: Netherlands, pp. 6-8.

 

Downard KM (2015) in Encyclopedia of Mass Spectrometry, Vol 9B, eds. Nier KA, Yergey AL, Gale PJ, Elsevier: Netherlands, pp. 25-26.

 

Akashi S, Maleknia SD, Saikusa K, Downard KM (2015) Stability of the βB2B3 Crystallin Heterodimer to Increased Oxidation by Radical Probe and Ion Mobility Mass Spectrometry, J. Struct. Biol., 189: 20-27.  http://dx.doi.org/10.1016/j.jsb.2014.11.006

 

Swaminathan K, Müller P, Downard KM (2014) Substituent Effects on the Binding of Natural Product Anthocyanidin Inhibitors to Influenza Neuraminidase with Mass Spectrometry, Anal. Chim. Acta, 828: 61-69.  http://dx.doi.org/10.1016/j.aca.2014.04.021

 

Maleknia SD, Downard KM (2014) Advances in Radical Probe Mass Spectrometry for Protein Footprinting in Chemical Biology Applications, Chem. Soc. Rev., 43, 3244 - 3258.  http://dx.doi.org/10.1039/C3CS60432B

 

Fernandes ND, Downard KM (2014) Origins of the Reassortant H1N1 2009 Pandemic Influenza Virus by Proteotyping with Mass Spectrometry, J. Mass Spectrom., 49, 93-102.  http://dx.doi.org/10.1002/jms.3310

 

Fernandes ND, Downard KM (2014) Incorporation of a Proteotyping Approach using Mass Spectrometry for the Surveillance of the Influenza Virus in Cell Culture, J. Clin. Microbio., 52, 725-735.  http://dx.doi.org/10.1128/JCM.02315-13

 

Swaminathan K, Downard KM (2014) Evolution of Influenza Neuraminidase and the Detection of Antiviral Resistant Strains Using Mass Trees, Anal. Chem., 86: 629–637.  http://dx.doi.org/10.1021/ac402892m

 

Downard KM (2013) Proteotyping for the Rapid Identification of Pandemic Influenza Virus and other Biopathogens, Chem. Soc. Rev., 42: 8584-8595.  http://dx.doi.org/10.1039/C3CS60081E

 

Nasser Z, Swaminathan K, Müller P, Downard KM (2013) in-vitro Inhibition of the Influenza virus with the Anti-Viral Inhibitor Arbidol by a Proteomics based Approach with Mass Spectrometry, Antiviral Res., 100: 399-406.  http://dx.doi.org/10.1016/j.antiviral.2013.08.021

 

Downard KM (2013) An Immunoproteomics Approach to Screen the Antigenicity of the Influenza Virus, in Methods in Molecular Biology: Immunoproteomics (Ed. S. Twine & K. Fulton), Vol. 1061, Ch. 8, pg 141-153.  http://dx.doi.org/10.1007/978-1-62703-589-7_8

 

Swaminathan K, Dyason JC, Maggioni A, von Itzstein M, Downard KM (2013) Binding of a Natural Anthocyanin Inhibitor to Influenza Neuraminidase by Mass Spectrometry, Anal. Bio. Chem., 405: 6563-6572.  http://dx.doi.org/10.1007/s00216-013-7068-x

 

Lun ATL, Swaminathan K, Wong JWH, Downard KM (2013) Mass Trees – A New Phylogenetic Approach and Algorithm to Chart Evolutionary History with Mass Spectrometry, Anal. Chem., 85: 5475-5482.  http://dx.doi.org/10.1021/ac4005875

 

Nguyen AP, Downard KM (2013) Subtyping of Influenza Neuraminidase using Mass Spectrometry, Analyst, 138, 1787- 1793.  http://dx.doi.org/10.1039/c3an00086a

 

Nguyen AP, Downard KM (2013) Proteotyping of the Parainfluenza Virus with High Resolution Mass Spectrometry, Anal. Chem., 85, 1097-1105.  http://dx.doi.org/10.1021/ac302962u

 

Books

 

Downard KM ed. (2007) Mass Spectrometry of Protein Interactions, John Wiley & Sons, New Jersey U.S.A. (ISBN 978-0-471-79373-1)  http://au.wiley.com/WileyCDA/WileyTitle/productCd-0471793736.html

 

Downard KM (2004) Mass Spectrometry - A Foundation Course, Royal Society of Chemistry, Cambridge UK (ISBN 978-0-85404-609-6)  http://www.rsc.org/shop/books/2004/9780854046096.asp

 

 

For articles on the early History of Mass Spectrometry, click here