Publications

 

  1. Bibliography (full-length articles)

1994 | 1995 | 1996 | 1997 | 1998 | 1999 | 2000 | 2001 | 2002 | 2003 | 2004 | 2005 | 2006 | 2007 | 2008 | 2009 | 2010 | 2011 | 2012 | 2013 | 2014 | 2015 | 2016 | 2017 | 2018 | 2019 | 2020 | 2021 | 2022 | 2023 | 2024

Journal Covers (1997 – Present)

Review Articles (peer-reviewed)

Book Chapters

Editorials

Patents

    1. Bibliography (full-length articles)

      h-index as of November 20, 2023 is 76
      i10-index as of November 20, 2023 is 283
      Sum of the Times Cited as of November 20, 2023 is 17,649

      1994 • Back to top

      1. 1. “Quantitative Measurement of Cyclosporin A in Blood by Time-of-Flight Mass Spectrometry” D. C. Muddiman, A. I. Gusev, A. Proctor, D. M. Hercules, R. Venkataramanan, and W. Diven, Analytical Chemistry, 1994, 66, 14, 2362-2368.
      2. 2. “Characterization of Polystyrene on Etched Silver using Ion Scattering and X-ray Photoelectron Spectroscopy: Correlation of Secondary Ion Yield in Time-of-Flight SIMS with Surface Coverage” D. C. Muddiman, A. H. Brockman, A. Proctor, M. Houalla, and D. M. Hercules, Journal of Physical Chemistry, 1994, 44, 11570-11575.

      1995 • Back to top

      1. 3. “Simultaneous Quantification of Cyclosporin A and its Major Metabolites by TOF-SIMS and MALDI/TOF-MS Utilizing Data Analysis Techniques: A Comparison with High Performance Liquid Chromatography” D. C. Muddiman, A. I. Gusev, K. Stoppek Langner, A. Proctor, D. M. Hercules, P. Tata, R. Venkataramanan, and W. Diven, Journal of Mass Spectrometry, 1995, 30, 1469-1479 (1995).
      2. 4. “Application of Sequential Paired Covariance to Capillary Electrophoresis Electrospray Ionization Time-of-Flight Mass Spectrometry: Unraveling the Signal from the Noise in the Electropherogram” D. C. Muddiman, A. L. Rockwood, Q. Gao, J. C. Severs, H. R. Udseth, R. D. Smith and A. Proctor, Analytical Chemistry, 1995, 67, 4371-4375.

      1996 • Back to top

      1. 5. “Direct Quantification of Cocaine in Urine by Time-of-Flight Mass Spectrometry” D. C. Muddiman, A. I. Gusev, L. B. Martin, and D.M. Hercules, Fresenius’ Journal of Analytical Chemistry, 1996, 354, 103-110.
      2. 6. “Analysis of Double-stranded Polymerase Chain Reaction Products from the Bacillus cereus Group by Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” D. S. Wunschel, K. F. Fox, A. Fox, J. E. Bruce, D. C. Muddiman and R. D. Smith, Rapid Communications in Mass Spectrometry, 1996, 10, 29-35.
      3. 7. “Important Aspects Concerning the Quantification of Biomolecules by Time-of-Flight Secondary Ion Mass Spectrometry” D. C. Muddiman, A. J. Nicola, A. Proctor, and D. M. Hercules, Applied Spectroscopy, 1996, 50, 161-166.
      4. 8. “Enhancement of Ion Intensity in Time-of-Flight Secondary-Ionization Mass Spectrometry” A. J. Nicola, D. C. Muddiman, and D. M. Hercules, Journal of the American Society for Mass Spectrometry, 1996, 7, 467-472.
      5. 9. “Charge-State Reduction with Improved Signal Intensity of Oligonucleotides in Electrospray Ionization Mass Spectrometry” D. C. Muddiman, Xueheng Cheng, H. R. Udseth and R. D. Smith, Journal of the American Society of Mass Spectrometry, 1996, 7, 697-706.
      6. 10. “A Quantitative Study of in vitro Hepatic Metabolism of Tacrolimus (FK-506) Using Secondary Ion and Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry” A. I. Gusev, D. C. Muddiman, A. Proctor, A. G. Sharkey, D. M. Hercules, P. N. V. Tata, and R. Venkataramanan, Rapid Communications in Mass Spectrometry, 1996, 10, 1215-1218.
      7. 11. “Design and Self-Assembly of Nanoscale Organoplatinum Macrocycles” J. Manna, J. A. Whiteford, P. J. Stang, D. C. Muddiman, and R. D. Smith, Journal of the American Chemical Society, 1996, 118, 8731-8732.
      8. 12. “Characterization of PCR Products from Bacilli Using Electrospray Ionization FTICR Mass Spectrometry” D. C. Muddiman, D. S. Wunschel, C. Liu, L. Pasa-Tolic, K. F. Fox, A. Fox, G. A. Anderson, and R. D. Smith, Analytical Chemistry, 1996, 68, 3705-3712.

      1. 1997 • Back to top

      1. 13. “Length and Base Composition of PCR-Amplified Nucleic Acids Using Mass Measurements from Electrospray Ionization Mass Spectrometry” D.C. Muddiman, G.A. Anderson, S.A. Hofstadler, and R.D. Smith. Analytical Chemistry, 1997, 69, 1543-1549.
      2. 14. “Improving the Microdialysis Procedure for Electrospray Ionization-Mass Spectrometry of Biological Samples” C. Liu, D.C. Muddiman, K. Tang, and R.D. Smith. Journal of Mass Spectrometry, 1997, 32, 425-431.
      3. 15. “Molecular Architecture via Coordination: Marriage of Crown Ethers and Calixarenes with Molecular Squares, Unique Tetranuclear Metallamacrocycles from Metallacrown Ether and Metallacalixarene Complexes via Self-Assembly” P.J. Stang, D.H. Cao, K. Chen, G.M. Gray, D.C. Muddiman, and R.D. Smith. Journal of the American Chemical Society, 1997, 119, 22, 5163-5168.
      4. 16. “Application of Sequential Paired Covariance to Liquid Chromatography-Mass Spectrometry Data: Enhancements in Both the Signal-to-Noise Ratio and the Resolution of Analyte Peaks in the Chromatogram” D.C. Muddiman, B.M. Huang, G.A. Anderson, A. Rockwood, S.A. Hofstadler, M.S. Weir-Lipton, A. Proctor; Q. Wu, R.D. Smith, Journal of Chromatography A., 1997, 771, 1-7.
      5. 17. “Transition-Metal-Mediated Rational Design and Self-Assembly of Chiral, Nanoscale Supramolecular Polyhedra with Unique T-Symmetry” P.J. Stang, B. Olenyuk, D.C. Muddiman, and R.D. Smith. Organometallics, 1997, 16, 14, 3094-3096.
      6. 18. “Nanoscale Tectonics: Self-Assembly, Characterization, and Chemistry of a Novel Class of Organoplatinum Square Macrocycles” J. Manna, C.J. Kuehl, J.A. Whiteford, P.J. Stang, D.C. Muddiman, S.A. Hofstadler, and R.D. Smith. Journal of the American Chemical Society, 1997, 119, 48, 11611-11619.

      1998 • Back to top

      1. 19. “Heterogeneity in Bacillus cereus PCR Products Detected by ESI-FTICR Mass Spectrometry” D.S. Wunschel, D.C. Muddiman, K.F. Fox, A. Fox, and R.D. Smith, Analytical Chemistry, 1998, 70, 1203-1207.
      2. 20. “Nanoelectrospray Mass Spectrometry Using Non-Metalized Tapered (50  10 μm) Fused-Silica Capillaries” J.C. Hannis and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 1998, 12, 443-448.
      3. 21. “Comprehensive Nomenclature for the Fragment Ions Produced from Collisional Activation of Peptide Nucleic Acids” J.W. Flora and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 1998, 12, 759-762.

      1999 • Back to top

      1. 22. “Quantification of Singly-Charged Biomolecules by Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry using an Internal Standard” E.F. Gordon and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 13, 164-171 (1999).
      2. 23. “Characterization of a Microdialysis Approach to Prepare Polymerase Chain Reaction Products for Electrospray Ionization Mass Spectrometry Using On-Line Ultraviolet Absorbance Measurements and Inductively Coupled Plasma-Atomic Emission Spectroscopy” J.C. Hannis and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 1999, 13, 5, 323-330.
      3. 24. “Accurate Characterization of the Tyrosine Hydroxylase Forensic Allele 9.3 through Development of Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” J.C. Hannis and D.C. Muddiman. Rapid Communications in Mass Spectrometry, 1999, 13, 954-962.
      4. 25. “Precise Mass Measurement of a Double-Stranded 500 Base-Pair (309 kDa) Polymerase Chain Reaction Product by Negative Ion Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” D.C. Muddiman, A.P. Null and J.C. Hannis, Rapid Communications in Mass Spectrometry, 1999, 13, 1201-1204.
      5. 26. “Hydropathic Influences on the Quantification of Equine Heart Cytochrome c Using Relative Ion Abundance Measurements by Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” E.F. Gordon, B.A. Mansoori, C.F. Carroll, and D.C. Muddiman. Journal of Mass Spectrometry, 1999, 34, 10, 1055-1062.
      6. 27. “Consequences of Nucleic Acid Conformation on the Binding of a Trinuclear Platinum Drug” M.B.G. Kloster, J.C. Hannis, D.C. Muddiman, and N.P. Farrell. Biochemistry, 1999, 38, 45, 14731-14737.
      7. 28. “Hemoglobinase Activity of the Lysine Gingipain Protease (Kgp) of Porphyromonas gingivalis W83” J.P. Lewis, J.A. Dawson, J.C. Hannis, D.C. Muddiman and F.L. Macrina. Journal of Bacteriology, 1999, 181, 16, 4905-4913.

      2000 • Back to top

      1. 29. “Preparation of Single-Stranded PCR Products for Electrospray Ionization Mass Spectrometry Using the DNA Repair Enzyme Lambda Exonuclease” A.P. Null, J.C. Hannis, and D.C. Muddiman. The Analyst, 2000, 125, 4, 619-625.
      2. 30. “An Experimental and Theoretical Study of the Gas-Phase Decomposition on Mono-Protonated Peptide Nucleic Acids” J.W. Flora, D.D. Shillady, and D.C. Muddiman. Journal of the American Society for Mass Spectrometry, 2000, 11, 615-625.
      3. 31. “A Dual Electrospray Ionization Source Combined with Hexapole Accumulation to Achieve High Mass Accuracy of Biopolymers in Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” J.C. Hannis and D.C. Muddiman. Journal of the American Society for Mass Spectrometry, 2000, 11, 876-883.

      2001 • Back to top

      1. 32. “Homogeneous Preparations of 3’-Phosphogylcolate-Terminated Oligodeoxynucleotides from Bleomycin-Treated DNA as Verified by Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” S. Chen, J.C. Hannis, J.W. Flora, D.C. Muddiman, K. Charles, Y. Yu, L.F. Povirk. Analytical Biochemistry, 2001, 289, 274-280.
      2. 33. “Impact of Ion Cloud Densities on the Measurement of Relative Ion Abundances in Fourier Transform Ion Cyclotron Resonance Mass Spectrometry: Experimental Observations of Coulombically-Induced Cyclotron Radius Perturbations and Ion Cloud Dephasing Rates” E.F. Gordon and D.C. Muddiman, Journal of Mass Spectrometry, 2001, 36, 2, 195-203.
      3. 34. “Detection of Double-Stranded PCR Amplicons at the Attomole Level Electrosprayed from Low Nanomolar Solutions using FT-ICR Mass Spectrometry” J.C. Hannis and D.C. Muddiman. Frensius’ Journal of Analytical Chemistry, 2001, 369, 3/4, 246-251.
      4. 35. “Genotyping Short Tandem Repeats Using Flow Injection and Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” J.C. Hannis and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2001, 15, 348-350.
      5. 36. “High Mass Accuracy of Product Ions Produced by SORI-CID Using a Dual Electrospray Ionization Source Coupled with FTICR Mass Spectrometry” J.W. Flora, J.C Hannis and D.C. Muddiman, Analytical Chemistry, 2001, 73, 6, 1247-1251.
      6. 37. “Complete Sequencing of Mono-Deprotonated Peptide Nucleic Acids by Sustained Off-Resonance Irradiation Collision-Induced Dissociation” J.W. Flora and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2001, 12, 7, 805-809.
      7. 38. “Selective, Sensitive, and Rapid Phosphopeptide Identification in Enzymatic Digests Using ESI-FTICR-MS with Infrared Multiphoton Dissociation” J.W. Flora and D.C. Muddiman, Analytical Chemistry, 2001, 73, 3305-3311.
      8. 39. “Genotyping of Simple and Compound Short Tandem Repeat Loci Using Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” A.P. Null, J.C. Hannis, and D.C. Muddiman, Analytical Chemistry, 2001, 73, 4514-4521.

      2002 • Back to top

      1. 40. “CEPH Family 1362 STR Database: An Online Resource for Characterization of PCR Products Using Electrospray Ionization Mass Spectrometry” A.P. Null and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2002, 13, 1, 89-90.
      2. 41. “Solution Composition and Thermal Denaturation for the Production of Single-Stranded PCR Amplicons: Piperidine-Induced Destabilization of the DNA Duplex?” J. B. Mangrum, J.W. Flora, and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2002, 13, 3, 232-240.
      3. 42. “Evaluation of Sample Preparation Techniques for High-Sensitivity Mass Measurements of PCR Products using ESI-FT-ICR-MS” A.P. Null, L.T. George, and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2002, 13, 4, 338-344.
      4. 43. “Gas-Phase Ion Unimolecular Dissociation for Rapid Phosphopeptide Mapping by IRMPD in a Penning Ion Trap: An Energetically Favored Process” J.W. Flora and D.C. Muddiman, Journal of the American Chemical Society, 2002, 124, 23, 6546-6547.
      5. 44. “Dual-micro-ESI Source for Precise Mass Determination on a Quadrupole Time-of-Flight Mass Spectrometer for Genomic and Proteomic Applications” J.W. Flora, A.P. Null, and D.C. Muddiman, Analytical and Bioanalytical Chemistry, Advances in Optical Spectroscopy and Mass Spectrometry, 2002, 373, 7, 538-546.
      6. 45. “Tailoring the Gas-Phase Dissociation and Determining the Relative Energy of Activation for Dissociation of 7-Deaza Modified Oligonucleotides Containing a Repeating Motif” J.C. Hannis and D.C. Muddiman, International Journal of Mass Spectrometry and Ion Processes, 2002, 219, 139-150.

