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Publications

 

      2024

  1. Monitoring Small-Scale Bioreactor Studies for Media development using polarised Total Synchronous Fluorescence Spectroscopy (pTSFS) and Synchronous Light Scattering (SyLS).  B.O. Boateng and A.G. Ryder.  Journal of Biotechnology,  395, 205-215, (2024). DOI: 10.1016/j.jbiotec.2024.10.002 [Open access]   
  2. Estimating Poly(N-isopropylacrylamide) size in solution below the LCST using Fluorescence Correlation Spectroscopy with non-covalent bound fluorophores.  C. van Zanten and A.G. Ryder. Polymer Testing,  137, 108500, (2024). DOI:  10.1016/j.polymertesting.2024.108500 [Open access]

    2023

  3. Size Exclusion Chromatography for Screening Yeastolate used in cell culture media.  M. Kyne, A.-L. de Faria e Silva, B. Vickroy, and A.G. Ryder. Journal of Biotechnology, 376, 1-10, (2023).  DOI: 10.1016/j.jbiotec.2023.09.001 [Open access]

    2022

  4. Analyzing protein conjugation reactions for Antibody-Drug Conjugate synthesis using polarized Excitation Emission Matrix spectroscopy.   A.-L. de Faria e Silva and A.G. Ryder. Biotechnology and Bioengineering, 119, 3432-3446,  (2022). DOI: 10.1002/bit.28229.  [Open access]
  5. Evaluating the interaction of human serum albumin (HSA) and 1,2-dimyristoyl-sn-glycero-3-phosphocholine (DMPC) liposomes in different aqueous environments using Anisotropy Resolved Multi-Dimensional Emission Spectroscopy (ARMES).  F. Gordon, Y. Casamayou-Boucau, A.G. Ryder.* Colloids and Surfaces B: Biointerfaces, 211, 112310, (2022).  DOI:  10.1016/j.colsurfb.2021.112310. [Open access]

    2021

  6. Effects of viscosity and refractive index on the emission and diffusion properties of Alexa Fluor 405 using fluorescence correlation and lifetime spectroscopies., C. van Zanten, D. Melnikau, and A.G. Ryder.  Journal of Fluorescence, 31(3), 835-845, (2021). DOI: 10.1007/s10895-021-02719-y   A free read only version is also available here. 
  7. Advanced spectroscopy and APBS modeling for determination of the role of His190 and Trp103 in mouse thymidylate synthase interaction with selected dUMP analogues.  M. Prokopowicz, A. Jarmuła, Y. Casamayou-Boucau, F. Gordon, A. Ryder, J. Sobich, P. Maj, J. Cieśla, Z. Zieliński, P. Fita, and W. Rode.  International Journal of Molecular Sciences, 22(5), 2261, (2021).  DOI:  10.3390/ijms22052661.  [Open access]
  8. Development of a rapid Polarized Total Synchronous Fluorescence Spectroscopy (pTSFS) method for protein quantification in a model bioreactor broth.  B.O. Boateng, S. Elcoroaristizabal, and A.G. Ryder, Biotechnology and Bioengineering,  118(5), 1805-1817, (2021).  DOI: 10.1002/bit.27694 [Open access]
  9. Modelling Förster Resonance Energy Transfer (FRET) using Anisotropy Resolved Multi-Dimensional Emission Spectroscopy (ARMES).  F. Gordon, S. Elcoroaristizabal, and A.G. Ryder.  Biochimica et Biophysica Acta - General Subjects, 1865(2), 129770, (2021).  DOI:  10.1016/j.bbagen.2020.129770 [Open Access]

    2020

  10. Quantitative analysis of weakly-bound insulin oligomers in solution using polarized multidimensional fluorescence spectroscopy. Y. Casamayou-Boucau and A.G. Ryder.  Analytica Chimica Acta, 1138, 18-29, (2020).  DOI:  10.1016/j.aca.2020.09.007.  [Open access]
  11. Characterization of Lysozyme PEGylation products using polarized Excitation‐Emission Matrix (pEEM) spectroscopy. A.-L. de Faria e Silva, S. Elcoroaristizabal, and A.G. Ryder.  Biotechnology and Bioengineering, 117(10), 2969-2984,  (2020).  [ARAN download here, from 07/07/21]  DOI: 10.1002/bit.27483  
  12. Multi-Attribute Quality Screening of Immunoglobulin G using polarized Excitation Emission Matrix Spectroscopy.  A.-L. de Faria e Silva, S. Elcoroaristizabal, and A.G. Ryder.  Analytica Chimica Acta, 1101, 99-110, (2020).   [ARAN download here, free]  DOI: 10.1016/j.aca.2019.12.020  

    2019

  13. Using Polarized Total Synchronous Fluorescence Spectroscopy (pTSFS) with PARAFAC analysis for Characterizing Intrinsic Protein Emission. M. Steiner-Browne, S. Elcoroaristizabal, and A.G. Ryder.  Chemometrics and Intelligent Laboratory Systems, 194, 103871, (2019).  [ARAN download here, from 15/10/21] DOI:  10.1016/j.chemolab.2019.103871 
  14. Investigating Native State Fluorescence Emission of Immunoglobulin G using polarized Excitation Emission Matrix (pEEM) spectroscopy and PARAFAC. M. Steiner-Browne, S. Elcoroaristizabal, Y. Casamayou-Boucau, and A.G. Ryder.  Chemometrics and Intelligent Laboratory Systems, 185, 1-11 (2019).  [ARAN download here, free] DOI: 10.1016/j.chemolab.2018.12.007. 

