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An Aphasia Treatment for Verbs With Low Concreteness: A Pilot Study.

Bailey DJ, Nessler C, Berggren KN, Wambaugh JL.

Am J Speech Lang Pathol. 2019 Nov 27:1-20. doi: 10.1044/2019_AJSLP-18-0257. [Epub ahead of print]


Reliability and stability of the metrical stress effect on segmental production accuracy in persons with apraxia of speech.

Bailey DJ, Bunker L, Mauszycki S, Wambaugh JL.

Int J Lang Commun Disord. 2019 Nov;54(6):902-913. doi: 10.1111/1460-6984.12493. Epub 2019 Jul 23.


Interrater Reliability and Concurrent Validity for the Apraxia of Speech Rating Scale 3.0: Application With Persons With Acquired Apraxia of Speech and Aphasia.

Wambaugh JL, Bailey DJ, Mauszycki SC, Bunker LD.

Am J Speech Lang Pathol. 2019 Jul 15;28(2S):895-904. doi: 10.1044/2018_AJSLP-MSC18-18-0099. Epub 2019 Jul 15.


Characterization and Optimization of Multiplexed Quantitative Analyses Using High-Field Asymmetric-Waveform Ion Mobility Mass Spectrometry.

Schweppe DK, Prasad S, Belford MW, Navarrete-Perea J, Bailey DJ, Huguet R, Jedrychowski MP, Rad R, McAlister G, Abbatiello SE, Woulters ER, Zabrouskov V, Dunyach JJ, Paulo JA, Gygi SP.

Anal Chem. 2019 Mar 19;91(6):4010-4016. doi: 10.1021/acs.analchem.8b05399. Epub 2019 Feb 26.


A Novel Differential Ion Mobility Device Expands the Depth of Proteome Coverage and the Sensitivity of Multiplex Proteomic Measurements.

Pfammatter S, Bonneil E, McManus FP, Prasad S, Bailey DJ, Belford M, Dunyach JJ, Thibault P.

Mol Cell Proteomics. 2018 Oct;17(10):2051-2067. doi: 10.1074/mcp.TIR118.000862. Epub 2018 Jul 14.


Comprehensive Single-Shot Proteomics with FAIMS on a Hybrid Orbitrap Mass Spectrometer.

Hebert AS, Prasad S, Belford MW, Bailey DJ, McAlister GC, Abbatiello SE, Huguet R, Wouters ER, Dunyach JJ, Brademan DR, Westphall MS, Coon JJ.

Anal Chem. 2018 Aug 7;90(15):9529-9537. doi: 10.1021/acs.analchem.8b02233. Epub 2018 Jul 18.


Effects of Blocked and Random Practice Schedule on Outcomes of Sound Production Treatment for Acquired Apraxia of Speech: Results of a Group Investigation.

Wambaugh JL, Nessler C, Wright S, Mauszycki SC, DeLong C, Berggren K, Bailey DJ.

J Speech Lang Hear Res. 2017 Jun 22;60(6S):1739-1751. doi: 10.1044/2017_JSLHR-S-16-0249.


Acquired Apraxia of Speech: The Relationship Between Awareness of Errors in Word Productions and Treatment Outcomes.

Mauszycki SC, Bailey DJ, Wambaugh JL.

Am J Speech Lang Pathol. 2017 Jun 22;26(2S):664-673. doi: 10.1044/2017_AJSLP-16-0111.


Quantification and Systematic Characterization of Stuttering-Like Disfluencies in Acquired Apraxia of Speech.

Bailey DJ, Blomgren M, DeLong C, Berggren K, Wambaugh JL.

Am J Speech Lang Pathol. 2017 Jun 22;26(2S):641-648. doi: 10.1044/2017_AJSLP-16-0108.


Birth outcomes for women using free-standing birth centers in South Auckland, New Zealand.

Bailey DJ.

Birth. 2017 Sep;44(3):246-251. doi: 10.1111/birt.12287. Epub 2017 May 2.


Hippocampal Aromatization Modulates Spatial Memory and Characteristics of the Synaptic Membrane in the Male Zebra Finch.

Bailey DJ, Makeyeva YV, Paitel ER, Pedersen AL, Hon AT, Gunderson JA, Saldanha CJ.

Endocrinology. 2017 Apr 1;158(4):852-859. doi: 10.1210/en.2016-1692.


Building ProteomeTools based on a complete synthetic human proteome.