      2003 • Back to top

      1. 46. “1H NMR and electrospray mass spectrometry of the mono-ionized Bis(2,2-bis(4,5-dimethylimidazole)chloronitrosylruthenium(II) complex” T.W. Stringfield, K.V. Somayajula, D.C. Muddiman, J.F. Flora, and R.E. Shepherd, Inorganica Chemica Acta, 2003, 343, 317-328.
      2. 47. “Implications of Hydrophobicity and Free Energy of Solvation for Characterization of Nucleic Acids by Electrospray Ionization Mass Spectrometry” A.P. Null, A.I. Nepomuceno, and D.C. Muddiman, Analytical Chemistry, 2003, 75, 1331-1339.
      3. 48. “Advantages of Thermococcus kodakaraenis (KOD) DNA Polymerase for PCR-Mass Spectrometry Based Analyses” L.M. Benson, A.P. Null, and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2003, 14, 601-604.
      4. 49. “Mass Spectral Determination of Skeletal/Cardiac Actin Isoform Ratios in Cardiac Muscle” H.R. Bergen, III, K. Ajtai, T.P. Burghardt, A.I. Nepomuceno, and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2003, 17, 1467-1471.
      5. 50. “Determination of a Correction to Improve Mass Measurement Accuracy of Isotopically Unresolved Polymerase Chain Reaction Amplicons by Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” A.P. Null and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2003, 17, 1714-1722.
      6. 51. “Dual Electrospray Ionization Source for Confident Generation of Accurate Mass Tags Using Liquid Chromatography Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” A.I. Nepomuceno, D.C. Muddiman, H.R. Bergen, III, J.R. Craighead, M.J. Burke, P.E. Caskey, and J.A. Allan, Analytical Chemistry, 2003, 75, 3411-3418.
      7. 52. “Coordination-Driven Self-Assembly of Supramolecular Cages: Heteroatom-Containing and Complementary Trigonal Prisms.” Y.K. Kryschenko, S.R. Seidel, D.C. Muddiman, A.I. Nepomuceno, and P.J. Stang, Journal of the American Chemical Society, 2003, 125, 9647-9652.
      8. 53. “Naturally Processed Measles Virus Peptide Eluted From Class II HLA-DRB1*03 Recognized by T. Lymphocytes From Human Blood.” I.G. Ovsyannikova, K.L. Johnson, S. Naylor, D.C. Muddiman, and G.A. Poland, Virology, 2003, 312, 495-506.

      2004 • Back to top

      1. 54. “Identification and Characterization of Novel, Naturally Processed Measles Virus Class II HLA-DRB1 Peptides” I.G. Ovsyannikova, K.L. Johnson, D.C. Muddiman, R.A. Vierkant, G.A. Poland, Journal of Virology, 2004, 78, 42-51.
      2. 55. “Enzymatic Strategies for DNA Characterization by Electrospray Ionization Mass Spectrometry” A.P. Null, L.M. Benson, and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2003, 17, 2699-706.
      3. 56. “Determination of the Relative Energies of Activation for the Dissociation of Aromatic versus Aliphatic Phosphopeptides by ESI-FT-ICR-MS and IRMPD” J.W. Flora and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2004. 15, 121-127.
      4. 57. “Androgens Negatively Regulate Forkhead Transcription Factor FKHR (FOXO1) Through a Proteolytic Mechanism in Prostate Cancer Cells” H. Huang, D.C. Muddiman and D.J. Tindall, Journal of Biological Chemistry, 2004, 279, 13866-13877.
      5. 58. “A Method for Calculating 16O/18O Peptide Ion Ratios for the Relative Quantification of Proteomes” K.L Johnson and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2004, 15, 437-445.
      6. 59. “Informed Use of Proteolytic Inhibitors in Biomarker Discovery” H.R. Bergen, M.G. Klug, M.E. Bolander, D.C Muddiman, Rapid Communications in Mass Spectrometry, 2004, 18, 1001-1002.
      7. 60. “Utility of Accurate Monoisotopic Mass Measurements to Confidently Identify Lambda Exonuclease Generated Single-Stranded Amplicons Containing 7-Deaza Analogs by Electrospray Ionization FT-ICR Mass Spectrometry”, J.L. Frahm, C.J. Mason, and D.C. Muddiman, International Journal of Mass Spectrometry, 2004, 234, 79-87.
      8. 61. “Evaluation of a Cleavable Stable Isotope Labeled Synthetic Peptide for Absolute Protein Quantification using LC-MS/MS” D.R. Barnidge, G.D. Hall, J.L. Stocker, and D.C. Muddiman, Journal of Proteome Research, 2004, 3, 658-661.
      9. 62. “Absolute Quantification of the Model Biomarker Prostate-Specific Antigen in Serum by LC-MS/MS Using Protein Cleavage and Isotope Dilution Mass Spectrometry” D.R. Barnidge, M.K. Goodmanson, G.G. Klee, and D.C. Muddiman, Journal of Proteome Research, 2004, 3, 644-652.
      10. 63. “Analytical Performance of a Venturi Device Integrated into an Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometer for Analysis of Nucleic Acids” A.M. Hawkridge, L. Zhou, M.L Lee, and D.C. Muddiman, Analytical Chemistry, 2004, 76, 4118-4122.
      11. 64. “Discovery of Ovarian Cancer Biomarkers in Serum Using NanoLC Electrospray Ionization TOF and FT-ICR Mass Spectrometry” H. R. Bergen, III, G. Vasmatzis, W.A. Cliby, K.L. Johnson, A.L. Oberg and D.C. Muddiman, Disease Markers, 2003-2004, 19, 239-249.
      12. 65. “Identification of Transthyretin Variants using Sequential Proteomic and Genomic Analysis” H.R. Bergen, III, S.R. Zeldenrust, M.L. Butz, D.S. Snow, P.J. Dyck, P.J.B. Dyck, C.J. Klein, J.F. O’Brien, S.N. Thibodeau, and D.C. Muddiman, Clinical Chemistry, 2004, 50, 1544-1552.
      13. 66. “Detection of Genetic Variants of Transthyretin by LC Dual Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” A.I. Nepomuceno, C.J. Mason, D.C. Muddiman, H.R. Bergen, III and S.R. Zeldenrust, Clinical Chemistry, 2004, 50, 1535-1543.
      14. 67. “Analysis of the Low Molecular Weight Fraction of Serum by LC-DualESI-FT-ICR Mass Spectrometry: Precision of Retention Time, Mass, and Ion Abundance” K.L. Johnson, C.J. Mason, D.C. Muddiman, and J.E. Eckel, Analytical Chemistry, 2004, 76(17), 5097-5103.
      15. 68. “Accurate and Expedited Diagnosis of Amyloidotic Transthyretin Neuropathy: Proteomic and Genomic Approach” C.J. Klein, C.H. Kim, P.J.B. Dyck, S.R. Zeldenrust, H.R. Bergen, J.F. O’Brien, A.I. Nepomuceno, M.L. Butz, S.I. Thibodeau, Annuals of Neurology, 2004, 56 (8) S29.

      2005 • Back to top

      1. 69. “Derivatives of Pentamidine Designed to Target the Leishmania Lipophosphoglycan” K.L. Kramp, K. Buck, J.W. Flora, D.C. Muddiman, K.M. Slunt, T.A. Houston, Tetrahedron Letters, 2005, 46(4), 695-698.
      2. 70. “Effect of Post-Excitation Radius on Ion Abundance, Mass Measurement Accuracy, and Isotopic Distributions in Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” A.M. Hawkridge, A.I. Nepomuceno, S.L. Lovik, C.J. Mason, D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2005, 19(7), 915-918.
      3. 71. “Protein Expression Profiling of CLL B cells using Replicate Off-Line Strong Cation Exchange Chromatography and LC-MS/MS” D.R. Barnidge, R.C. Tschumper, D.F. Jelinek, D.C. Muddiman, and N.E. Kay, Journal of Chromatography B Analytical Technology Biomedical Life Sciences, 2005, 819, 33-39.
      4. 72. “Mapping Sites of Protein Phosphorylation by Mass Spectrometry Utilizing a
        Chemical-Enzymatic Approach: Characterization of Products from an a S1Casein Phosphopeptide” D.J. McCormick, M.W. Holmes, D.C. Muddiman, B.J. Madden, Journal of Proteome Research, 2005, 4(2), 424-434.
      5. 73. “Statistical Evaluation of Internal and External Calibration Laws Utilized in Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” D.C. Muddiman and A.L. Oberg, Analytical Chemistry, 2005, 77(8), 2406-2414.
      6. 74. “Leveling Response Factors in the Electrospray Ionization Process Using a Heated Capillary Interface” J.L. Frahm, M.J. Burke, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2005, 16(5), 772-778.
      7. 75. “Déjà vu all over again: SKIN-CAP is still available and still contains a high potency glucocorticosteroid” D.L. Swanson, M.R. Pittelkow, L.M. Benson, A.M. Hawkridge, D.C. Muddiman, Archives of Dermatology, 2005, 141(6), 801-803.
      8. 76. “Evaluation of Protein Depletion Methods for the Analysis of Total-, Phospho- and Glycoproteins in Lumbar Cerebrospinal Fluid” Y. Ogata, M.C. Charlesworth, D.C. Muddiman, Journal of Proteome Research, 2005, 4(3), 837-845.
      9. 77. “Primary Trabecular Meshwork Cells Incubated in Human Aqueous Humor Differ from Cells Incubated in Serum Supplements” M.P Fautsch, K.G. Howell, A.M. Vrabel, M.C. Charlesworth, D.C. Muddiman, D.H. Johnson, Investigative Ophthalmology and Vision Science, 2005, 46(8), 2848-2856.
      10. 78. “Quantitative Protein Expression Analysis of CLL B cells from Mutated and Unmutated IgVH Subgroups using Acid-Cleavable Isotope-Coded Affinity Tag Reagents” D.R. Barnidge, D.F. Jelinek, D.C. Muddiman, N.E. Kay, Journal of Proteome Research, 2005, 4 (4), 1310-1317.
      11. 79. “Coordination-Driven Self-Assemblies with a Carborane Backbone” H. Jude, H. Disteldorf, S. Fischer, T. Wedge, A.M. Hawkridge, A.M. Arif, M. F. Hawthorne, D. C. Muddiman, P. J. Stang, Journal of the American Chemical Society, 2005, 127, (34) 12131-12139.
      12. 80. “Normalization of Relative Peptide Ratios Derived from In Gel Digests: Applications to Protein Variant Analysis at the Peptide Level” H.R. Bergen, D.C. Muddiman, J.D. Hoyer, J.F. O’Brien, Rapid Communications in Mass Spectrometry, 2005, 19 (19), 2871-2877.
      13. 81. “Gentle Protein Ionization Assisted by High Velocity Gas Flow” P.Yang, R.G. Cooks, Z. Ouyang, A.M. Hawkridge, D.C. Muddiman, Analytical Chemistry, 2005, 77 (19), 6174-6183.
      14. 82. “Accurate Mass Precursor Ion Data and Tandem Mass Spectrometry Identify a HLA Class I Peptide Originating from Vaccinia Virus” K.L. Johnson, B.J. Madden, I.G. Ovsyannikova, G.A. Poland, D.C. Muddiman, Journal of the  American Society for Mass Spectrometry, 2005, 16(11), 1812-1817.
      15. 83. “Quantitative Mass Spectral Evidence for the Absence of Circulating Brain Natriuretic Peptide (BNP-32) in Severe Human Heart Failure” A.M. Hawkridge, D. M. Heublein, H. R. Bergen, III, J. C. Burnett, Jr., D. C.  Muddiman, Proceedings of the National Academy of Sciences USA, 2005, 102(48) 17442-17447.
      16. 84. “Identification of Class II HLA-DRB1*03-restricted Measles Virus Peptides by 2D-Liquid Chromatography Tandem Mass Spectrometry” K.L. Johnson, I.G. Ovsyannikova, G.A. Poland, D.C. Muddiman, Journal of Proteome Research, 2005, 4(6), 2243-2249.
      17. 85. “Reproducibility of Retention Time using a Splitless nanoLC Coupled to an ESI-FTICR Mass Spectrometer” D.C. Muddiman, C.J. Mason, and K.L. Johnson, Journal of Biomolecular Techniques, 2005, 16, 4, 414-422. (not abstracted)

      2006 • Back to top

      1. 86. “Chromatin Assembly Factor-1 Interacts with Histone H3 Methylated at Lysine 79 in the Processes of Epigenetic Silencing and DNA Repair” H. Zhou. B.J. Madden, D.C. Muddiman, Z. Zhang, Biochemistry, 2006, 45(9), 2852-2861.
      2. 87. “Identification of subunit-subunit interactions in bacteriophage P22 procapsids by chemical cross-linking and mass spectrometry” S. Kang, A. M. Hawkridge, K. L. Johnson, D. C. Muddiman, P.E Prevelige, Journal of Proteome Research, 2006, 5, 2, 370-377.
      3. 88. “Accessible Proteomics Space and its Implications for Peak Capacity for Zero-, One- and Two- Dimensional Separations Coupled with FT-ICR and TOF Mass Spectrometry” J.L Frahm, B.E. Howard, S. Heber, D.C. Muddiman, Journal of Mass Spectrometry, 2006, 41, 3, 281-288.
      4. 89. “Molecular Architecture via Coordination: Self-Assembly of Nanoscale Hexagonal Metallodendrimers with Designed Building Blocks” H. Yang, N. Das, F. Huang, A.M. Hawkridge, D.C. Muddiman, P.J. Stang, Journal of American Chemical Society, 2006, 128 (31), 10014-10015.
      5. 90. “Incorporation of 2,6-Di(4,4’-dipyridyl)-9-Thiabicyclo[3.3.1]nonane into Discrete 2D Supramolecules via Coordination-Driven Self-Assembly” H. Yang, N. Das, F. Huang, A.M. Hawkridge, D.D. Diaz, A.M. Arif, M.G. Finn, D.C. Muddiman, and P.J. Stang, Journal of Organic Chemistry, 2006, 71 (17) 6644-6647.
      6. 91. “Direct High Resolution Protein Analysis by Desorption Electrospray Ionization (DESI) Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” M.S. Bereman, L. Nyadong, F.M. Fernandez, D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2006, 20 (22) 3409-3411.
      7. 92. “Elevated Levels of Phosphorylated Fibrinogen Alpha Isoforms and Differential Expression of Other Post-translationally Modified Proteins in the Plasma of Ovarian Cancer Patients” Y. Ogata, C.J. Holtz-Hepplman, M.C. Charlesworth, W.A. Cliby, H.R. Bergen III, D.A. Saggese, D.C. Muddiman, Journal of Proteome Research, 2006, 5(12), 3318-3325.
      8. 93. “Generation and Detection of Multiply-Charged Peptides and Proteins by Matrix-Assisted Laser Desorption Electrospray Ionization (MALDESI) Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” J.S. Sampson, A.M. Hawkridge, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2006, 17 (12), 1712-1716.