    2018

  15. Super Stable Fluorescein Isothiocyanate Isomer I Monolayer for Total Internal Reflection Fluorescence Microscopy.   P. Zarski and A.G. Ryder.  Langmuir, 34(37), 10913-10923, (2018).  [ARAN download here, free] DOI: 10.1021/acs.langmuir.8b02509   
  16. An Excitation Emission Fluorescence Lifetime Spectrometer (EEFLS) system using a frequency doubled supercontinuum laser source.  D. Melnikau, S. Elcoroaristizabal, and A.G. Ryder.  Methods and Applications in Fluorescence, 6(4), 045007, (2018).  [ARAN download here, free] DOI: 10.1088/2050-6120/aad9ae.
  17. Accurate anisotropy recovery from fluorophore mixtures using Multivariate Curve Resolution (MCR).  Y. Casamayou-Boucau and A.G. Ryder.   Analytica Chimica Acta. 1000, 132-143, (2018).  [ARAN download here, free]  DOI: 10.1016/j.aca.2017.11.031.

    2017

  18. Chemometric approaches to low-content quantification (LCQ) in solid-state mixtures using Raman mapping spectroscopy.  B. Li,  Y. Casamayou-Boucau,  A. Calvet, and A.G. Ryder.  Analytical Methods, 9, 6293-6301, (2017). [ARAN download here, free]   DOI: 10.1039/C7AY01778B
  19. Calibration, Standardization, and Quantitative Analysis of Multidimensional Fluorescence (MDF) Measurements on Complex Mixtures (IUPAC Technical Report).  A.G. Ryder, C.A. Stedmon, N. Harrit, and R. Bro.  Pure and Applied Chemistry , 89(12), 1849-1870, (2017).  [ARAN download here, free]    DOI: 10.1515/pac-2017-0610  [Open Access]
  20. Extended wavelength Anisotropy Resolved Multidimensional Emission Spectroscopy (ARMES) measurements:  better filters, validation standards, and Rayleigh scatter removal methods.  Y. Casamayou-Boucau and A.G. Ryder.  Methods and Applications in Fluorescence, 5, 037001, (2017).  [ARAN download here, free]  DOI: 10.1088/2050-6120/aa7763   

    2016

  21. A Facile Synthetic Route to a Family of Mn(III) Monomers and their Structural, Magnetic and Spectroscopic Studies. L.F. Jones,  A.-L. Barra, A.G. Ryder, E.K. Brechin, D. Collison, E.J.L. McInnes, S.S. Calvo, B. Kelly, E. Houton. European Journal of Inorganic Chemistry, 32, 5123-5131, (2016).  DOI: 10.1002/ejic.201601124
  22. Solvothermal Synthesis of Discrete Cages and Extended Networks Comprising {Cr(III)3O(O2CR)3(oxime)3}2- (R = H, CH3, C(CH3)3, C14H9) Building Blocks.  E. Houton, P. Comar, M.B. Pitak, S.J. Coles, A.G. Ryder, S. Piligkos, E.K. Brechin, and L.F. Jones.  RSC Advances, 6, 73668-73676, (2016). [ARAN download here, free]   DOI: 10.1039/C6RA14811E .
  23. Kernel principal component analysis residual diagnosis (KPCARD):  an automated method to remove cosmic ray artefacts in Raman spectra. B. Li, A. Calvet, Y. Casamayou-Boucau,  A.G. Ryder,  Analytica Chimica Acta, 913, 111-120, (2016).   [ARAN download here, free] DOI: 10.1016/j.aca.2016.01.042.
  24. Bench- and Pilot-Scale Continuous-Flow Hydrothermal Production of Barium Strontium Titanate Nanopowders.  P.W. Dunne, C.L. Starkey, A.S. Munn, S.V.Y. Tang, O. Luebben, I. Shvets, A.G. Ryder, Y. Casamayou-Boucau, L. Morrison, and E.H. Lester,  Chemical Engineering Journal, 489, 433-441, (2016).   DOI: 10.1016/j.cej.2015.12.056 

    2015

  25. Anisotropy Resolved Multidimensional Emission Spectroscopy (ARMES): a new tool for protein analysis.  R.C. Groza, B. Li, and A.G. Ryder.   Analytica Chimica Acta, 886, 133-142, (2015). [ARAN download here, free]   DOI: 10.1016/j.aca.2015.06.011.
  26. Low-content quantification in powders using Raman spectroscopy:  a facile chemometric approach to sub 0.1% limits of detection., B. Li,  A. Calvet,  Y. Casamayou-Boucau,  C. Morris, and A.G. Ryder,  Analytical Chemistry, 87(6), 3419-3428, (2015).  [ARAN download here, free]  DOI: 10.1021/ac504776m

    2014

  27. Monitoring Cell Culture Media Degradation using SERS Spectroscopy.  A. Calvet and A.G. Ryder.   Analytica Chimica Acta, 840, 58-67, (2014).   [ARAN download here, free]    DOI:  10.1016/j.aca.2014.06.021 
  28. A family of [Ni8] cages templated by μ6-peroxide from dioxygen activation, A. Perivolaris, C.C. Stoumpos, J. Karpinska, A.G. Ryder, J.M. Frost, K. Mason, A. Prescimone, A.M. Z. Slawin, V.G. Kessler, J.S. Mathieson, L. Cronin, E.K. Brechin, and G. S. Papaefstathiou, Inorganic Chemistry Frontiers, 1, 487-494,  (2014).   DOI:  10.1039/C4QI00048J.
  29. A Fluorescence Anisotropy Method for Protein Concentration Monitoring in Complex Cell Culture Media.  R. C. Groza, A. Calvet, and A.G. Ryder. Analytica Chimica Acta, 821, 54-61, (2014).  [ARAN download here, free]  DOI:  10.1016/j.aca.2014.03.007
  30. Comprehensive Quantitative Bioprocess Monitoring using Fluorescence spectroscopy and chemometrics.  B. Li, M. Shanahan, A. Calvet, K.J. Leister, and A.G. Ryder.  Analyst, 139(7), 1661-1671, (2014). [ARAN download here, free]  DOI:  10.1039/C4AN00007B. 