Zolg DP, Wilhelm M, Schnatbaum K, Zerweck J, Knaute T, Delanghe B, Bailey DJ, Gessulat S, Ehrlich HC, Weininger M, Yu P, Schlegl J, Kramer K, Schmidt T, Kusebauch U, Deutsch EW, Aebersold R, Moritz RL, Wenschuh H, Moehring T, Aiche S, Huhmer A, Reimer U, Kuster B.

Nat Methods. 2017 Mar;14(3):259-262. doi: 10.1038/nmeth.4153. Epub 2017 Jan 30.


Self-Judgments of Word Production Accuracy in Acquired Apraxia of Speech.

Wambaugh J, Shuster L, Bailey DJ, Mauszycki S, Kean J, Nessler C, Wright S, Brunsvold J.

Am J Speech Lang Pathol. 2016 Dec 1;25(4S):S716-S728. doi: 10.1044/2016_AJSLP-15-0139.


Giant Cardiac Lipoma: Refined Hypothesis Proposes Invagination from Extracardiac to Intracardiac Sites.

Rainer WG, Bailey DJ, Hollis HW Jr.

Tex Heart Inst J. 2016 Oct 1;43(5):461-464. eCollection 2016 Oct.


Role of Microstructure and Surface Defects on the Dissolution Kinetics of CeO2, a UO2 Fuel Analogue.

Corkhill CL, Bailey DJ, Tocino FY, Stennett MC, Miller JA, Provis JL, Travis KP, Hyatt NC.

ACS Appl Mater Interfaces. 2016 Apr 27;8(16):10562-71. doi: 10.1021/acsami.5b11323. Epub 2016 Apr 12.


Neucode Labels for Multiplexed, Absolute Protein Quantification.

Potts GK, Voigt EA, Bailey DJ, Rose CM, Westphall MS, Hebert AS, Yin J, Coon JJ.

Anal Chem. 2016 Mar 15;88(6):3295-303. doi: 10.1021/acs.analchem.5b04773. Epub 2016 Feb 25.


The Negative Mode Proteome with Activated Ion Negative Electron Transfer Dissociation (AI-NETD).

Riley NM, Rush MJ, Rose CM, Richards AL, Kwiecien NW, Bailey DJ, Hebert AS, Westphall MS, Coon JJ.

Mol Cell Proteomics. 2015 Oct;14(10):2644-60. doi: 10.1074/mcp.M115.049726. Epub 2015 Jul 20.


High-resolution filtering for improved small molecule identification via GC/MS.

Kwiecien NW, Bailey DJ, Rush MJ, Cole JS, Ulbrich A, Hebert AS, Westphall MS, Coon JJ.

Anal Chem. 2015 Aug 18;87(16):8328-35. doi: 10.1021/acs.analchem.5b01503. Epub 2015 Aug 7.


Bidirectional Interference Between Speech and Nonspeech Tasks in Younger, Middle-Aged, and Older Adults.

Bailey DJ, Dromey C.

J Speech Lang Hear Res. 2015 Dec;58(6):1637-53. doi: 10.1044/2015_JSLHR-S-14-0083.


Sound Production Treatment: Synthesis and Quantification of Outcomes.

Bailey DJ, Eatchel K, Wambaugh J.

Am J Speech Lang Pathol. 2015 Nov;24(4):S798-814. doi: 10.1044/2015_AJSLP-14-0127.


The importance of neural aromatization in the acquisition, recall, and integration of song and spatial memories in passerines.

Bailey DJ, Saldanha CJ.

Horm Behav. 2015 Aug;74:116-24. doi: 10.1016/j.yhbeh.2015.06.007. Epub 2015 Jun 27. Review.


Critical care in the emergency department: acute kidney injury.

Nee PA, Bailey DJ, Todd V, Lewington AJ, Wootten AE, Sim KJ.

Emerg Med J. 2016 May;33(5):361-5. doi: 10.1136/emermed-2015-204722. Epub 2015 May 12. Review.


One-hour proteome analysis in yeast.

Richards AL, Hebert AS, Ulbrich A, Bailey DJ, Coughlin EE, Westphall MS, Coon JJ.

Nat Protoc. 2015 May;10(5):701-14. doi: 10.1038/nprot.2015.040. Epub 2015 Apr 9.


Contribution of energetically reactive surface features to the dissolution of CeO2 and ThO2 analogues for spent nuclear fuel microstructures.

Corkhill CL, Myllykylä E, Bailey DJ, Thornber SM, Qi J, Maldonado P, Stennett MC, Hamilton A, Hyatt NC.

ACS Appl Mater Interfaces. 2014 Aug 13;6(15):12279-89. doi: 10.1021/am5018978. Epub 2014 Jul 31.


NeuCode labels for relative protein quantification.