      2007 • Back to top

      1. 94. “Sub Parts-Per-Million Mass Measurement Accuracy of Intact Proteins and Product Ions Achieved using a Dual Electrospray Ionization Quadrupole
        Fourier Transform Ion Cyclotron Resonance Mass Spectrometer” D.K. Williams, Jr., A.M. Hawkridge, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2007, 18, 1-7.
      2. 95. “Coordination-Driven Self-Assembly of Metallodendrimers Possessing Well- Defined and
        Controllable Cavities as Cores” H Yang, A.M. Hawkridge, S.D. Huang, N. Das, S.D. Bunge, D.C. Muddiman, P.J. Stang, Journal of the American Chemical Society, 2007, 129 (7), 2120-2129.
      3. 96. “A Method for Automatically Interpreting Mass Spectra of 18O Labeled Isotopic Clusters” C.J. Mason, T.M. Therneau, J.E. Eckel-Passow, K.J. Johnson, A.L. Oberg, J.E. Olson, K.S. Nair, D.C. Muddiman, H.R. Bergen, III, Molecular and Cellular Proteomics, 2007, 6, (2), 305-318.
      4. 97. “Effect of Matrix Crystal Structure on Ion Abundance of Carbohydrates by Matrix-Assisted Laser Desorption/Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” T.I. Williams, D.A. Saggese, R.J. Wilcox, J.D. Martin, and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2007, 21(5), 807-811.
      5. 98. “Understanding the Influence of Post-Excite Radius and Axial Confinement on Quantitative Proteomic Measurements using Fourier Transform-Ion Cyclotron Resonance Mass Spectrometry” J.L. Frahm, C.M. Capo-Velez, D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2007, 21 (7), 1196-1204.
      6. 99. “Direct Characterization of Intact Polypeptides by Matrix-Assisted Laser Desorption Electrospray Ionization (MALDESI) Quadrupole Fourier Transform Ion Cyclotron Resonance Mass Spectrometry, J.S. Sampson, A.M. Hawkridge, D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2007, 21 (7), 1150-1154.
      7. 100. “Achieving Augmented Limits of Detection for Peptides with Hydrophobic Alkyl Tags (ALiPHAT)” J.L. Frahm, I.D. Bori, D.L. Comins, A.M. Hawkridge, D.C. Muddiman, Analytical Chemistry, 2007, Accelerated Article, 79, 11, 3989-3995. Note: This manuscript was dedicated to the late A.G. Sharkey.
      8. 101. “Detection of Attomole Amounts of Analyte by Desorption Electrospray Ionization Mass Spectrometry (DESI-MS) Determined using Fluorescence Spectroscopy”, M.S. Bereman, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2007, 18 (6), 1093-1096.
      9. 102. “Parts-Per-Billion Mass Measurement Accuracy Achieved through the Combination of Multiple Linear Regression and Automatic Gain Control in a Fourier Transform Ion Cyclotron Resonance Mass Spectrometer” D.K. Williams and D.C. Muddiman, Analytical Chemistry, 2007, 79, 13, 5058-5063. Note: This manuscript was dedicated to Professor David M. Hercules
      10. 103. “Quantitative Comparison of a Flared and a Standard Heated Metal Capillary Inlet with a Voltage-Assisted Air Amplifier on an Electrospray Ionization Linear Ion Trap Mass Spectrometer” R.B. Dixon and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2007, 21, (19), 3207-3212.
      11. 104. “(Details of) The Structure Determination of the Sulfated Steriods PSDS and PADS-New Components of the Sea Lamprey (Petromyzon marinus) Migratory Pheromone” T.R. Hoye, V. Dvornikovs, J.M. Fine, K.R. Anderson, C.S. Jeffrey, D.C. Muddiman, F. Shao, P.W. Sorensen, and J. Wang, Journal of Organic Chemistry, 2007, 72 (20), 7544-7550.
      12. 105. “Dual Electrospray Ionization Source for Electron-Transfer Dissociation on a Hybrid Linear Ion Trap-Orbitrap Mass Spectrometer” D.K. Williams, G.C. McAlister, D.M. Good,  J.J. Coon, D.C. Muddiman, Analytical Chemistry, 2007, 79, (20), 7916-7919.
      13. 106. “Remote Mass Spectrometric Sampling of Electrospray and Desorption Electrospray-Generated Ions Using an Air Ejector” R.B. Dixon, M.S. Bereman, D.C. Muddiman, A.M. Hawkridge, Journal of the American Society for Mass Spectrometry, 2007, 18, (10), 1844-1847.
      14. 107. “Differential Protein Expression in Male and Female Human Lumbar Cerebrospinal Fluid using iTRAQ Reagents after Abundant Protein Depletion” Y. Ogata, M.C. Charlesworth, L. Higgins, B.M. Keegan, S. Vernino, and D.C. Muddiman, Proteomics, 2007, 7, (20), 3726-3734.
      15. 108. “Probing the Mechanisms of an Air Amplifier using a LTQ-FT-ICR-MS and Fluorescence Spectroscopy” R.B. Dixon, D.C. Muddiman, A.M. Hawkridge, A.G. Fedorov, Journal of the American Society for Mass Spectrometry, 2007, 18, (11), 1909-1913.
      16. 109. “Carbohydrate Analysis by Desorption Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” M.S. Bereman, T.I. Williams, D.C. Muddiman, Analytical Chemistry, 2007, 79, (22), 8812-8815.
      17. 110. “A Highly Efficient Approach to the Self-assembly of Hexagonal Cavity-Cored Tris[2]pseudorotaxanes from Several Components via Multiple Noncovalent Interactions” H.B. Yang, K. Ghosh, B.H. Northrop, Y.R. Zheng, M.M. Lyndon, D.C. Muddiman, P.J. Stang, Journal of the American Chemistry Society, 2007, 129, (46), 14187.

      2008 • Back to top

      1. 111. “A New Family of Multiferrocene Complexes with Enhanced Control of Structure and Stoichiometry via Coordination-Driven Self-Assembly and their Electrochemistry” H.B.Yang, K. Ghosh, Y. Zhao, B.H. Northrop, M.M. Lyndon, D.C. Muddiman, H.S. White, P.J. Stang, Journal of the American Chemical Society, 2008, 130 (3), 839.
      2. 112. “Synthesis, Characterization, and Application of Iodoacetamide Derivatives Utilized for the ALiPHAT Strategy” D.K. Williams, C.W. Meadows, I.D. Bori, A.M. Hawkridge, D. Comins, D.C. Muddiman, Journal of the American Chemical Society, 2008, 130 (7), 2122.
      3. 113. “Human Proteinpedia Enables Sharing of Human Protein Data” Mathivanan S, Ahmed M, Ahn NG, et al., Nature Biotechnology, 2008, 26 (2), 164-167.
      4. 114. “Coordination-Driven Self-Assembly of Cavity-Cored Multiple Crown Ether Derivatives and poly[2]pseudorotaxanes” K. Ghosh, H.B. Yang, B.H. Northrop, M.M. Lyndon, Y.R. Zheng, D.C. Muddiman, P.J. Stang, Journal of the American Chemical Society, 2008, 130 (15), 5320-5334.
      5. 115. “Effect of Plasma Protein Depletion on BNP-32 Recovery“ A.M. Hawkridge, D.C.
        Muddiman, Clinical Chemistry, 2008, 54 (5), 933-934.
      6. 116. “Mass Measurement Accuracy Comparisons Between a Double-Focusing Magnetic Sector and a Time-of-Flight Mass Analyzer” M.S. Bereman, M.M. Lyndon, R.B. Dixon, D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2008, 22 (10), 1563-1566.
      7. 117. “Studying O-linked Protein Glycosylations in Human Plasma“ T.I. Williams, D.A. Saggese, D.C. Muddiman, Journal of Proteome Research, 2008, 7 (6), 2562-2568.
      8. 118. “Coordination-Driven Face-Directed Self-Assembly of Trigonal Prisms. Face-Based Conformational Chirality”, D.C. Caskey, T. Yamamoto, C. Addicott, R.K. Shoemaker, J. Vacek, A.M. Hawkridge, D.C. Muddiman, G.S. Kottas, J. Michl, P.J. Stang, Journal of the American Chemical Society, 2008, 130 (24), 7620-7628.
      9. 119. “Ambient Aerodynamic Ionization Source for Remote Analyte Sampling and Mass Spectrometric Analysis” R.B. Dixon, J.S. Sampson, A.M. Hawkridge, D.C. Muddiman, Analytical Chemistry, 2008, 80 (13) 5266-5271.
      10. 120. “Top-Down Identification and Quantification of Stable Isotope Labeled Proteins from Aspergillus Flavus using Online Nano-Flow Reversed-Phase Liquid Chromatography Coupled to a LTQ-FTICR Mass Spectrometer “ T.S. Collier, A.M. Hawkridge, D.R. Georgianna, G.A. Payne, D.C. Muddiman, Analytical Chemistry, 2008, 80 (13), 4994-5001.
      11. 121. “Temperature-Dependent Regulation of Proteins in Aspergillus flavus: Whole Organism Stable Isotope Labeling by Amino Acids” D. R. Georgianna, A.M. Hawkridge, D.C. Muddiman, G.A. Payne, Journal of Proteome Research, 2008, 7 (7), 2973-2979.
      12. 122. “Development and Characterization of an Ionization Technique for Analysis of Biological Macromolecules: Liquid Matrix-Assisted Laser Desorption Electrospray Ionization” J.S. Sampson, A.M. Hawkridge, D.C. Muddiman, Analytical Chemistry, 2008, 80 (17), 6773-6778.
      13. 123. “Investigations with O-linked Protein Glycosylations by Matrix-assisted Laser Desorption/Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” T.I. Williams, et al. Journal of Mass Spectrometry, 2008, 43, 1215-1223.
      14. 124. “Calibration Laws Based on Multiple Linear Regression Applied to Matrix-Assisted Laser Desorption / Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry” D.K. Williams, Jr., M.A. Chadwick, T.I. Williams, D.C. Muddiman, Journal of Mass Spectrometry, 2008, 43, 12, 1659-1663.
      15. 125. “Construction of a Versatile High Precision Ambient Ionization Source for Direct Analysis and Imaging” J. S. Sampson, A.M. Hawkridge, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2008, 19, 1527-1534.

      2009 • Back to top

      1. 126. “Absolute Quantification of C-Reactive Protein in Human Plasma Derived from Patients with Epithelial Ovarian Cancer Utilizing Protein Cleavage Isotope Dilution Mass Spectrometry” D.K. Williams, Jr. and D.C. Muddiman, Journal of Proteome Research. 2009, 8(2), 1085-1090.
      2. 127. “Development of a nanoLC LTQ Orbitrap Mass Spectrometric Method for Profiling Glycans Derived from Plasma from Healthy, Benign Tumor Control, and Epithelial Ovarian Cancer Patients” M.S. Bereman, T.I. Williams and D.C. Muddiman, Analytical Chemistry, 2009, 81(3), 1130-1136.
      3. 128. “Proteomic Characterization of Cell Membrane Blebs in Human Retinal Pigment Epithelium Cells” O. Alcazar, A.M. Hawkridge, T.S. Collier, S.K. Bhattacharya, D.C. Muddiman, M.E. Marin-Castano, Molecular and Cellular Proteomics, 2009, 2201-2211.
      4. 129. “Generation of Multiply-Charged Peptides and Proteins by Radio Frequency Acoustic Desorption and Ionization for Mass Spectrometric Detection” R.B. Dixon, J.S. Sampson, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2009, 20(4), 597-600.
      5. 130. “Intact and Top-Down Characterization of Biomolecules and Direct Analysis using Infrared Matrix-Assisted Laser Desorption Electrospray Ionization Coupled to FT-ICR
        Mass Spectrometry” J.S. Sampson, K.K. Murray, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2009, 20(4), 667-673.
      6. 131. “Coupling of a Vented Column with Splitless nanoRPLC-ESI-MS for the Improved Separation and Detection of Brain Natriuetic Peptide-32 and its Proteolytic Peptides” G.L. Andrews, C.M. Shuford, J.C. Burnett Jr., A.M. Hawkridge, and D.C. Muddiman, Journal of Chromatography B, 2009, 877(10), 948-954.
      7. 132. “Synthesis of Six-Component Metallodendrimers via [3+3] Coordination-Driven Self-Assembly”, H.B. Yang, B.H. Northrop, Y.R. Zheng, K. Ghosh, M.M. Lyndon, D.C. Muddiman, P.J. Stang, Journal of Organic Chemistry, 2009, 74(9), 3524-3527.
      8. 133. “Atmospheric Pressure Infrared (10.6 m) Laser Desorption Electrospray Ionization (IR-LDESI) Coupled to a LTQ Fourier Transform Ion Cyclotron Resonance Mass Spectrometer”, J.S. Sampson and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2009, 23, 13, 1989-1992.
      9. 134. “Development of a Robust and High Throughout Method for Profiling N-Linked Glycans Derived from Plasma Glycoproteins by NanoLC-FTICR Mass Spectrometry”, Journal of Proteome Research, 2009, 8, 7, 3764-3770.
      10. 135. “Utilizing Artificial Neural Networks in MATLAB to Achieve Parts-Per-Billion Mass Measurement Accuracy with a Fourier Transform Ion Cyclotron Resonance Mass Spectrometer”, D.K. Williams, Jr., A.L. Kovach, D.C. Muddiman, K.W. Hanck, Journal of the American Society for Mass Spectrometry, 2009, 20, 7, 1303-1310.
      11. 136. “Tandem Mass Spectrometry of Thiolate-Protected Au Nanoparticles NaxAu25(SC2H4Ph)18-y(S(C2H4O)5CH3)y,” C.A. Fields-Zinna, J.S. Sampson, M.C. Crowe, J.B. Tracy, J.F. Parker, A.M. deNey, D.C. Muddiman, R.W. Murray, Journal of the American Chemical Society, 2009, 131, 88, 13844-13851.
      12. 137. “Evaluation of the ALiPHAT Method for PC-IDMS and Correlation of Limits-of-Detection with Non-Polar Surface Area”, D.K. Williams, Jr., D.L. Comins, J.L. Whitten, and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2009, 20, 11, 2006-2012.
      13. 138. “Characterization of Charge Separation in the Array of Micromachined UltraSonic Electrospray (AMUSE) Ion Source for Mass Spectrometry”, T.P. Forbes, R.B. Dixon, D.C. Muddiman, F.L. Degertekin, and A.G. Fedorov, Journal of the American Society for Mass Spectrometry, 2009, 20, 1684-1687.
      14. 139. “Species-Dependent Hepatic Metabolism of Immunosuppressive Agent Tacrolimus (FK-506)”, P.N.V. Tata, N. Subbotina, G.J. Burckart, D.C. Muddiman, A.I. Gusev, D.M. Hercules, T.E. Starzl, R. Venkataramanan, Xenobiotica, 2009, 39, 10, 757-765. (1)