  31. A rapid fluorescence based method for the quantitative analysis of cell culture media photo-degradation. A. Calvet, B. Li, and A.G. Ryder.  Analytica Chimica Acta, 807, 111-119, (2014). [ARAN download here, free] DOI: 10.1016/j.aca.2013.11.028

    2013

  32. Performance Monitoring of a Mammalian Cell Based Bioprocess using Raman spectroscopy.  B. Li, B.H. Ray, K.J. Leister, and A.G. Ryder.  Analytica Chimica Acta, 796, 84-91, (2013).  [ARAN download here, free]  DOI: http://dx.doi.org/10.1016/j.aca.2013.07.058
  33. Solid-state Transformations of Sulfathiazole Polymorphs: the Effects of Milling and Humidity, Y. Hu, A. Erxleben, B. Hodnett, B. Li, P. McArdle, A. Rasmuson, and A. G. Ryder,  Crystal Growth & Design, 13(8), 3404-3413, (2013).   [ARAN download here, free] DOI: 10.1021/cg4002779
  34. Quantitative Polymorph Contaminant Analysis in Tablets using Raman and Near Infra-red Spectroscopies.  M. C. Hennigan and A.G. Ryder.   Journal of Pharmaceutical and Biomedical Analysis, 72, 163-171, (2013).   DOI: http://dx.doi.org/10.1016/j.jpba.2012.10.002   Download:  Author version.

    2012

  35. Rapid Quantification of Tryptophan and Tyrosine in Chemically Defined Cell Culture Media using Fluorescence Spectroscopy. A. Calvet, B. Li, and A.G. Ryder.  Journal of Pharmaceutical and Biomedical Analysis, 71, 89-98, (2012).  DOI: 10.1016/j.jpba.2012.08.002 Download author version here.
  36. Ferromagnetic exchange in a twisted, oxime-bridged [MnIII2] dimer.  E. Houton, S. M. Taylor, C. C. Beedle, J. Cano, S. Piligkos, S. Hill, A. G. Ryder, E. K. Brechin, and L. F Jones.  Dalton Transactions, 41(27), 8340-8347, (2012).  DOI: 10.1039/C2DT30674C
  37. Cell cycle-dependent mobility of Cdc45 in living cells determined by fluorescence correlation spectroscopy.  R. Broderick, S. Ramadurai, K. Toth, D. Togashi, A. G. Ryder, J. Langwoski, and H.P. Nasheuer,.  PloS One, 7(4): e35537, (2012).  DOI: 10.1371/journal.pone.0035537.
  38. A comparative study of the use of powder X-ray diffraction, Raman and NIR spectroscopy for quantification of binary polymorphic mixtures of Piracetam,  D.M. Croker, M.C. Hennigan, A. Maher, Y. Hu, A.G. Ryder, B.K. Hodnett.  Journal of Pharmaceutical and Biomedical Analysis, 63, 80-86, (2012).  [Open access version here]  DOI:  10.1016/j.jpba.2012.01.013

  39. Using Surface-Enhanced Raman Scattering (SERS) and Fluorescence Spectroscopy for Screening Yeast Extracts, A Complex Component of Cell Culture Media. B. Li, N.M.S. Sirimuthu, B. Ray, and A.G. Ryder,   Journal of Raman Spectroscopy, 43(8), 1074-1082, (2012).  DOI:  10.1002/jrs.3141    Download author version here.

    2011

  40. Fluorescence EEM Spectroscopy for Rapid Identification and Quality Evaluation of Cell Culture Media Components.  B. Li, P.W. Ryan, M. Shanahan, K.J. Leister, and A.G. Ryder. Applied Spectroscopy, 65(11), 1240-1249, (2011).  DOI: http://dx.doi.org/10.1366/11-06383   Download author version here.
  41. Low temperature Fluorescence Study of Crude Petroleum Oils.  P. Owens and A.G. Ryder, Energy & Fuels, 25(11),  5022-5032, (2011).    DOI: 10.1021/ef201030t  Download author version here.

    2010

  42. Study of water adsorption in Poly(N-isopropylacrylamide) thin films using fluorescence emission of 3-hydroxyflavone probes.  C. Morris, B. Szczupak, A.S. Klymchenko, and A.G. Ryder.  Macromolecules. 43(22), 9488-9494, (2010).   DOI: 10.1021/ma102152j Download author version here.
  43. Assessing protein-surface interactions with a series of multi-labeled BSA using Fluorescence Lifetime Microscopy and Forster Energy Resonance Transfer.  D.M. Togashi and A.G. Ryder, Biophysical Chemistry, 152, 55-64, (2010).   DOI:  10.1016/j.bpc.2010.07.006
  44. Qualitative Analysis using Raman Spectroscopy and Chemometrics: a comprehensive model system for narcotics analysis. M.-L. O'Connell, A.G. Ryder, M. Leger, & T.Howley. Applied Spectroscopy, 64(10), 1109-1121, (2010).   Online at: http://www.opticsinfobase.org/abstract.cfm?URI="as-64-10-1109
  45. Rapid Characterisation and Quality Control of Complex Cell Culture Media Solutions using Raman Spectroscopy and Chemometrics. B. Li, P.W. Ryan, B.H. Ray, K.J. Leister, N.M.S. Sirimuthu, and A.G. Ryder.  Biotechnology and Bioengineering, 107(2), 290-301, (2010).   DOI: 10.1002/bit.22813 .  Download author version here.
  46. Quantitative Analysis of Sulfathiazole Polymorphs in Ternary Mixtures by Attenuated Total Reflectance Infrared, Near-infrared and Raman Spectroscopy, Y. Hu, A. Erxleben, A.G. Ryder, and P. McArdle, Journal of Pharmaceutical and Biomedical Analysis, 53(3), 412-420, (2010).   DOI: 10.1016/j.jpba.2010.05.002
  47. Polarity assessment of thermoresponsive poly(NIPAM-co-NtBA) copolymer films using fluorescence methods.  B. Szczupak, A.G. Ryder, D.M. Togashi, Y.A. Rotchev, A.S. Klymchenko, A. Gorelov, and T.J. Glynn,  Journal of Fluorescence, 20(3), 719-731, (2010).   DOI: 10.1007/s10895-010-0613-5 Download author version here.
  48. Prediction of Cell Culture Media performance using Fluorescence Spectroscopy.  P.W. Ryan, B. Li, M. Shanahan, K.J. Leister, and A.G. Ryder, Analytical Chemistry, 82, 1311-1317, (2010) .  DOI: 10.1021/ac902337c  Download author version here.
  49. A Stainless Steel Multi-Well Plate (SS-MWP) for High Throughput Raman Analysis of Dilute Solutions. A.G. Ryder, J. de Vincentis, B. Li, P.W. Ryan, N.M.S. Sirimuthu, and K.J. Leister.   Journal of Raman Spectroscopy, 41(10), 1266-1275, (2010).   DOI: 10.1002/jrs.2586. Download author version here.
  50. Monitoring Local unfolding of Bovine Serum Albumin during denaturation using steady-state and time-resolved fluorescence spectroscopy.  D.M. Togashi, A.G. Ryder, and D. O'Shaughnessy, Journal of Fluorescence, 20(2), 441-452, (2010).   DOI: 10.1007/s10895-009-0566-8
  51. Hydrocarbon migration in Jurassic sandstones from the Porcupine Basin, offshore Ireland: evidence from fluid inclusion studies.  Conliffe J., Feely M., Parnell J., Blamey N., and Ryder A.G.,  Petroleum Geoscience, 16(2), 67-76, (2010).   DOI: 10.1144/1354-079309-007 

    2009

  52. A F-bridged MnII Molecular Square, S.T. Meally, K. Mason, E.K. Brechin, A.G. Ryder, and L.F. Jones.  Chemical Communications, 7024-7026, (2009).    DOI: 10.1039/b916153h
  53. Application of fluorescence lifetime measurements on single petroleum-bearing fluid inclusions to demonstrate multicharge history in petroleum reservoirs. Blamey NJF, Conliffe JF, Parnell J, Ryder AG, and Feely M, Geofluids, 9, 330-337, (2009).   DOI: 10.1111/j.1468-8123.2009.00265.x
  54. Quantifying Adsorbed Protein on Surfaces using Confocal Fluorescence Microscopy. D.M. Togashi, A.G. Ryder, and G. Heiss,  Colloids and Surfaces B: Biointerfaces. 72(2), 219-229, (2009). DOI: 10.1016/j.colsurfb.2009.04.007
  55. Measuring the micro-polarity and hydrogen-bond donor/acceptor ability of thermoresponsive N-isopropylacrylamide/N-tert-butylacrylamide copolymer films using solvatochromic indicators. B. Szczupak, A.G. Ryder, D.M. Togashi, Y.A. Rotchev, A. Gorelov, and T.J. Glynn, Applied Spectroscopy, 63(4), 442-449, (2009).   Online at: Ingenta.  [ARAN download]
  56. Investigating trypthopan quenching of fluorescein fluorescence under protolytic equilibrium.  D.M. Togashi, B. Szczupak, A.G. Ryder, A. Calvet, and M. O'Loughlin, Journal of Physical Chemistry A, 113(12), 2757-2767, (2009).  Online at ACS: http://pubs.acs.org/doi/full/10.1021/jp808121y .
  57. Trigger factor from the psychrophilic bacterium P. Frigidicola is a monomeric chaperone.  S. Robin, D.M. Togashi, A.G. Ryder, and J.G. Wall, Journal of Bacteriology, 191(4), 1162-1168, (2009).  DOI: 10.1128/JB.01137-08

    2008

  58. Frequency Domain Fluorescence Lifetime Study of Crude Petroleum Oils.  P. Owens, A.G. Ryder, and N.J.F. Blamey.  Journal of Fluorescence, 18(5), 997-1006, (2008). [ARAN download]
    DOI: 10.1007/s10895-008-0330-5
  59. The application of structured-light illumination to hydrocarbon-bearing fluid inclusions.  N.J.F. Blamey, A.G. Ryder, M. Feely, P. Dockery, and P. Owens, Geofluids, 8, 102-112, (2008).
    DOI: 10.1111/j.1468-8123.2008.00209.x
  60. A fluorescence analysis of ANS bound to bovine serum albumin: binding properties revisited by using energy transfer.  D.M. Togashi and A.G. Ryder.  Journal of Fluorescence, 18(2), 519-526, (2008). Online here    DOI: 10.1007/s10895-007-0294-x. 