      2010 • Back to top

      1. 140. “Binding Site on Human Immunoglobulin G for the Affinity Ligand HWRGWV”, H. Yang , P.V. Gurgel, D.K. Williams Jr, B.G. Bobay, J. Cavanagh, D.C. Muddiman and R.G. Carbonell, Journal of Molecular Recognition, 2010, 23, 3, 271-282.
      2. 141. “Detection of Alternative Splice Variants at the Proteome Level in a Prototrophic Organism: Aspergillus Flavus” K-Y Chang, D. R. Georgianna, S. Heber, G. A. Payne, and D. C. Muddiman, Journal of Proteome Research, 2010, 9, 3, 1209-1217.
      3. 142. “Increasing the Hydrophobicity and Electrospray Response of Glycans through Derivatization with Novel Hydrazides” M.S. Bereman, D.L. Comins and D.C. Muddiman, Chemical Communications, 2010, 46, 237-239.
      4. 143. “Improving Limits of Detection for B-type Natriuretic Peptide using PC-IDMS: An Application of the ALiPHAT Strategy” C.M. Shuford, D.L. Comins, J.L. Whitten, J.C. Burnett, D.C. Muddiman, Analyst, 2010, 135, 1, 36-41.
      5. 144. “The Effects of Abundant Plasma Protein Depletion on Global Glycan Profiling using NanoLC FT-ICR Mass Spectrometry” M.S. Bereman, D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2010, 396, 4, 1473-1479.
      6. 145. “Study of the Ionization Mechanism in Hybrid Laser Based Desorption Techniques” R.B. Dixon, D.C. Muddiman, Analyst, 2010, 135, 5, 880-882.
      7. 146. “Quantitative Top-Down Proteomics of SILAC Labeled Human Embryonic Stem Cells” T.S. Collier, P. Sarkar, B. Rao, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2010, 21, 6, 879-889.
      8. 147. “Interplay of Permanent Charge and Hydrophobicity in the Electrospray Ionization of Glycans” S.H. Walker, B.N. Papas, D.L. Comins and D.C. Muddiman, Analytical Chemistry, 2010, 82, 15, 6636-6642.
      9. 148. “Measuring the Intra-individual Variability of the Plasma Proteome in the Chicken Model of Spontaneous Ovarian Adenocarcinoma” A.M. Hawkridge, R.B. Wysocky, J.N. Petitte, K.E. Anderson, P.E. Mozdiak, O.J. Fletcher, J.M. Horowitz, D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2010, 398, 2, 737-749.
      10. 149. “Direct Comparison of Stable Isotope Labeling by Amino Acids in Cell Culture and Spectral Counting for Quantitative Proteomics”, T.S. Collier, P. Sarkar, W.L. Franck, B.M. Rao, R.A. Dean, D.C. Muddiman, Analytical Chemistry, 2010, 82, 8696-8702.
      11. 150. “Self-Assembly of Dendritic Tris(crown ether) Hexagons and their Complexation with Dibenzylammonium Cations”, X.D. Xu, Y.B. Yang, Y.R. Zheng, Journal of Organic Chemistry, 2010, 75, 21, 7373-7380.
      12. 151. “Utilizing Spectral Counting to Quantitatively Characterize Tandem Removal of Abundant Proteins (TRAP) in Human Plasma” C.M. Shuford, A.M. Hawkridge, J.C. Burnett Jr., D.C. Muddiman, Analytical Chemistry, 2010, 82, 24, 10179-10185.
      13. 152. “Part I: Characterization of the Extracellular Proteome of the Extreme Thermophile Caldicellulosiruptor saccharolyticus by GeLC-MS2″, G.L. Andrews, D.L. Lewis, J.S. Notey, R.M. Kelly, and D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2010, 398, 1, 377-389.
      14. 153. “Part II: Defining and Quantifying Individual and Co-cultured Intracellular Proteomes of Two Thermophilic Microorganisms by GeLC-MS2 and Spectral Counting”, G.L. Andrews, D.L. Lewis, J.S. Notey, R.M. Kelly, and D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2010, 398, 1, 391-404.
      15. 154. “Facile Self-Assembly of Dendritic Multiferrocenyl Hexagons and Their Electrochemistry” Guang-Zhen Zhao, Li-Jun Chen, Cui-Hong Wang, Hai-Bo Yang, Koushik Ghosh, Yao-Rong Zheng, Matthew M. Lyndon, David C. Muddiman, and Peter J. Stang, Organometallics, 2010, 29 (22), 6137–6140.

      2011 • Back to top

      1. 155. “Increasing Proteome Coverage with Offline RP HPLC Coupled to Online RP nanoLC-MS” E Gokce, G.L. Andrews, R.A. Dean, D.C. Muddiman, Journal of Chromatography B, 2011, 879, 9-10, 610-614.
      2. 156. “Improving Proteome Coverage on a LTQ-Orbitrap Using Design of Experiments” G.L. Andrews, R.A. Dean, A.M. Hawkridge, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2011, 22, 4, 773-783.
      3. 157. “One-Year N-linked Glycome Intra-Individual and Inter-Individual Variability in the Chicken Model of Spontaneous Ovarian Adenocarcinoma” R.B. Dixon, M.S. Bereman, J.N. Petitte, A.M. Hawkridge, D.C. Muddiman, International Journal of Mass Spectrometry, 2011, 305, 2-3, 79-86. (Special Issue in Honor of Professor Cathy Costello for the Franklin-Field Award)
      4. 158. “Design, Modelling, Fabrication, and Evaluation of the Air Amplifier for Improved Detection of Biomolecules by Electrospray Ionization Mass Spectrometry” G. Robichaud, R.B. Dixon, A.S. Potturi, D. Cassidy, J.R. Edwards, A. Sohn, T.A. Dow, D.C. Muddiman, International Journal of Mass Spectrometry, 2011, 300, 2-3, 99-107. (Special Issue in Honor of Scientific Career of Professor John Fenn)
      5. 159. “Identification of Alternative Splice Variants in Aspergillus flavus through Comparison of Multiple Tandem MS Search Algorithms” K-Y Chang, D.C. Muddiman, BMC Genomics, 2011, 12, 358.
      6. 160. “Increasing Biological Depth of Global Proteome Analyses using the High Speed Sequencing Capabilities on a Hybrid Triple Quadrupole Time-of-Flight Tandem Mass Spectrometer” G. L. Andrews, B.L. Simons, J.B. Young, A.M. Hawkridge, D.C. Muddiman, Analytical Chemistry, 2011, in revision
      7. 161. “Hydrophobic Derivatization of N-linked Glycans for Increased Ion Abundance in Electrospray Ionization Mass Spectrometry” S.H. Walker, L.M. Lilley, M.F. Enamorado, D.L. Comins, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2011, 22, 8, 1309-1317.
      8. 162. “Comparison of Stable Isotope Labeling by Amino Acids in Cell Culture and Spectral Counting for the Relative Quantification of Protein Expression”, T.S. Collier, S.M. Randall, P. Sarkar, B.M, Rao, R.A. Dean and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2011, 25, 17, 2524-2532.
      9. 163. “Evaluation of Normalization Methods on GeLC-MS/MS Label-Free Spectral Counting Data to Correct for Variation during Proteomic Workflows”, E. Gokce1, C.M. Shuford, William L. Franck, R.A. Dean, and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2011, 22, 12, 2269-2275.
      10. 164. “Spectral Accuracy and Sulfur Counting Capabilities of the LTQ-FT and the LTQ-Orbitrap for Small Molecule Analysis”, S.L. Blake, S.H. Walker, D.C. Muddiman, D. Hinks, K.R. Beck, Journal of the American Society for Mass Spectrometry, 2011, 22, 12, 2269-2275.
      11. 165. “Stable-Isotope Labeled Hydrophobic Hydrazide Reagents for the Relative Quantification of N-linked Glycans by Electrospray Ionization Mass Spectrometry”, S.H. Walker, J. Budhathoki-Uprety, B.M. Novak, and D.C. Muddiman, Analytical Chemistry, 2011, 83, 17, 6738-6745.
      12. 166. “Global Optimization of the IR Matrix-Assisted Laser Desorption Ionization (IR MALDESI) Source for Mass Spectrometry Using Statistical Design of Experiments” J.A. Barry and D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2011, 25, 23, 3527-3536.
      13. 167. “Facile Self-Assembly of Supramolecular Hexakisferrocenyl Triangles via Coordination-Driven Self-Assembly and Their Electrochemical Behavior” Z. Guang-Zhen, L. Quan-Jie, L.J. Chen, H.W. Tan, C.H. Wang, D.A. Lehman, D.C. Muddiman, H.B. Yang, Organometallics, 2011, 30, 13, 3637-3642.
      14. 168. “Membrane Protein Complexes Catalyze both 4- and 3-hydroxylation of cinnamic acid Derivatives in Monolignol Biosynthesis”, H.C. Chen, Q.Z. Li, C.M. Shuford, J. Liu, D.C. Muddiman, R.R. Sederoff, V.L. Chiang, Proceedings of the National Academy of Sciences of the United States of America, 2011, 108, 52, 21253-21258.

      2012 • Back to top

      1. 169. “Absolute Quantification of Glutathione and Cysteine in Aquatic Insects using Isotope Dilution and Selected Reaction Monitoring” C.M. Shuford, M.D. Poteat, D.B. Buchwalter, D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2012, 402, 1, 357-366.
      2. 170. “The Subcellular Proteome of Undifferentiated Human Embryonic Stem Cells”, P. Sarkar, T.S. Collier, S.M. Randall, D.C. Muddiman, B.M. Rao, Proteomics, 2012, 12, 3, 421-430.
      3. 171. “Comprehensive Quantification of Monolignol-pathway Enzymes in Populus trichocarpa by Protein Cleavage Isotope Dilution Mass Spectrometry”, C.M. Shuford, Q. Li, Y-H Sun, H-C Chen, J. Wang, R. Shi, R.R. Sederoff, V.L. Chiang, D.C. Muddiman, Journal of Proteomics Research, 2012, 11, 6, 3390-3404.
      4. 172. “Evidence for Complex Molecular Architectures for Solvent-Extracted Lignins”, S.E. Harton, S.V. Pingali, G.A. Nunnery, D.A. Baker, S.H. Walker, D.C. Muddiman, T. Koga, T.G. Rials, V.S. Urban, and P. Langan, ACS Macro Letters, 2012, 1, 5, 568-573.
      5. 173. “Peptide production and decay rates affect the quantitative accuracy of protein cleavage isotope dilution mass spectrometry (PC-IDMS), C.M. Shuford, R.R. Sederoff, V.L. Chiang, and D.C. Muddiman, Molecular & Cellular Proteomics, 2012, 1, 9, 814-823.
      6. 174. “Functional redundancy of the two 5-hydroxylases in monolignol biosynthesis of Populus trichocarpa: LC-MS/MS based protein quantification and metabolic flux analysis”, J.P. Wang, C.M. Shuford, Q. Li, J. Song, Y.C. Lin, Y.H. Sun, H.C. Chen, C.M. Williams, D.C. Muddiman, R.R. Sederoff and V.L. Chiang, Planta, 2012, 236, 3, 795-808.
      7. 175. “Polyubiquitin is Required for Growth, Development, and Pathogenicity in the Rice Blast Fungus Magnaporthe oryzae” PLOS ONE, 2012, 7, 8, e42868.
      8. 176. “Multi-peptide nLC-PC-IDMS-SRM-based Assay for the Quantification of Biomarkers in the Chicken Ovarian Cancer Model”, G.L. Andrews-Kingon, J.N. Petitte, D.C. Muddiman, A.M. Hawkridge, Methods, 2012, submitted.
      9. 177. “Villous cytotrophoblasts from human embryonic stem cells are multipotent and mimic mouse trophoblast stem cells”, Development, 2012, in revision.
      10. 178. “Probing polyketide synthase machinery using engineered promiscuous acyl-CoA synthetases”, I. Koryakina, J. McArthur, S. Randall, M. Draelos, E.M. Musiol, D.C. Muddiman, T. Weber, G.J. Williams, ACS Chemical Biology, 2012, 200-208.
      11. 179. “Systematic Comparison of Reverse Phase and Hydrophillic Interaction Liquid Chromatography Platforms for the Analysis of N-Linked Glycans”, S.H. Walker, B.C. Carlisle, D.C. Muddiman, Analytical Chemistry, 2012, 84, 19, 8198-8206.
      12. 180. “In-Depth Analysis of the Magnaporthe oryzae Conidial Proteome”, E. Gokce, W.L. Franck, Y. Oh, R.A. Dean, D.C. Muddiman, Journal of Proteome Research, 2012, 11, 12, 5827-5835.
      13. 181. “Targeted Proteomics of the Secretory Pathway Reveals the Secretome of Mouse Embryonic Fibroblasts and Human Embryonic Stem Cells”, P. Sarkar, S.M. Randall, D.C. Muddiman, B.M. Rao, Molecular & Cellular Proteomics, 2012, 11, 12, 1829-1839.

      2013 • Back to top

      1. 182. “Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI) Imaging Source Coupled to a FT-ICR Mass Spectrometer”, G. Robichaud, J.A. Barry, K.P. Garrard, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2013, 24, 92-100. (DOI: 10.1007/s13361-012-0505-9)
      2. 183. “Direct Analysis of Textile Fabrics and Dyes using IR Matrix-Assisted Laser Desorption Electrospray Ionization (MALDESI) Mass Spectrometry”, K.H. Cochran, J.A. Barry, D.C. Muddiman, D. Hinks, Analytical Chemistry, 2013, 85, 2, 831-836.
      3. 184. “Monolignol Pathway 4-Coumaric Acid: Coenzyme A Ligases in Populus trichocarpa: Novel Specificity, Metabolic Regulation, and Simulation of Coenzyme A Ligation Fluxes”, H.C. Chen, J.N. Song, C.M. Williams, C.M. Shuford, J. Liu, J.P. Wang, Q.Z. Li, R. Shi, E. Gokce, J. Ducoste, D.C. Muddiman, R.R. Sederoff, V.L. Chiang, Plant Physiology, 2013, 161, 3, 1501-1516.
      4. 185. “Comparative Proteomic Analysis and IgE Binding Properties of Peanut Seed and Testa (Skin)”, B.L White, E. Gokce, A.I. Nepomuceno, D.C Muddiman, T.H. Sanders, J.P. Davis, Journal of Agricultural and Food Chemistry, 2013, 61, 16, 3957-3968.
      5. 186. “MSiReader: An Open-Source Interface to View and Analyze High Resolving Power MS Imaging Files on Matlab Platform” G. Robichaud, K.P. Garrard, J.A. Barry, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2013, 24, 5, 718-721.
      6. 187. “The Use of a Xylosylated Plant Glycoprotein as an Internal Standard Accounting for N-Linked Glycan Cleavage and Sample Preparation Variability”, S.H. Walker, A.D. Taylor, D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2013, 27, 12, 1354-1358.
      7. 188. “Temporal Analysis of the Magnaporthe Oryzae Proteome During Conidial Germination and Cyclic AMP (cAMP)-Mediated Appressorium Formation”, W.L. Franck, E. Gokce, Y. Oh, D.C. Muddiman, R.A. Dean, Molecular & Cellular Proteomics, 2013, 12(8), 2249-65.
      8. 189. “Mass Recalibration of FT-ICR Mass Spectrometry Imaging Data using the Average Frequency Shift of Ambient Ions”, J.A. Barry, G. Robichaud, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2013, 24(7), 1137-45.
      9. 190. “Regulation of Phenylalanine Ammonia-Lyase (PAL) Gene Family in Wood Forming Tissue of Populus Trichocarpa”, R. Shi, C.M. Shuford, J.P. Wang, Y.H. Sun, Z. Yang, H.C. Chen, S. Tunlaya-Anukit, Q. Li, J. Liu, D.C. Muddiman, R.R. Sederoff, V.L. Chiang. Planta, 2013, 238(3), 487-97.
      10. 191. “Individuality Normalization when Labeling with Isotopic Glycan Hydrazide Tags (INLIGHT): A Novel Glycan Relative Quantification Strategy”, S.H. Walker, A.D. Taylor, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2013, 24(9), 1376-84.
      11. 192. “Factorial Experimental Designs Eludicate Significant Variables Affecting Data Acquisition on a Quadrupole Orbitrap Mass Spectrometer”, S.M. Randall, H.L. Cardasis, and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2013, 24, 10, 1501-1512.
      12. 193. “Understanding the Role of Proteolytic Digestion on Discovery and Targeted Proteomics Measurements using Liquid Chromatographic Tandem Mass Spectrometry and Design of Experiments”, P.L. Loziuk, J. Wang, Q. Li, R.R. Sederoff, V.L. Chiang, and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2013, 12 (12), 5820-5829.
      13. 194. Accurate Identification of Deamidated Peptides in Global Proteomics using Quadrupole Orbitrap Mass Spectrometer, A.I. Nepomuceno, R.J. Gibson, S.M. Randall, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2013, 13(2), 777-785.

      2014 • Back to top

      1. 195. IR-MALDESI Mass Spectrometry Imaging of Biological Tissue Sections using Ice as a Matrix, G. Robichaud, J.A. Barry, D.C. Muddiman, Journal of the American Society for the Mass Spectrometry, 2014, 1, 3, 1-10.
      2. 196. Compartment Proteomics Analysis of White Perch (Morone americana) Ovary using Support Vector Machines, J. Schilling, A.I. Nepomuceno, J.E. Schaff, D.C. Muddiman, H.V. Daniels, B.J. Reading, Journal of Proteome Research, 2014, 13, 3, 1515-1526.
      3. 197. Complete Proteomic-Based Enzyme Reaction and Inhibition Kinetics Reveal How Monolignol Biosynthetic Enzyme Families Affect Metabolic Flux and Lignin in Populus Trichocarpa, J.P. Wang, P.P. Naik, H.C. Chen, R. Shi, C.Y. Lin, J. Liu, C.M. Shuford, W. Li, Y.H. Sun, S. Tunlaya-Anukit, C.M. Williams, D.C. Muddiman, J.J. Ducoste, R.R. Sederoff, V.L. Chiang, Plant Cell, 2014, 26(3), 894-914.
      4. 198. Systems Biology of Lignin Biosynthesis in Populus Trichocarpa: Heteromeric 4-Coumaric Acid:Coenzyme A Ligase Protein Complex Formation, Regulation, and Numerical Modeling, H.C. Chen, J. Song, J.P. Wang, Y.C. Lin, J. Ducoste, C.M. Shuford, J. Liu, Q. Li, R. Shi, A.I. Nepomuceno, F. Isik, D.C. Muddiman, C. Williams, R.R. Sederoff, V.L. Chiang, Plant Cell, 2014, 26(3), 876-893.
      5. 199. Mapping Antiretroviral Drugs in Tissue by IR-MALDESI MSI Coupled to the Q-Exactive and Comparison with LC-MS/MS SRM Assay, J.A. Barry, G. Robichaud, M.T. Bokhart, C. Thompson, C. Sykes, A.D.M. Kashuba, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2014, 25 (12), 2038-2047.
      6. 200. Establishing ion ratio thresholds based on absolute peak area for absolute protein quantification using protein cleavage isotope dilution mass spectrometry, P.L. Loziuk, R.R. Sederoff, V.L. Chiang , D.C. Muddiman, The Analyst, 2014. 139 (21): p. 5439-50.
      7. 201. Evaluating nonpolar surface area and liquid chromatography/mass spectrometry response: an application for site occupancy measurements for enzyme intermediates in polyketide biosynthesis. S.M. Randall, I. Koryakina, G.J. Williams, D.C. Muddiman, Rapid Communications in Mass Spectrometry, 2014, 28 (23), 2511-2522.
      8. 202. Silver dopants for targeted and untargeted direct analysis of unsaturated lipids via infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI), F. Meier, K. P. Garrard, D. C. Muddiman. Rapid Communications in Mass Spectrometry, 2014, 28 (22), 2461-2470.
      9. 203. Assessing drug and metabolite detection in liver tissue by UV-MALDI and IR-MALDESI mass spectrometry imaging coupled to FT-ICR MS, J.A. Barry, M.R. Groseclose, G. Robichaud, S. Castellino, D.C. Muddiman, International Journal of Mass Spectrometry, 2014, 448-155.

      2015 • Back to top

      1. 204. Analysis of trace fibers by IR-MALDESI imaging coupled with high resolving power MS. K. Cochran, J.A. Barry, G. Robichaud, D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2015, 407(3), 813-820.
      2. 205. “Cellular Level Mass Spectrometry Imaging using Infrared Matrix Assisted Laser Desorption Electrospray Ionization (IR-MALDESI) by Oversampling”, M. Nazari, D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2015, 407(8), 2265-71. (Special Issue on Mass Spectrometry Imaging)
      3. 206. “Quantitative Mass Spectrometry Imaging of Emtricitabine in Cervical Tissue Model using Matrix-Assisted Laser Desorption Electrospray Ionization”, M.T. Bokhart, E. Rosen, C. Thompson, C. Sykes, A.D. Kashuba, D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2015, 407(8), 2073-84. (Special Issue on Mass Spectrometry Imaging)
      4. 207. “Activin/Nodal Signaling Switches the Terminal Fate of Human Embryonic Stem-Cell Derived Trophoblasts”, P. Sarkar, S.M Randall, T.S. Collier, A. Nero, T.A. Russell, B. Rao, Journal of Biological Chemistry, 2015, 290(14), 8834-48.
      5. 208. “Mass Spectrometry Imaging Reveals Heterogeneous Efavirenz Distribution within Putative HIV Resevoirs”, C.G. Thompson, M.T. Bokhart, C. Sykes, L. Adamson, Y. Fedoriw, P. Luciw, D.C. Muddiman, A.D. Kashuba, E.P. Rosen, Antimicrobial Agents and Chemotheraphy, 2015, 59(5), 2944-48.
      6. 209. “Influence of Desorption Conditions on Analyte Senstitivity and Internal Energy in Discrete Tissue or Whole Body Imaging by IR-MALDESI”, E.P. Rosen, M.T. Bokhart, H.T. Ghashghaei, D.C. Muddiman, Journal of the Amercian Society for Mass Spectrometry, 2015, 26(6), 899-910.
      7. 210. “Maching Learning Reveals Sex-specific 17β-estradiol-responsive Expression Patterns in White Perch (Morone americana) Plasma Proteins”, J. Schilling, A.I. Nepomuceno, A. Planchart, J.A. Yoder, R.M. Kelly, D.C. Muddiman, H.V. Daniels, N. Hiramatsu, B.J. Reading, Proteomics, 2015, 15(15), 2678-2690.
      8. 211. “Phosphoproteome Analysis Links Protein Phosphorylation to Cellular Remodeling and Metabolic Adaptation during Magnaporthe oryzae Appressorium Development”, W.L. Franck, E. Gokce, S.M. Randall, Y. Oh, A. Eyre, D.C. Muddiman, R.A. Dean, Journal of Proteome Research, 2015, 14(6), 2408-2424.
      9. 212. “Assessing Drug and Metabolite Detection in Liver Tissue by UV-MALDI and IR-MALDESI Mass Spectrometry Imaging Couple to FT-ICR-MS”, J.A Barry, M.R. Groseclose, G. Robichaud, S. Castellino, D.C. Muddiman, International Journal of Mass Spectrometry, 2015, 377, 448-55.
      10. 213. “Definitive Screeing Design Optimization of Mass Spectrometry Parameters for Sensitive Comparation of Filter and Solid Phase Extraction Purified, INLIGHT Plasma N-Glycans”, E.S. Hecht, J.P. McCord, D.C. Muddiman, Analytical Chemistry, 2015, 87(14), 7305-7312.
      11. 214. “Phosphorylation is an ON/OFF Switch for 5-Hydroxyconiferaldehyde O-methyltransferase Activity in Poplar Monolignol Biosynthesis”, J.P. Wang, L. Chuang, P.L. Loziuk, H. Chen, Y.C. Lin, R. Shi, G.Z. Qu, D.C. Muddiman, R.R. Sederoff, V.L. Chiang, Proceedings of the National Academy of Sciences, U.S.A., 2015, 112(27), 8481-8486.
      12. 215. “In-Depth LC-MS/MS Analysis of the Chicken Ovarian Cancer Proteome Reveals Conserved and Novel Differentially Regulated Proteins in Humans”, A.I. Nepomuceno, H. Shao, K. Jing, Y. Ma, J.N. Petitte, M.O. Idowu, D.C. Muddiman, X. Fang, A.M. Hawkridge, Analytical and Bioanalytical Chemistry, 2015, 407(22), 6851-6863.
      13. 216. “Global Proteomic Analysis of Functional Compartments in Immature Follicles using Laser Microdissection Coupled to LC-MS/MS”, A.I. Nepomuceno, D.C. Muddiman, J.N. Petitte, Journal of Proteome Research, 2015, 14(9), 3912-3923.
      14. 217. “Polarity Switching Mass Spectrometry Imaging of Healthy and Cancerous Hen Ovarian Tissue Sections by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI)”, M. Nazari, D.C. Muddiman, Analyst, 2015, 595-605.
      15. 218. “Influence of C-trap Accumulation Time on the Detectability of Analytes in IR-MALDESI MSI Coupled to Q-Exactive Plus”, E. Rosen, M.T. Bokhart, M. Nazari, D.C. Muddiman, Analytical Chemistry, 2015, 87(20), 10483-10490.
      16. 219. “Relative Quantification and Higher-Order Modeling of the Plasma Glycan Burden Ratio in Ovarian Cancer Case-Control Samples”, E.S. Hecht, E.H. Scholl, S.H. Walker, A.D. Taylor, W.A. Cliby, A.A. Motsinger-Reif, D.C. Muddiman, Journal of Proteome Research, 2015, 14(10), 4394-4401.
      17. 220. “Elucidation of Xylem-Specific Transcription Factors and Absolute Quantification of Enzymes Regulating Cellulose Biosynthesis in Populus trichocarpa“, P.L. Loziuk, J. Parker, W. Li, C.Y. Lin, J.P. Wang, Q. Li, R.R. Sederoff, V.L. Chiang, D.C. Muddiman, Journal of Proteome Research, 2015, 14(9), 3912-2923.
      18. 221. “Mechanisms of Egg Yolk Formulation and Implications on Early Life History of White Perch (Morone americana)”, J. Schilling, P.L. Loziuk, D.C. Muddiman, H.V. Daniels, B.J. Reading, PLoS One, 2015, 10(11).