    2007

  61. Fluorescence Lifetime Imaging study of a thin protein layer on solid surfaces. D.M. Togashi and A.G. Ryder   Experimental & Molecular Pathology, 82(2). 135-141, (2007).
    DOI: 10.1016/j.yexmp.2007.01.005
  62. Mobility and distribution of replication protein A in living cells at single molecule level.  C. Braet, H. Stephan, I. Dobbie, D. Togashi, A.G. Ryder, Z. Foldes-Papp, N. Lowndes, and H.P. Nasheuer.  Experimental & Molecular Pathology, 82(2). 156-162, (2007).   DOI: 10.1016/j.yexmp.2006.12.008   

    2006

  63. The Effect of Principal Component Analysis on Machine Learning Accuracy with High Dimensional Spectral Data.  T. Howley, M.G. Madden, M.-L. O'Connell, and A.G. Ryder, Knowledge-Based Systems, 19(5), 363-370, (2006).   DOI: 10.1016/j.knosys.2005.11.014 
  64. One-pot synthesis of fluorescent substituted 2,5-Dihydro-1,2,3-Triazines from a cycloaddition, rearrangement, ring-expansion cascade of 1,2,3-Triazolium-1-amide 1,3 dipoles with propiolate esters.  R.N. Butler, A.M. Fahy, A. Fox, J.C. Stephen, P. McArdle, D. Cunningham, and A.G. Ryder,  Journal of Organic Chemistry, 71(15), 5679-5687, (2006).   DOI: 10.1021/jo060752x 
  65. Time-resolved fluorescence studies on bovine serum albumin denaturation process.  D.M. Togashi and A.G. Ryder,  Journal of Fluorescence, 16(2), 153-160, (2006).   DOI:  10.1007/s10895-005-0029-9
  66. Comparison of the fluorescence behaviour of a biocrude oil and crude petroleum oils.  A.K. Sarma and A.G. Ryder,  Energy & Fuels, 20(2), 783-785, (2006).  [ARAN download]   DOI: 10.1021/ef050294f
  67. New reactive fluorophores in the 1,2,3-Triazine series.  R.N. Butler, A.M. Fahy, A. Fox, J.C. Stephens, P. McArdle, D. Cunningham, and A. G. Ryder,  Tetrahedron Letters, 47(11), 1717-1720, (2006). 
    DOI: 10.1016/j.tetlet.2006.01.052  
  68. Comparison of derivative pre-processing and automated polynomial baseline correction method for classification and quantification of narcotics in solid mixtures.  M.N. Leger and A.G. Ryder, Applied Spectroscopy, 60(2), 182-193, (2006). DOI: 10.1366/000370206776023304   

    2005

  69. Determination of the polymorphic forms of bicifadine hydrochloride by DSC-TG, XRPD, ATR-IR, and ATR-NIR.  P. McArdle, K. Gilligan, D. Cunningham, and A. Ryder,  Applied Spectroscopy, 59(11), 1365-1371, (2005).  DOI: 10.1366/000370205774783322
  70. Spontaneous emission from semiconductor nanocrystals in coupled spherical microcavities, Yu. P. Rakovich, M. Gerlach, A.L. Bradley, J.F. Donegan, J. Boland, T. Connolly, M. Przyjalgowski, A. Ryder, N. Gaponik, and A.L. Rogach,  Physica Status Solidi (C), 2(2), 858-861, (2005).   DOI: 10.1002/pssc.200460351
  71. An Improved Genetic Programming Technique for Identification of Solvents from Raman Spectra. K. Hennessy, M.G. Madden, J. Conroy, and A.G. Ryder.  Knowledge-Based Systems, 18, 217-224, (2005).
    [paper available from science direct here]

    2004

  72. The determination of the modulation transfer function (MTF) for a time-gated fluorescence imaging system. S. Gundy, W. van der Putten, A. Shearer, D. Buckton, and A.G. Ryder,  Journal of Biomedical Optics, 9(6), 1206-1213, (2004).   DOI: 10.1117/1.1803550
  73. Confined optical modes in small photonic molecules with semiconductor nanocrystals.  Yu.P. Rakovich, M. Gerlach, A.L. Bradley, J.F. Donegan, T.M. Connolly, J.J. Boland, M.A. Przyjalgowski, A. Ryder, N.Gaponik, and A.L. Rogach.  Journal of Applied Physics, 96(11), 6761-6765, (2004).  DOI: 10.1063/1.1812355
  74. Time-resolved fluorescence microspectroscopy for characterizing crude oils in bulk and hydrocarbon bearing fluid inclusions.  A.G. Ryder, M.A. Przyjalgowski, M. Feely, B. Szczupak, and T.J. Glynn, Applied Spectroscopy , 58(9), 1106-1115, (2004).   DOI: 10.1366/0003702041959505 
  75. A time-resolved fluorescence spectroscopic study of crude petroleum oils: influence of chemical composition.  A.G. Ryder. Applied Spectroscopy, 58(5), 613-623, (2004). 
    DOI: 10.1366/000370204774103462
  76. Assessing the Maturity of Crude Petroleum Oils Using Total Synchronous Fluorescence Scan Spectra.  A.G. Ryder. Journal of Fluorescence, 14(1), 99-104,  (2004).    DOI:  10.1023/B:JOFL.0000014667.62333.eb
  77. The use of chloroaluminum phthalocyanine tetrasulfonate (AlPcTS) for time-delayed fluorescence imaging.  S. Gundy, W. van der Putten, A. Shearer, D. Buckton, A.G. Ryder, M. Ball.  Physics in Medicine and Biology, 49(3), 359-369, (2004).  DOI: 10.1088/0031-9155/49/3/001  