      2016 • Back to top

      1. 222. “Analysis of Antiretrovirals in Single Hair Strands for Evaluation of Drug Adherence with IR-MALDESI MSI”, E. Rosen, C. Thompson, M. Bokhart, H. Prince, C. Sykes, D.C. Muddiman, A.D.M. Kashuba, Analytical Chemistry, 2016, 88(2), 1336-1344.
      2. 223. “Wall modified Photonic Crystal Fibre Capillaries as Porous Layer Open Tubular Columns for In-capillary Micro-Extraction and Capillary Chromatography”, A.A. Kazarian, E. Sanz Rodriguez, J.A. Deverell, J. McCord, D.C. Muddiman, B. Pauli, Analytica Chimica Acta, 2016, 905, 1-7.
      3. 224. “Identification of Epigenetic Factor Proteins Expressed in Human Embryonic Stem Cell-Derived Trophoblasts and in Human Placental Trophoblasts”, P. Sarkar, A. Mischler, S. Randall, T. Collier, K. Dorman, K. Boggess, D.C. Muddiman, B. Rao, Journal of Proteome Research, 2016, 15(8), 2433-2444.
      4. 225. “TransOmic Analysis of Forebrain Sections in Sp2 Conditional Knockout Embryonic Mice Using IR-MALDESI Imaging of Lipids and LC-MS/MS Label-Free Proteomics”, P. Loziuk, F. Meier, C. Johnson, H.T. Ghashghaei, D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2016, 408(13), 3453-74.
      5. 226. “A Quantitative Glycomics and Proteomics Combined Purification Strategy”, E.S. Hecht, J.P. McCord, D.C. Muddiman, J. Vis. Exp., 2016, 109, doi: 10.3791/53735.
      6. 227. “Whole-body Mass Spectrometry Imaging by Infrared Matrix-assisted Laser Desorption Electrospray Ionization (IR-MALDESI)”, M. Nazari, M.T. Bokhart, D.C. Muddiman, J. Vis. Exp., 2016, 109, doi: 10.3791/53942.
      7. 228. “Composition of Rosenthal Fibers, the Protein Aggregate Hallmark of Alexander Disease”, M.R. Heaven, D. Flint, S.M. Randall, A.A. Sosunov, L. Wilson, S. Barnes, J.E. Goldman, D.C. Muddiman, M. Brenner, Journal of Proteome Research, 2016, 15(7), 2265-82.
      8. 229. “Identification of Epigenetic Factor Proteins Expressed in Human Embryonic Stem Cell-Derived Trophoblasts and in Human Placental Trophoblasts”, P. Sarkar, A. Mischler, S.M. Randall, T.S. Collier, K.F. Dorman, K.A. Boggess, D.C. Muddiman, B.M. Rao, Journal of Proteome Research, 2016, 15(8), 2433-2444.
      9. 230. “N-Linked Glycosite Profiling and use of Skyline as a Platform for Characterization and Relative Quantification of Glycans in Differentiating Xylem of Populus Trichocarpa”, P.L. Loziuk, E.S. Hecht, D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2016, 487-497.
      10. 231. “Enhanced Lipidome Coverage in Shotgun Analyses by using Gas-Phase Fractionation”, M. Nazari, D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2016, 27(11), 1735-1744.
      11. 232. “Examining Ubiquinated Peptide Enrichment Efficiency Through an Epitope Labeled Protein”, J. Parker, Y. Oh, Y Moazami, J.G. Pierce, P.L. Loziuk, R.A. Dean, D.C. Muddiman, Analytical Biochemistry, 2016, 512, 114-119.

      2017 • Back to top

      1. 233. “Direct Analysis of Triterpenes from High-Salt Fermented Cucumbers Using Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI)”, Ekelöf M, McMurtrie EK, Nazari M, Johanningsmeier SD, Muddiman DC., Journal of American Society for Mass Spectrometry, 2017, 28(2):370-375.
      2. 234. “Xylose Migration During Tandem Mass Spectrometry of N-Linked Glycans”, Hecht ES, Loziuk PL, Muddiman DC., Journal of American Society for Mass Spectrometry, 2017, 28(4), 729-732.
      3. 235. “The PeptideAtlas of the Domestic Laying Hen”, McCord J, Sun Z, Deutsch EW, Moritz RL, Muddiman DC., Journal of Proteome Research, 2017, 16(3), 1352-1363.
      4. 236. “Integrative Analysis of Lignin Biosynthesis to Improve Wood Properties”, Jack P. Wang, Megan L. Matthews, Cranos M. Williams, Rui Shi, Chenmin Yang, Sermsawat Tunlaya-Anukit, Hsi-Chuan Chen, Quanzi Li, Jie Liu, Chien-Yuan Lin, Punith Naik, Ying-Hsuan Sun, Philip L. Loziuk, Ting-Feng Yeh, Hoon Kim, Erica Gjersing, Todd Shollenberger, Christopher M. Shuford, Jina Song, Zachary Miller, Yung-Yun Huang, Charles W. Edmunds, Bao-Guang Liu, Yi Sun, Ying-Chung Lin, Wei Li, Hao Chen, Ilona Peszlen, Joel J. Ducoste, John Ralph, Hou-Min Chang, David C. Muddiman, Mark Davis, Chris Smith, Fikret Isik, Ronald R. Sederoff, and Vincent L. Chiang, Nature Biotechnology, 2017, under review.
      5. 237. “IR-MALDESI Mass Spectrometry Imaging at 50 micron Spatial Resolution”, M.T. Bokhart, J. Manni, K.P. Garrard, M. Ekelöf, M. Nazari, and D.C. Muddiman, Journal of the American Society for Mass Spectromtry, 2017, 28(10), 2099-2107.
      6. 238. “Perfluorinated Alcohol Induced Coacervates as Extraction Media for Proteomic Analysis”, Khaledi, M.L., McCord, J.P., Muddiman, D.C., Journal of Chromatography A, 2017, 1523:293-299.
      7. 239. “DRILL: An ESI-MS Interface for Improved Sensitivity via Intertial Droplet Sorting and Electrohydrodynamic Focusing in a Swirling Flow”, Kottke PA, Lee JY, Jonke AP, Seneviratne CA, Hecht ES, Muddiman DC, Torres MP, Fedorov AG, Analytical Chemistry, 2017, 89(17), 8981-8987.
      8. 240. “Direct Analysis of Terpenes from Biological Buffer Systems using SESI and IR-MALDESI”, Nazari M, Malico AA, Ekelöf M, Lund S, Williams GJ, Muddiman DC, Analytical and Bioanalytical Chemistry, 2017, 410(3), 953-962.
      9. 241. “Direct Screening of Enzyme Activity using IR-MALDESI”, Nazari, M., Ekelöf M, Khodjaniyazova S, Elsen NL, Williams JD, and Muddiman DC, Rapid Communications in Mass Spectrometry, 2017, 31(22), 1868-1874.

      2018 • Back to top

      1. 242. “IR-MALDESI method optimization based on time-resolved measurement of ion yields”, M. Ekelöf, D. C. Muddiman, Analytical and Bioanalytical Chemistry, 2018, 410, 963.
      2. 243. “MSiReader v1.0: Evolving Open-Source Mass Spectrometry Imaging Software for Targeted and Untargeted Analyses”, Bokhart MT, Nazari M, Garrard KP, Muddiman DC, Journal of the American Society for Mass Spectromtry, 2018, 29, 1, 8-16.
      3. 244. “Comparative Proteomic Analysis between Nitrogen-supplemented and Starved Conditions in Magnaporthe oryzae” Oh Y, Robertson SL, Parker J, Muddiman DC, Dean RA, Proteome Science, 2017, 15:20
      4. 245. “Demonstration of Hydrazide Tagging for O-glycans and a Central Composite Design of Experiments Optimization using the INLIGHT™ Reagent”, King SR, Hecht ES, Muddiman DC., Analytical and Bioanalytical Chemistry, 2018, 410(5), 1409-1415.
      5. 246. “Characterization of the Spectral Accuracy of an Orbitrap Mass Analyzer Using Isotope Ratio Mass Spectrometry” Khodjaniyazova S, Nazari M, Garrard KP, Matos MPV, Jackson GP, Muddiman DC., Analytical Chemistry, 2018, 90(3), 1897-1906.
      6. 247. “Quantitative Mass Spectrometry Imaging of Glutathione in Healthy and Cancerous Hen Ovarian Tissue Sections by Infrared Matrix-assisted Laser Desorption Electrospray Ionization (IR-MALDESI)”, Nazari M, Bokhart MT, Loziuk PL, Muddiman DC, Analyst, 2018, 143(3), 654-661.
      7. 248. “A Novel Integrated Strategy for the Detection and Quantification of the Neurotoxin -Nmethylamini-L-alanine in Environmental Samples” Beri, J., Kirkwood, K.I., Muddiman, D.C., Bereman, M.S., Analytical and Bioanalytical Chemistry, 2018, 410(10), 2597-2605.
      8. 249. “Characterization of a Novel Miniaturized Burst-Mode Infrared Laser System for IRMALDESI Mass Spectrometry Imaging” Ekelof, M., Manni, J., Nazari, M., Bokhart, M., Muddiman, D.C., Analytical and Bioanalytical Chemistry, 2018, 410(9), 2395-2402.
      9. 250. “Integrative Analysis of Lignin Biosynthesis to Improve Wood Properties”, Jack P. Wang, Megan L. Matthews, Cranos M. Williams, Rui Shi, Chenmin Yang, Sermsawat Tunlaya-Anukit, Hsi-Chuan Chen, Quanzi Li, Jie Liu, Chien-Yuan Lin, Punith Naik, YingHsuan Sun, Philip L. Loziuk, Ting-Feng Yeh, Hoon Kim, Erica Gjersing, Todd Shollenberger, Christopher M. Shuford, Jina Song, Zachary Miller, Yung-Yun Huang, Charles W. Edmunds, Bao-Guang Liu, Yi Sun, Ying-Chung Lin, Wei Li, Hao Chen, Ilona Peszlen, Joel J. Ducoste, John Ralph, Hou-Min Chang, David C. Muddiman, Mark Davis, Chris Smith, Fikret Isik, Ronald R. Sederoff, and Vincent L. Chiang, Nature Biotechnology, 2018, 9, 1, 1579.
      10. 251. “IR-MALDESI Mass Spectrometry Imaging of Underivatized Neurotransmitters in Brain Tissue ot Rats Exposed to Tetrabromobisphenol A”, Bagley, M.C., Ekelof, M., Rock, K., Patisaul, H., Muddiman, D.C., Analytical and Bioanalytical Chemistry, 2018, 410(30), 7979-7986.
      11. 252. “Evaluation of Digital Image Recognition Methods for Mass Spectrometry Imaging Data Analysis”, Ekelof, M., Garrard, K.P., Judd, R., Rosen, E.P., Xie, D.Y., Kashuba, A.D.M., Muddiman, D.C., Journal of the American Society for Mass Spectrometry, 2018, 12, 2467-2470.

      2019 • Back to top

      1. 253. “CAD1 and CCR2 Protein Complex Formation in Monolignol Biosynthesis in Populus Trichocarpa”, Yan X, Liu J, Kim H, Liu B, Huang X, Yang Z, Lin YJ, Chen H, Yang C, Wang JP, Muddiman DC, Ralph J, Sederoff RR, Li Q, Chiang VL., New Phytologist, 2019, 222(1), 244-260.
      2. 254. “Discovery and Quantification of Bioactive Peptides in Fermented Cucumber by Direct Analysis IR-MALDESI Mass Spectrometry and LC-QQQ-MS”. Fideler, J., Johanningsmeier, S.D., Ekelof, M., Muddiman, D.C., Food Chemistry, 2019, 271, 715- 723.
      3. 255. “Discriminating Normal Regions within Cancerous Hen Ovarian Tissue using Multivariate Hyperspectral Image Analysis”, Mahsa Akbari Lakeh M.A., Tu, A., Muddiman, D.C., Abdollahi, H., Rapid Communications in Mass Spectrometry, 2019, 33(4), 381-391.
      4. 256. “Artemisinin Biosynthesis in Non-glandular Trichome Cells in Artemisia annua”, Judd, R., Bagley, M.C., Li, M, Zhu, Y, Lei, C, Yuzuak, S, Ekelof, M, Pu, G, Zhao, X, Muddiman, D.C., Xie, D.Y., Molecular Plant, 2019, 12(5), 704-714.
      5. 257. “Label-Free Quantitative Proteomics of Enriched Nuclei from Sugarcane (Saccharum ssp) Stems in Response to Drought Stress”, Salvato F, Loziuk P, Kiyota E, Daneluzzi GS, Araújo P, Muddiman DC, Mazzafera P., Proteomics, 2019, 1900004.
      6. 258. “Heterogeneous Antiretroviral Drug Distribution and HIV/SHIV Detection in the Gut of Three Species”, Thompson CG, Rosen EP, Prince HMA, White N, Sykes C, de la Cruz G, Mathews M, Deleage C, Estes JD, Charlins P, Mulder LR, Kovarova M, Adamson L, Arora S, Dellon ES, Peery AF, Shaheen NJ, Gay C, Muddiman DC, Akkina R, Garcia JV, Luciw P, Kashuba ADM., Sci Transl Med. 2019, 11(499).
      7. 259. Quantitative Proteomic Analysis of Tomato Genotypes with Differential Cadmium Tolerance”, Borges KLR, Salvato F, Loziuk PL, Muddiman DC, Azevedo RA., Environ Sci Pollut Res Int. 2019, (25):26039-26051.
      8. 260. “Systematic Evaluation of Repeatability of IR-MALDESI-MS and Normalization Strategies for Correcting the Analytical Variation and Improving Image Quality”, Tu A, Muddiman DC, Anal Bioanal Chem. 2019, 411(22), 5729-5743.
      9. 261. “Internal Energy Deposition in Infrared Matrix-Assisted Laser Desorption Electrospray Ionization With and Without the Use of Ice as a Matrix”, Tu A, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2019, 30 (11), 2380-2391.
      10. 262. “Mass spectrometry imaging (MSI) of fresh bones using infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI)”, Khodjaniyazova S, Hanne NJ, Cole JH, Muddiman DC, Analytical Methods, 2019, 11, 5929-5938.