    1997-2003

  78. Evaluation of acridine in Nafion as a fluorescence lifetime based pH sensor. A.G. Ryder, S. Power, and T.J. Glynn. Applied Spectroscopy, 57(1), 73-79, (2003).   DOI: 10.1366/000370203321165232
  79. A compact violet diode laser based fluorescence lifetime microscope. A.G. Ryder, T.J. Glynn, M. Przyjalgowski, B. Szczupak. Journal of Fluorescence, 12(2), 177-180, (2002).   DOI: 10.1023/A:1016896314122
  80. Quantitative analysis of crude oils by fluorescence lifetime and steady state measurements using 380 nm excitation. A.G. Ryder, Applied Spectroscopy, 56(1), 107-116, (2002).  DOI: 10.1366/2F0003702021954287  Alt. Link: http://www.opticsinfobase.org/abstract.cfm?URI="as-56-1-107
  81. Characterization of crude oils using fluorescence lifetime data. A.G. Ryder, T.J. Glynn, M. Feely, and A.J.G. Barwise., Spectrochimica Acta Part (A): Molecular and Biomolecular spectroscopy, 58(5), 1025-1038, (2002).  [Abstract & full paper on ScienceDirect]
  82. Classification of narcotics in solid mixtures using Principal Component Analysis and Raman spectroscopy. A.G. Ryder, Journal of Forensic Sciences, 47(2), 275-284, (2002). Abstract & paper from ASTM site [ARAN download]
  83. High pressure diamond and diamond like carbon deposition using a microwave CAP reactor. M. L. McConnell, D.P. Dowling, C. Pope, K. Donnelly, A.G. Ryder, and G.M. O'Connor, Diamond and Related Materials, 11(3-6), 1036-1040, (2002).  DOI: 10.1016/S0925-9635(01)00637-9
  84. Solvent effects on the luminescent properties of conjugated molecules,  K. Henderson, A.B. Dalton, G. Chambers, A. Drury, S. Maier, A.G. Ryder, W. Blau, and H.J. Byrne,  Synthetic Metals, 119(1-3), 555-556, (2001).   [ link to full paper]
  85. Quantitative analysis of cocaine in solid mixtures using Raman spectroscopy and chemometric methods. A.G. Ryder, G.M. O'Connor, and T.J. Glynn, Journal of Raman Spectroscopy, 31(3), 221-227, (2000).    [ARAN download here, free] DOI:  10.1002/(SICI)1097-4555(200003)31:3<221::AID-JRS518>3.0.CO;2-5
  86. Identifications and Quantitative Measurement of Narcotics in Solid Mixtures Using Near-IR Raman Spectroscopy and Multivariate Analysis. A.G. Ryder, G.M. O'Connor, and T.J. Glynn, Journal of Forensic Sciences, 44(5), 1013-1019, (1999). Abstract & paper from ASTM site.   DOI: 10.1520/JFS12031J  Full text, available here (author version).
  87. Synthesis of novel chiral cyclopentadienes: Synthesis of chiral iron complexes and the crystal structures of [(h5-(1S-1-(p-1-methoxynapthalene)-1-(C5(Me)4)-ethane)) Fe(CO)2-SnCl3] and [h5-(C5(Me)4)C(H)(CH3)(C2H5)) - Fe(CO) (h4-diphenylbutadiene)][BF4]-, P. McArdle, A.G. Ryder, and D. Cunningham, Organometallics, 16, 2638-2645, (1997).   DOI: 10.1021/om950958g

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    Invited reviews & Book Chapters:

  88. Cell Culture Media Analysis using Rapid Spectroscopic Methods.  A.G. Ryder.  Current Opinion in Chemical Engineering, 22, 11-17, (2018).  [Invited Review] [ARAN download here, free]  DOI:  10.1016/j.coche.2018.08.008 . 
  89. Raman Spectroscopy in Biopharmaceutical Manufacturing:  a critical review.  K. Buckley and A.G. Ryder.  Applied Spectroscopy, 71(6), 1085-1116, (2017).  Focal point article (peer reviewed, OPEN access).  DOI: 10.1177/0003702817703270 
  90. Fluorescence Analysis of Thermoresponsive Polymers.  A.G. Ryder and C. Morris, Reviews in Fluorescence 2015 , Annual Volumes, Vol. 8, pp. 97-126, (2015).    ISBN: 978-3-319-24607-9 ( Hardcover), 978-3-319-24609-3 (ebook) Springer.  Invited Review.  [ARAN download here, free] 
  91. Hydrocarbon Fluid Inclusion Fluorescence: A review. A.G. Ryder and N.J.F. Blamey,   Reviews in Fluorescence 2007, Annual Volumes, Vol. 4, pp. 299-334 (2009),   ISBN: 978-0-387-88721-0, Springer. Invited Review.  [ARAN download here, free]
  92. Surface Enhanced Raman Scattering (SERS) for Narcotic detection and applications to Chemical Biology. A.G. Ryder, Current Opinion in Chemical Biology, 9(5), 489-493, (2005) [paper available from science direct here]. Invited Review.  DOI: 10.1016/j.cbpa.2005.07.001
  93. Analysis of crude petroleum oils using fluorescence spectroscopy. A.G. Ryder,  Reviews in Fluorescence 2005, Annual Volumes, Vol. 2, 169-198, (2005).  ISBN: 0-387-23628-7, Springer.  Invited Review. This is available online from the Springer website here (includes a free preview).

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    Conference papers (full):

    Some of these have been peer-reviewed.