      2020 • Back to top

      1. 263. “NIST Interlaboratory Study on Glycosylation Analysis of Monoclonal Antibodies: Comparison of Results from Diverse Analytical Methods”, De Leoz MLA, Duewer DL, Fung A, Liu L, Yau HK, Potter O, Staples GO, Furuki K, Frenkel R, Hu Y, Sosic Z, Zhang P, Altmann F, Gru Nwald-Grube C, Shao C, Zaia J, Evers W, Pengelley S, Suckau D, Wiechmann A, Resemann A, Jabs W, Beck A, Froehlich JW, Huang C, Li Y, Liu Y, Sun S, Wang Y, Seo Y, An HJ, Reichardt NC, Ruiz JE, Archer-Hartmann S, Azadi P, Bell L, Lakos Z, An Y, Cipollo JF, Pucic-Bakovic M, Štambuk J, Lauc G, Li X, Wang PG, Bock A, Hennig R, Rapp E, Creskey M, Cyr TD, Nakano M, Sugiyama T, Leung PA, Link-Lenczowski P, Jaworek J, Yang S, Zhang H, Kelly T, Klapoetke S, Cao R, Kim JY, Lee HK, Lee JY, Yoo JS, Kim SR, Suh SK, de Haan N, Falck D, Lageveen-Kammeijer GSM, Wuhrer M, Emery RJ, Kozak RP, Liew LP, Royle L, Urbanowicz PA, Packer NH, Song X, Everest-Dass A, Lattová E, Cajic S, Alagesan K, Kolarich D, Kasali T, Lindo V, Chen Y, Goswami K, Gau B, Amunugama R, Jones R, Stroop CJM, Kato K, Yagi H, Kondo S, Yuen CT, Harazono A, Shi X, Magnelli PE, Kasper BT, Mahal L, Harvey DJ, O’Flaherty R, Rudd PM, Saldova R, Hecht ES, Muddiman DC, Kang J, Bhoskar P, Menard D, Saati A, Merle C, Mast S, Tep S, Truong J, Nishikaze T, Sekiya S, Shafer A, Funaoka S, Toyoda M, de Vreugd P, Caron C, Pradhan P, Tan NC, Mechref Y, Patil S, Rohrer JS, Chakrabarti R, Dadke D, Lahori M, Zou C, Cairo C, Reiz B, Whittal RM, Lebrilla CB, Wu L, Guttman A, Szigeti M, Kremkow BG, Lee KH, Sihlbom C, Adamczyk B, Jin C, Karlsson NG, Örnros J, Larson G, Nilsson J, Meyer B, Wiegandt A, Komatsu E, Perreault H, Bodnar ED, Said N, Francois YN, Leize-Wagner E, Maier S, Zeck A, Heck AJR, Yang Y, Haselberg R, Yu YQ, Alley W, Leone JW, Yuan H, Stein SE., Mol. Cell Proteomics, 2020, 19(1), 11-30.
      2. 264. “Development of a Relative Quantification Method for IR-MALDESI Mass Spectrometry Imaging of Arabidopsis Seedlings”, Bagley MC, Stepanova AN, Ekelöf M, Alonso JM, Muddiman DC, Rapid Communications in Mass Spectrometry, 2020, 34 (6), 1-7.
      3. 265. “Investigating host-pathogen meta-metabolic interactions of Magnaporthe oryzae infected barley using infrared matrix-assisted laser desorption electrospray ionization mass spectrometry”, Kalmar JG, Oh Y, Dean, RA, Muddiman DC, Analytical and Bioanalytical Chemistry, 2020, 412 (1), 139-147.
      4. 266. “Three-Dimensional (3D) Imaging with Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI) Mass Spectrometry”, Bai H, Khodjaniyazova S, Garrard KP, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2020, 31 (2), 292-297.
      5. 267. “Determination of Optimal Electrospray Parameters for Lipidomics in Infrared-Matrix-Assisted Laser Desorption Electrospray Ionization Mass Spectrometry Imaging”, Bagley MC, Ekelof M, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2020, 31 (2), 319-325.
      6. 268. “Coupling IR-MALDESI with Drift Tube Ion Mobility-Mass Spectrometry for High-Throughput Screening and Imaging Applications”, Ekelöf M, Dodds J, Khodjaniyazova S, Garrard KP, Baker ES, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2020, 31 (3), 642–650.
      7. 269. “Methods for Cryosectioning and Mass Spectrometry Imaging of Whole-Body Zebrafish”, Stutts WL, Knuth MM, Ekelöf M, Mahapatra D, Kullman SW, Muddiman DC,  Journal of the American Society for Mass Spectrometry. 2020, 31 (4), 768–772.
      8. 270. “Analysis of Neurotransmitters in Rat Placenta Exposed to Flame Retardants Using IR-MALDESI Mass Spectrometry Imaging”, Pace CL, Horman B, Patisaul H, Muddiman DC, Analytical and Bioanalytical Chemistry, 2020, 412, 3745–3752.
      9. 271. “Metabolite Profiling Reveals Predictive Biomarkers and the Absence of β-Methyl Amino-l-alanine in Plasma from Individuals Diagnosed with Amyotrophic Lateral Sclerosis”, Bereman MS, Kirkwood KI, Sabaretnam T, Furlong S, Rowe DB, Guillemin GJ, Mellinger AL, Muddiman DC, Journal of Proteome Research, 2020 , 19 (8), 3276-3285.
      10. 272. “Peptide Variability and Signatures Associated with Disease Progression in CSF Collected Longitudinally from ALS Patients”, Mellinger AL, Griffith EH, Bereman MS, Analytical and Bioanalytical Chemistry, 2020, 512, 5465-5475.
      11. 273. “A Versatile Platform for Mass Spectrometry Imaging of Arbitrary Spatial Patterns” ,Garrard KP, Ekelöf M, Khodjaniyazova S, Bagley MC, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2020, 2547-2552.
      12. 274. “Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI) Mass Spectrometry Imaging Analysis of Endogenous Metabolites in Cherry Tomatoes”, Bagley MC, Pace CL, Ekelöf M, Muddiman DC, Analyst, 2020, 145, 5516-5523.
      13. 275. “Direct Analysis of Native N-Linked Glycans by IR-MALDESI”, Pace CL, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2020, 31 (8), 1759-1762.
      14. 276. “Comparitive Proteomic Analysis of Wild Type and Mutant Lacking a SCF E3 Ligase F-box Protein in Magnaporthe orzyae”, Kalmar JG, Oh Y, Dean RA, Muddiman DC, Journal of Proteome Research, 2020, 19 (9), 3761-3768.
      15. 277. “Enhanced Protocol for Quantitative N-Linked Glycomics Analysis using Individuality Normalization when Labeling with Isotopic Glycan Hydrazide Tags (INLIGHT)™”, Kalmar JG, Butler KE, Baker ES, Muddiman DC, Analytical and Bioanalytical Chemistry, 2020, 412, 7569-7579.
      16. 278. “3D Imaging and Metabolic Profiling Reveal Higher Neuroactive Kavalactone Contents in Lateral Roots and Crown Root Peels of Piper methysticum (kava)”, Jaiswal YS, Yerke AM, Bagley MC, Ekelöf M, Weber D, Haddad D, Fodor A, Muddiman DC, Williams LL, GigaScience, 2020, 9 (9), 1-13. 
      17. 279. “Lipidomic Profiling of Single Mammalian Cells by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI)”, Xi Y, Tu A, Muddiman DC, Analytical and Bioanalytical Chemistry, 2020, 412, 8211-8222.

      2021 • Back to top

      1. 280. “Three-Dimensional (3D) Imaging of Lipids in Skin Tissues with Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (MALDESI) Mass Spectrometry”, Bai H, Linder KE, Muddiman DC, Analytical and Bioanalytical Chemistry, 2021, 413, 2793–2801.
      2. 281. “GlycoHunter: An Open-Source Software for the Detection and Relative Quantification of INLIGHT-Labeled N-Linked Glycans”, Kalmar JG, Garrard KP, Muddiman DC, Journal  of Proteome Research, 2021, 20, 1855-1863.
      3. 282. “In situ Detection of Fatty Acid C=C Positional Isomers by Coupling On-tissue mCPBA Epoxidation with IR-MALDESI Mass Spectrometry”, Tu A, Garrard KP, Said N, Muddiman DC, Rapid Communications in Mass Spectrometry, 2021, 35, e9119. 
      4. 283. “Investigations of the beta-Carotene Radical Cation Formation in Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI),” Bagley MC, Muddiman DC, Rapid Communications in Mass Spectrometry, 2021, 35, e9133. 
      5. 284. “Spatially resolved metabolomic characterization of muscle invasive bladder cancer by mass spectrometry imaging,” Tu A, Said N, Muddiman DC, Metabolomics, 2021, 17, 70.
      6. 285. “Utilizing Liquid Chromatography, Ion Mobility, and Mass Spectrometry to Assess INLIGHT™ Derivatized N-Linked Glycans in Biological Samples,” Butler KE, Kalmar JG, Muddiman DC, Baker ES, Analytical and Bioanalytical Chemistry, 2021, 414, 623-637.
      7. 286. “Simultaneous Measurement of Striatal Dopamine and Hydrogen Peroxide Transients Associated with L-DOPA Induced Rotation in Hemiparkinsonian Rats,” Wilson LR, Lee CA, Mason CF, Khodjaniyazova S, Flores KB, Muddiman DC, Sombers LA, ACS Measurement Science Au, 2021, 2 (2), 120-131.
      8. 287. “Discovery Proteomics of Human Placental Tissue,” Mellinger AL, McCoy K, Minior DAT, Williams TI, Rapid Communications in Mass Spectrometry, 2021, e9189. 
      9. 288. “Enhancing Metabolomic Coverage in Positive Ionization Mode Using Dicationic Reagents by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization,” Xi Y, Muddiman DC, Metabolites, 2021, 11, 810.

      10. 2022 • Back to top

          1. 289. “Multiple Infusion Start Time Mass Spectrometry Imaging of Dynamic SIL-Glutathione Biosynthesis Using Infrared Matrix-Assisted Laser Desorption Electrospray Ionization,” Mellinger, AL, Garrard, KP, Khodjaniyazova, S, Rabbani, ZN, Gamcsik, MP, Muddiman, DC, Journal of Proteome Research, 2022, 21 (3), 747-757.
          2. 290. “Multimodal Mass Spectrometry Imaging of Rat Brain using IR-MALDESI and nanoPOTS-LC-MS/MS,” Pace CL, Simmons J, Kelly RT, Muddiman DC, Journal of Proteome Research, 2022, 21, 3, 713-720.
          3. 291.”Understanding the electrospray ionization response factors of per- and poly-fluoroalkyl substances (PFAS),” Enders JR, O’Neill GM, Whitten JL, Muddiman DC, Analytical and Bioanalytical Chemistry, 2022, 414, 1227-1234.
          4. 292. “Mass Spectrometry Imaging of N-Linked Glycans in a Formalin-Fixed Paraffin-Embedded Human Prostate by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization,” Pace CL, Angel PM, Drake RR, Muddiman DC, Journal of Proteome Research, 2022, 21 (1), 243-249.
          5. 293. “Optimized C-trap Timing of an Orbitrap 240 Mass Spectrometer for High Throughput Screening and Native MS by IR-MALDESI,” Knizner KT, Bagley MC, Garrard KP, Hauschild JP, Pu F, Elsen NL, Williams JD, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2022, 33 (2), 328-334.
          6. 294. “Phosphorylation-dependent proteome of Marcks in ependyma during aging and behavioral homeostasis in the mouse forebrain,” Muthusamy N, Williams TI, O’Toole R, Brudvig JJ, Adler KB, Weimer JM, Muddiman DC, Ghashghaei HT, GeroScience, 2022, 44, 2077-2094.
          7. 295. “Normalization Techniques for High-Throughput Screening by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization Mass Spectrometry,” Knizner KT, Bagley MC, Pu F, Elsen NL, Williams JD, Muddiman DC, Journal of Mass Spectrometry, 2022, 57 (6), e4828.
          8. 296. “Glycerate from intestinal fructose metabolism induces islet cell damage and glucose intolerance,” Wu Y, Wong CW, Chiles, EN, Mellinger AL, Bae H, Jung S, Peterson T, Wang J, Negrete M, Huang Q, Wang L, Jang C, Muddiman DC, Su X, Williamson I, Shen X, Cell Metabolism, 2022, 34 (7), 1042-1053.
          9. 297. “Sequential Paired Covariance for Improved Visualization of Mass Spectrometry Imaging Datasets,” Pace CL, Garrard KP, Muddiman DC, Journal of Mass Spectrometry, 2022, 57 (7), e4872.
          10. 298. “Highlighting Functional Mass Spectrometry Imaging Methods in Bioanalysis”, Mellinger AL, Muddiman DC, Gamcsik MP, Journal of Proteome Research, 2022, 21 (8), 1800-1807.
          11. 299. “An adaptive teosinte mexicana introgression modulates phosphatidylcholine levels and is associated with maize flowering time”, Barnes AC, Rodríguez-Zapata F, Juárez-Núñez KA, Gates DJ, Janzen GM, Kur A, Wang L, Jensen SE, Estévez-Palmas JM, Crow TM, Kavi HS, Pil HD, Stokes RL, Knizner KT, Aguilar-Rangel MR, Demesa-Arévalo E, Skopelitis T, Pérez-Limón S, Stutts WL, Thompson P, Chiu YC, Jackson D, Muddiman DC, Fiehn O, Runcie D, Buckler ES, Ross-Ibarra J, Hufford MB, Sawers RJH, Rellán-Álvarez R, Proceedings of the National Academy of Sciences, 2022, 119 (27), e2100036119.
          12. 300. “Novel Matrix Strategies for Improved Ionization and Spatial Resolution Using IR-MALDESI Mass Spectrometry Imaging”, Kibbe RR, Mellinger AL, Muddiman DC, Journal of Mass Spectrometry, 2022, 57 (8), e4875.
          13. 301. “Developing Transmission Mode for IR-MALDESI Mass Spectrometry Imaging”, Joignant AN, Bai H, Guymon JP, Garrard KP, Pankow M, Muddiman DC, Rapid Communications in Mass Spectrometry, 2022, 36 (22), e9386.
          14. 302. “Improved Spatial Resolution of Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI) Mass Spectrometry Imaging (MSI) Using a Reflective Objective”, Joignant AN, Bai H, Manni JG, Muddiman DC, Rapid Communications in Mass Spectrometry, 2022, 36 (23), e9392.
          15. 303. “Next-Generation Infrared Matrix-Assisted Laser Desorption Electrospray Ionization Source for Mass Spectrometry Imaging and High-Throughput Screening”, Knizner KT, Guymon JP, Kenneth KP, Bouvrée G, Manni J, Hauschild JP, Strupat K, Fort KL, Earley L, Wouters ER, Pu F, Radosevich AJ, Elsen NL, Williams JD, Pankow MR, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2022, 33 (11), 2070-2077.
          16. 304. “Interrogating the Metabolomic Profile of Amyotrophic Lateral Sclerosis in Post-Mortem Human Brain by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI) Mass Spectrometry Imaging (MSI)”, Sohn AL, Ping L, Glass JD, Seyfried NT, Hector EC, Muddiman DC, Metabolites, 2022, 12 (11), 1096.
          17. 305. “Mapping glycine uptake and its metabolic conversion to glutathione in mouse mammary tumors using functional mass spectrometry imaging”, Mellinger AL, Kibbe RR, Rabbani ZN, Meritet D, Muddiman DC, Gamcsik MP, Free Radical Biology and Medicine, 2022, 193, 677-684.
          18. 306. “On the Importance of Color in Mass Spectrometry Imaging”, Knizner KT, Kibbe RR, Garrard KP, Nuñez JR, Anderton CR, Muddiman DC, Journal of Mass Spectrometry, 2022, 57 (12), e4898.