  94. Fluorescence study of Bovine Serum Albumin and Ti and Sn Oxide Nanoparticles Interactions.  D.M. Togashi, A.G. Ryder, D. Mc Mahon, P. Dunne, and J. McManus.  Proc SPIE. Int. Soc. Opt. Eng., 6628, 66281K, (2007).  DOI: 10.1117/12.728354  [SPIE_2007_6628]
  95. A fluorescence methodology for assessing the polarity and composition of novel thermoresponsive hydrophilic/hydrophobic copolymer system.  (Invited Paper), A.G. Ryder, B. Szczupak, Y.A. Rotchev, A.S. Klymchenko, A. Gorelov, and T.J. Glynn.  Proc SPIE Int. Soc. Opt. Eng., 5826, 1-11, (2005).  DOI:10.1117/12.605117
  96. Qualitative and quantitative analysis of chlorinated solvents using Raman spectroscopy and machine learning. J. Conroy, A.G. Ryder, M.N. Leger, K. Hennessey, and M.G. Madden.  Proc SPIE Int. Soc. Opt. Eng ., 5826, 131-142, (2005).  DOI: 10.1117/12.605056
  97. Analysis of hydrocarbon bearing fluid inclusions (HCFI) using time-resolved fluorescence spectroscopy.  M.A. Przyjalgowski, A.G. Ryder, M. Feely, and T.J. Glynn.  Proc SPIE Int. Soc. Opt. Eng., 5826, 173-184, (2005).   DOI: 10.1117/12.605035  [ARAN download]
  98. Classification of a target analyte in solid mixtures using principal component analysis, support vector machines and Raman spectroscopy, M. O'Connell, A.G. Ryder, M.N. Leger, T. Howley, and M.G. Madden.  Proc SPIE  Int. Soc. Opt. Eng., 5826, 340-350, (2005).  DOI:  10.1117/12.605156  [ARAN download]
  99. Combining Genetic Algorithms, Neural Networks and Wavelet Transforms for Analysis of Raman Spectra. K. Hennessy, M.G. Madden, and A.G. Ryder, Proceedings of the 15th Irish Conference on Artificial Intelligence & Cognitive Science, Sept. 2004. [ full paper]
  100. An improved genetic programming technique for the classification of Raman spectra. K. Hennessy, M. G. Madden, J. Conroy, and A.G. Ryder. BCS Conference Series, Applications and Innovations in Intelligent Systems XII, Proceedings, 181-192, (2005). Springer, ISBN 1-85233-908-X.
  101. Time-delayed fluorescence imaging of a porphycene derivative. S. Gundy, W. Van der Putten, A. Shearer, D. Buckton, A.G. Ryder, and M. Ball. Proc SPIE Int. Soc. Opt. Eng. , 4952, 152-161, (2003).
  102. Fluorescence lifetime based pH sensing using Resorufin. A.G. Ryder, S. Power, and T.J. Glynn. Proc SPIE Int. Soc. Opt. Eng. , 4876, 827-835, (2003). DOI: 10.1117/12.463983 [Download full paper]
  103. Machine Learning Methods for Quantitative Analysis of Raman Spectroscopy Data. M.G. Madden and A. G. Ryder. Proc SPIE Int. Soc. Opt. Eng. , 4876, 1130-1139, (2003).  [ full paper]
  104. Time-Gated Fluorescence Imaging of Chloroaluminum Phthalocyanine Tetrasulfonate in a Tissue Phantom. S. Gundy, W. Van der Putten, A. Shearer, D. Buckton, A.G. Ryder, and M. Ball. Proc SPIE  Int. Soc. Opt. Eng. , 4876, 109-119, (2003).
  105. Influence of chemical composition on the fluorescence lifetimes of crude petroleum oils. A.G. Ryder, T.J. Glynn, and M. Feely. Proc SPIE  Int. Soc. Opt. Eng. , 4876, 1188-1195, (2003). DOI: 10.1117/12.463915  [Download here:  SPIE4876-204OptoIre]
  106. Time-resolved fluorescence studies of porphycene and tetrasulfonated phthalocyanine dyes in varying solvents, S. Gundy, W. Van der Putten, A. Shearer, A.G. Ryder, M. Ball. , Proc. SPIE Int. Soc. Opt. Eng vol. 4432 , 299-309, (2001). 
  107. Time-domain measurement of fluorescence lifetime variation with pH. A.G. Ryder, S. Power,  T.J. Glynn, & J.J. Morrison. Proc. SPIE vol. 4259 , 102-109, (2001).  DOI: 10.1117/12.432487

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    Other Articles:

  108. Rapid, low-cost, quantitative characterization of cell culture media using a combination of spectroscopic and chemometric methods.  A.G. Ryder, B. Li, and K.J. Leister.  International Drug Discovery, Oct./Nov. issue, 18-21, (2010). 
  109. Light  Emissions from Oil: A valuable Information source for petroleum analysis.  A.G. Ryder, P. Iwanski, and L. Montanari, TPoint, #2(June), 9-14, (2004). [Tpoint2004‌Download]

 

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Patents:

  1. SimI:  A mathematical Algorithm for the rapid comparison of multi-dimensional data for qualitative and quantitative analysis.  US 7,983,874 B2.  Boyan Li and Alan G. Ryder.  Patent granted in the US, 20/10/2011.
  2. European Patent no: EP2122332 B1:  An Ensemble method and apparatus for classifying materials and quantifying the composition of mixtures, K. Hennessy, T. Howley, M. Madden, and A.G. Ryder.   (Granted, 17/10/2012). Licensed to Analyze-IQ Ltd.
  3. US patent:  US8452716B2:  A kernel-based method and apparatus for classifying materials or chemicals and for quantifying the properties of materials or chemicals in mixtures using spectroscopic data, T. Howley, K. Hennessy, M. Madden, and A.G. Ryder.  Granted 28/05/2013.  Licensed to Analyze-IQ Ltd.