          19. 2023 • Back to top

                1. 307. “Transforming a Mid-infrared Laser Profile from Gaussian to a TopHat with a Diffractive Optical Element for Mass Spectrometry Imaging”, Bai H, Manni JG, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2023, 34, 1, 10-16.
                2. 308. “Quasi-continuous infrared matrix-assisted laser desorption electrospray ionization source coupled to a quadrupole time-of-flight mass spectrometer for direct analysis from well plates”, Arciniega C, Garrard KP, Guymon JP, Manni JG Sr, Apffel A, Fjeldsted JC, Muddiman DC, Journal of Mass Spectrometry, 2023, 58 (1), e4902.
                3. 309. “SMART: A Data Reporting Standard for Mass Spectrometry Imaging”, Xi Y, Sohn AL, Joignant AN, Cologna SM, Prentice BM, Muddiman DC, Journal of Mass Spectrometry, 2023, 58 (2), e4904.
                4. 310. “Time of Acquisition and High Spatial Resolution Mass Spectrometry Imaging”, Wang MF, Joignant AN, Sohn AL, Garrard KP, Muddiman DC, Journal of Mass Spectrometry, 2023, 58 (3), e4911.
                5. 311. “Impact of Wavelength and Spot Size on Laser Depth of Focus: Considerations for Mass Spectrometry Imaging of Non-Flat Samples”, Joignant AN, Xi Y, Muddiman DC, Journal of Mass Spectrometry, 2023, 58 (5), e4914.
                6. 312. “Lipidomic Analysis of Mouse Brain to Evaluate the Efficacy and Preservation of Different Tissue Preparatory Techniques by IR-MALDESI-MSI”, Wang MF, Sohn AL, Samal J, Erning K, Segura T, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2023, 34, 5, 869-877.
                7. 313. “Achieving Sub Parts-Per-Million Mass Measurement Accuracy on an Orbitrap Mass Spectrometry Imaging Platform without Automatic Gain Control”, Kibbe RR, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2023, 34, 6, 1015-1023.
                8. 314. “Development of an Object-Based Image Analysis Tool for Mass Spectrometry Imaging Ion Classification”, Eisenberg SM, Knizner KT, Muddiman DC, Analytical and Bioanalytical Chemistry, 2023, 415, 19, 4725-4730.
                9. 315. “Predicting Sialic Acid Content of N-Glycans Using the Isotopic Pattern of Chlorine”, Palomino TV, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2023, 34, 7, 1392-1399.
                10. 316. “Automatic z-Axis Correction for IR-MALDESI Mass Spectrometry Imaging of Uneven Surfaces”, Xi Y, Knizner KT, Garrard KP, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2023, 34, 7, 1501-1510. 
                11. 317. “Enhanced Detection of Charged N-Glycans in the Brain by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization Mass Spectrometric Imaging”, Samal J, Palomino TV, Chen J, Muddiman DC, Segura T, Analytical Chemistry, 2023, 95, 29, 10913-10920.
                12. 318. “Maximized Spatial Information and Minimized Acquisition Time of Top-Hat IR-MALDESI-MSI of Zebrafish Using Nested Regions of Interest (nROIs)”, Joignant AN, Ritter MM, Knizner KT, Garrard KP, Kullman SW, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2023, 34, 9, 2043-2050.
                13. 319. “Metabolite Annotation Confidence Score (MACS): A Novel MSI Identification Scoring Tool”, Eisenberg SM, Knizner KT, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2023, 34, 10, 2222-2231.
                14. 320. “Comparative Analysis of Sucrose-Embedding for Whole-Body Zebrafish MSI by IR-MALDESI”, Wang MF, Ritter MM, Kullman SW, Muddiman DC, Analytical and Bioanalytical Chemistry, 2023, 415, 6389-6398
                15. 321. “Evaluating the Optimal Tissue Thickness for Mass Spectrometry Imaging by IR-MALDESI”, Joignant AN, Knizner KT, Xi Y, Muddiman DC, Rapid Communications in Mass Spectrometry, 2023, 37, e9638.
                16. 322. “Prototyping an Ionization Source for Non-Engineers”, Knizner KT, Eisenberg SM, Muddiman DC, Journal of Mass Spectrometry, 2023, 59, e4995. 

                17. 2024 • Back to top

                        1. 323. “Achieving Cross-Ring Fragmentation of N-Linked Glycans by IR-MALDESI”, Palomino TV, Muddiman DC, Journal of the American Society for Mass Spectrometry, 2024, 35, 166-171.
                        2. 324. “Quantitative Mass Spectrometry Imaging (qMSI): A Tutorial”, Kibbe RR, Muddiman DC, Journal of Mass Spectrometry, 2024, 59, e5009.
                        3. 325. “A Statistical Approach to System Suitability Testing (SST) for Mass Spectrometry Imaging”, Sohn AL, Kibbe RR, Dioli OE, Hector EC, Bai H, Garrard KP, Muddiman DC, Rapid Communications in Mass Spectrometry, 2024, Rapid Communications in Mass Spectrometry, 2024, 38, e9725.

                            1. Review Articles (peer-reviewed)

                              Back to top

                                  1. 1. “Application of Secondary Ion and Matrix-Assisted Laser Desorption-Ionization Time-of-Flight Mass Spectrometry for the Quantitative Analysis of Biological Molecules”,
                                    D.C. Muddiman, A.I. Gusev, and D.M. Hercules,
                                    Mass Spectrometry Reviews, 1995, 14, 383-429.
                                  2. 2. “Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry: Instrumentation and Applications”,
                                    D.C. Muddiman, R. Bakhtiar, S.A. Hofstadler, and R.D. Smith,
                                    Journal of Chemical Education, 1997, 74, 1288.
                                  3. 3. “Sequencing and Characterization of Larger Oligonucleotides by Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry”,
                                    D.C. Muddiman and R.D. Smith,
                                    Reviews in Analytical Chemistry, 1998, 17, 1, 1-68.
                                  4. 4. “Perspectives on the use of ESI-FT-ICR Mass Spectrometry for STR Genotyping in the Post-Genome Era”,
                                    A.P. Null and D.C. Muddiman,
                                    Journal of Mass Spectrometry (Special Feature), 2001, 36, 589-606.
                                  5. 5. “Nucleic Acid Analysis by Fourier Transform Ion Cyclotron Resonance Mass Spectrometry At the Beginning of the Twenty-First Century”,
                                    J.L Frahm and D.C. Muddiman,
                                    Current Pharmaceutical Design, 2005, 11(20), 2593-2613.
                                  6. 6. “Epithelial Ovarian Cancer: Disease Etiology, Treatment and Investigational Gene, Metabolite and Protein Biomarkers”,
                                    T. Islam Williams, K.L. Toups, D.A. Saggese, K.R. Kalli, W.A. Cliby, and D.C. Muddiman,
                                    Journal of Proteome Research, 2007, 6(8), 2936-2962.
                                  7. 7. “Mass Spectrometry-Based Biomarker Discovery: Toward a Global Proteome Index of Individuality”, A.M. Hawkridge and D.C. Muddiman, Annual Reviews in Analytical Chemistry, 2009, 2, 265-277.
                                  8. 8. “Capitalizing on the Hydrophobic Bias of Electrospray Ionization through Chemical Modification in Mass Spectrometry-Based Proteomics”, C.M. Shuford and D.C. Muddiman, Expert Reviews in Proteomics, 2011, 8, 3, 317-323.
                                  9. 9. “Analytical strategies for the global quantification of intact proteins”, T.S. Collier and D.C. Muddiman, Amino Acids, 2012, 43, 3, 1109-1117.
                                  10. 10. “Absolute Quantification of Proteins using Mass Spectrometry”, C.M. Shuford and D.C. Muddiman, Encyclopedia of Analytical Chemistry, 2013, DOI: 10.1002/9780470027318.a9311.
                                  11. 11. “Atmospheric Pressure Mass Spectrometry Imaging”, Robichaud, G., Barry, J. A. and Muddiman, D. C. Encyclopedia of Analytical Chemistry, 2014, 1–44.
                                  12. 12. “Optimizing Mass Spectrometry Analyses: A Tailored Review on the Utility of Design of Experiments”, E.S. Hecht, A.L. Oberg, D.C. Muddiman J. Am. Soc. Mass Spectrom., 2016, 27(5), 767-85.
                                  13. 13. “Infrared Matrix-Assisted Laser Desorption Electrospray Ionization Mass Spectrometry Imaging Analysis of Biospecimens”, M.T. Bokhart and D.C. Muddiman, Analyst, 2016, 141(18), 5236-5245.
                                  14. 14. “The development and application of matrix assisted laser desorption electrospray ionization: The teenage years,” M.C. Bagley, K.P. Garrard, D.C. Muddiman, Mass Spectrometry Reviews,  2021, 1-32. 

                              Book Chapters

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                                  1. 1. “Mass Spectrometric Characterization of DNA for Molecular Biology Applications: Advances using MALDI and ESI,”
                                    D.S. Wunschel, D.C. Muddiman, and R.D. Smith,
                                    Advances in Mass Spectrometry, 1998, Volume 14, 377-406.
                                  2. 2. “N-linked Global Glycan Profiling by NanoLC Mass Spectrometry” M.S. Bereman, D.C. Muddiman, Methods in Molecular Biology, 2011, 790, 87-97.
                                  3. 3. “MALDESI: Fundamentals, Direct Analysis, and Mass Spectrometry Imaging” M. Nazari and D.C. Muddiman, Advances in MALDI and Laser-Induced Soft Ionization Mass Spectrometry (Editor: R. Cramer), 2015

                              Editorials

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                                  1. 1. “Memoirs, Hercules Lineage, Students, Visiting Scientists and Staff,” J.A. Gardella, Jr., F.E. Lytle, and D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2002, 373, 7, 669-675.
                                  2. 2. “In celebration of the 70th birthday of Dr. David M. Hercules,” J. A. Gardella, F. E. Lytle, and D. C. Muddiman, Analytical and Bioanalytical Chemistry, 2002, 373, 7, 517-518.
                                  3. 3. “Cancer Biomarkers: How Proteomics is Leading to the Discovery of New Markers,” D.C. Muddiman, W.A. Cliby, H.R. Bergen, III, Clinical Laboratory News, 2003, 29, 12-16.
                                  4. 4. “Lewis and Clark Proteomics: Are We There Yet?,” D.C. Muddiman, Journal of Proteome Research, 2006, 5, 2, 221-222.
                                  5. 5. “Focus in Honor of James A. McCloskey, Recipient of the 2005 ASMS Award for a Distinguished Contribution in Mass Spectrometry,” P.A. Limbach and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2006, 17, 10, i1-i2.
                                  6. 6. “A Retrospective: John Bennett Fenn (1917-2010),” Science, 2011, 331, 6014, 160.
                                  7. 7. “John B. Fenn Special Issue Recognizing the Science of Professor John B. Fenn,” D.C. Muddiman and S. El-Shall, International Journal of Mass Spectrometry, 2011, 300, 2-3, 72-73.
                                  8. 8. Book Review, Sample Preparation in Biological Mass Spectrometry, Analytical and Bioanalytical Chemistry, 2012.
                                  9. 9. “High-Resolution Mass Spectrometry,” H.H. Maurer and D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2012, 403, 5, 1201-1202.
                                  10. 10. “Are Presentations at ASMS Conferences Publications?,” S.T. Weintraub and D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2014, 1, 3, 1-2.
                                  11. 11. “Focus on Advancing High Performance Mass Spectrometry, Honoring Dr. Richard D. Smith, Recipient of the 2013 Award for Distinguished Contribution in Mass Spectrometry,” E.S. Baker, D.C. Muddiman, J.A. Loo, Journal of the American Society for Mass Spectrometry, 2014, 25(12), 1997-1999.
                                  12. 12. “Michael Gross: 25 Years of Dedication and Leadership of JASMS (1990-2015),” D.C. Muddiman, Journal of the American Society for Mass Spectrometry, 2015, 26(1), 1-4.
                                  13. 13. “What if You Could Only Publish 50 Papers Your Entire Career?,” D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2016, 408(3), 663-4.
                                  14. 14. “Recent Advances in Glycomics, Glycoproteomics, and Allied Topics,” Y. Mechref and D.C. Muddiman, Analytical and Bioanalytical Chemistry, 2017, 409(2), 355-357.
                                  15. 15. “The Scope of Analytical and Bioanalytical Chemistry,” H. Cui, P. Garrigues, G. Gauglitz, E. Hilder, G. Hopfgartner, D.C. Muddiman, A. Roda, A. Sanz-Medel, S.A. Wise, A.T. Woolley, L. Zhang, Analytical and Bioanalytical Chemistry, 2017, 649-650.
                                  16. 16. Book Review: Mass Spectrometry: A Textbook, 3rd Edition, Analytical and Bioanalytical Chemistry, 2018, 2051-2052.

                              Patents

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                                1. 1. Dual Electrospray Ionization Source for Mass Spectrometer
                                  Inventors: David C. Muddiman, Patrick Caskey, and Michael Burke
                                  Filed: 02/04/2003, Application Serial No. 60/444,888
                                  U.S. Utility Patent Filed: 02/04/2004, Application Number: 772229
                                  Patent Issued 02/07/2006. US Patent Number 6,995,362
                                2. 2. Naturally Processed Measles Virus Peptides Eluted From Class II HLA Molecules
                                  Inventors: Gregory Poland, Inna G. Ovsyannikova, Kenneth L. Johnson and David C. Muddiman
                                  Provisional Patent Application Filed: 05/2004, Application Number: 35,433
                                  Patent Issued 08/25/2009. US Patent Number 7,579,004
                                3. 3. Peptide Originating from Vaccinia Virus
                                  Inventors: Gregory Poland, Inna G. Ovsyannikova, Kenneth L. Johnson and David C. Muddiman
                                  Provisional Patent Application Filed: 4/21/2006, Application Number: 60,793,984
                                  Patent Issued 11/24/2009. US Patent Number 7,622,120
                                4. 4. Naturally Processed Measles Virus Peptides from Class II HLA Molecules
                                  Inventors: Gregory Poland, Inna G. Ovsyannikova, Kenneth L. Johnson and David C. Muddiman
                                  Patent Issued 07/17/2012. US Patent Number 8,221,762
                                5. 5. Materials and Analytical Methods for Detection and Quantification of Free Beta-N Methylamino-L-Alanine (BMAA) and BMAA Incorporated into Proteins
                                  Inventors: David C. Muddiman, Philip L. Loziuk, Joshua G. Pierce, Gavin Williams and Yasamin Moazami
                                  Provisional Patent Filed: 7/29/2016, Application Number 62/368,562
                                6. 6. Compositions and Methods for Detection of Beta N Methylamino L Alanine in Cu Zn Superoxide Dismutase 1
                                  Inventors: David C. Muddiman, Philip L. Loziuk and Michael S. Bereman
                                  Provisional Patent Filed: 7/29/2016, Application Number 62/368,437

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