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Doctoral theses supervised:

  1. 2024, S. Grant (Chemistry), University of Galway.
    Title: Elemental Screening of Cell Culture Media using Microwave Plasma Atomic Emission Spectroscopy.  
  2. 2022, B. Boateng (Chemistry), National University of Ireland Galway.
    Title: Bioprocess Monitoring using Polarised Multidimensional Fluorescence (pMDF) Spectroscopy.  [ARAN download]
  3. 2021, F. Gordon (Chemistry), National University of Ireland Galway.
    Title: Anisotropy Resolved Multidimensional Emission Spectroscopy (ARMES) as a tool for biophysical analysis. [ARAN download]
  4. 2020, C. Van Zanten Coura, (Chemistry), National University of Ireland Galway.
    Title: Study of protein-polymer nanoparticle interactions using advanced fluorescence-based approaches:  Fluorescence Fluctuation Spectroscopy. [ARAN download]
  5. 2020, A.-L.  de Faria e Silva, (Chemistry), National University of Ireland Galway.
    Title: The study of protein chemical modification using polarized Excitation Emission Matrix (pEEM).   Available here for ARAN download.
  6. 2020, M. Steiner-Browne (Chemistry), National University of Ireland Galway. 2020
    Title: Anisotropy Resolved Multidimensional Emission Spectroscopy (ARMES) for the analysis of Immunoglobulin (IgG) type proteins. Available here for ARAN download.
  7. 2018, Y. Casamayou-Boucau, (Chemistry), National University of Ireland Galway.
    Title: Anisotropy Resolved Multi-dimensional Emission Spectroscopy (ARMES) for the analysis of insulin oligomer emission.  [ARAN download]
  8. 2018, P. Zarski, (Chemistry), National University of Ireland Galway.
    Title: Using Total Internal Reflection Fluorescence Microscopy (TIRFM) for studying Protein-surface interactions. [ARAN download]
  9. 2016, M.Z. Islam, (Chemistry), National University of Ireland Galway.
    Title: Studying the Fluorescence Emission Properties of 1,2,3 Triazine based Fluorophores in Polymer Thin Films.
  10. 2016, M. Kyne (Chemistry), National University of Ireland Galway.
    Title: Exploring a novel class of fluorophores: the 2,5‐dihydro‐1,2,3‐triazines.  Graduated, March 2017.
  11. 2016, R. Groza (Chemistry), National University of Ireland Galway.
    Title: Anisotropy Resolved Multi-dimensional Emission Spectroscopy (ARMES):  A new tool for the quantitative and structural analysis of proteins.  Available here for ARAN download.
  12. 2015, B. Kissane (Chemistry), National University of Ireland Galway.
    Title:  Development of Rapid Spectroscopic Methods for the Analysis of Cell Culture Media.
  13. 2014, M. Hennigan (Chemistry), National University of Ireland Galway.
    Title: Quantification of active pharmaceutical ingredients and polymorphs in tablets by spectroscopic means.  [ARAN download].
  14. 2013, R. McCarthy (Chemistry, co-supervised with D. Leech), National University of Ireland Galway.
    Title: On the development of analytical methods for percutaneous transluminal coronary angioplasty catheters and drug eluting stents. 
  15. 2012, A. Calvet (Chemistry), National University of Ireland Galway.
    Title: Multi-dimensional fluorescence spectroscopy for quantitative cell culture media analysis. [ARAN download]
  16. 2012, D. O'Shaughnessy (Chemistry), National University of Ireland Galway.
    Title: Spectroscopic Studies of Protein and Polymer Dynamics. 
  17. 2011, C. Morris (Chemistry), National University of Ireland Galway.
    Title: Quantitative, non-contact, measurements of the physicochemical properties of thermoresponsive polymers using fluorescence methods.  [ARAN download].
  18. 2010, R. Murray (Chemistry), National University of Ireland Galway.
    Title: Development of a wide-field fluorescence lifetime imaging microscope (WF-FLIM) system for Petro-Geological Analysis.
  19. 2010, P. Owens (Chemistry), National University of Ireland Galway.
    Title: Time-resolved fluorescence spectroscopy of crude petroleum oils.   [ARAN download].
  20. 2009, B. Szczupak (Physics), National University of Ireland Galway. 
    Title: Evaluation of polarity and hydrogen bonding ability of thermoresponsive N-isopropylacrylamide/N-tert-butylacrylamide co-polymer films using solvatochromic and fluorescence probes.
  21. 2008, M-L O'Connell (Chemistry), National University of Ireland Galway.
    Title:  Raman Spectroscopy and Chemometrics:the Quantitative Study of a Model System for Illicit Narcotic Detection.
  22. 2006, M. Przyjalgowski (Physics), National University of Ireland Galway.
    Title: Time-resolved fluorescence spectroscopic analysis of petroleum oils and hydrocarbon bearing fluid inclusions (HCFI), National University of Ireland-Galway.
  23. 2003, S. Power (Physics), National University of Ireland Galway.
    Title: Fluorescence Lifetime Based Sensing for pH monitoring.

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M.Sc. research theses supervised:

  1. 2023, S. Al-Zahrani,  M.Sc. Chemistry, University of Galway.
    Dissertation title: Detecting and Quantifying TiO2 Size Distribution and Oversizers in Ink Nanosuspensions by Resonance Light Scattering (RLS). 
  2. 2020, S. Murphy, M.Sc. Chemistry, National University of Ireland-Galway.
    Dissertation title:  Two-Dimensional Correlation FTIR Spectroscopy for Cell Culture Media Analysis.
  3. 2009, C-Y Chong, M.Sc. Chemistry, National University of Ireland-Galway.
    Dissertation title:  Development of Surface Enhanced Raman Spectroscopy Methods in the study of galactose, glucose, maltose and maltopentose.
  4. 2006, J. Conroy, M.Sc. Chemistry, National University of Ireland-Galway.
    Dissertation title:  Hazardous substance analysis using Raman spectroscopy and chemometrics.
  5. 2006,  S. Cawley, M.Sc. Physics, National University of Ireland-Galway.
    Dissertation title:  Quantitative surface enhanced Raman spectroscopy using colloid-hydropolymer matrices. 
  6. 2004, E. Murray-Hayden, M.Sc. Geology, National University of Ireland-Galway.
    Dissertation title:  The analysis of Crude Oils using Ultra-fast Fluorescence Lifetimes.

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Muckish, Co. Donegal. ©A. Ryder.