Merrill AE, Hebert AS, MacGilvray ME, Rose CM, Bailey DJ, Bradley JC, Wood WW, El Masri M, Westphall MS, Gasch AP, Coon JJ.

Mol Cell Proteomics. 2014 Sep;13(9):2503-12. doi: 10.1074/mcp.M114.040287. Epub 2014 Jun 17.


Organic acid quantitation by NeuCode methylamidation.

Ulbrich A, Bailey DJ, Westphall MS, Coon JJ.

Anal Chem. 2014 May 6;86(9):4402-8. doi: 10.1021/ac500270q. Epub 2014 Apr 11.


Intelligent data acquisition blends targeted and discovery methods.

Bailey DJ, McDevitt MT, Westphall MS, Pagliarini DJ, Coon JJ.

J Proteome Res. 2014 Apr 4;13(4):2152-61. doi: 10.1021/pr401278j. Epub 2014 Mar 18.


Neutron-encoded mass signatures for quantitative top-down proteomics.

Rhoads TW, Rose CM, Bailey DJ, Riley NM, Molden RC, Nestler AJ, Merrill AE, Smith LM, Hebert AS, Westphall MS, Pagliarini DJ, Garcia BA, Coon JJ.

Anal Chem. 2014 Mar 4;86(5):2314-9. doi: 10.1021/ac403579s. Epub 2014 Feb 19.


The one hour yeast proteome.

Hebert AS, Richards AL, Bailey DJ, Ulbrich A, Coughlin EE, Westphall MS, Coon JJ.

Mol Cell Proteomics. 2014 Jan;13(1):339-47. doi: 10.1074/mcp.M113.034769. Epub 2013 Oct 19.


Inhibition of hippocampal aromatization impairs spatial memory performance in a male songbird.

Bailey DJ, Ma C, Soma KK, Saldanha CJ.

Endocrinology. 2013 Dec;154(12):4707-14. doi: 10.1210/en.2013-1684. Epub 2013 Oct 8.


Amine-reactive neutron-encoded labels for highly plexed proteomic quantitation.

Hebert AS, Merrill AE, Stefely JA, Bailey DJ, Wenger CD, Westphall MS, Pagliarini DJ, Coon JJ.

Mol Cell Proteomics. 2013 Nov;12(11):3360-9. doi: 10.1074/mcp.M113.032011. Epub 2013 Jul 23.


MicroRNA signature obtained from the comparison of aggressive with indolent non-Hodgkin lymphomas: potential prognostic value in mantle-cell lymphoma.

Goswami RS, Atenafu EG, Xuan Y, Waldron L, Reis PP, Sun T, Datti A, Xu W, Kuruvilla J, Good DJ, Lai R, Church AJ, Lam WS, Baetz T, Lebrun DP, Sehn LH, Farinha P, Jurisica I, Bailey DJ, Gascoyne RD, Crump M, Kamel-Reid S.

J Clin Oncol. 2013 Aug 10;31(23):2903-11. doi: 10.1200/JCO.2012.45.3050. Epub 2013 Jul 8.


Percolation-based risk index for pathogen invasion: application to soilborne disease in propagation systems.

Poggi S, Neri FM, Deytieux V, Bates A, Otten W, Gilligan CA, Bailey DJ.

Phytopathology. 2013 Oct;103(10):1012-9. doi: 10.1094/PHYTO-02-13-0033-R.


Neutron encoded labeling for peptide identification.

Rose CM, Merrill AE, Bailey DJ, Hebert AS, Westphall MS, Coon JJ.

Anal Chem. 2013 May 21;85(10):5129-37. doi: 10.1021/ac400476w. Epub 2013 May 2.


Neutron-encoded mass signatures for multiplexed proteome quantification.

Hebert AS, Merrill AE, Bailey DJ, Still AJ, Westphall MS, Strieter ER, Pagliarini DJ, Coon JJ.

Nat Methods. 2013 Apr;10(4):332-4. doi: 10.1038/nmeth.2378. Epub 2013 Feb 24.


With a little help from my friends: androgens tap BDNF signaling pathways to alter neural circuits.

Ottem EN, Bailey DJ, Jordan CL, Breedlove SM.

Neuroscience. 2013 Jun 3;239:124-38. doi: 10.1016/j.neuroscience.2012.12.019. Epub 2012 Dec 20. Review.


Calorie restriction and SIRT3 trigger global reprogramming of the mitochondrial protein acetylome.

Hebert AS, Dittenhafer-Reed KE, Yu W, Bailey DJ, Selen ES, Boersma MD, Carson JJ, Tonelli M, Balloon AJ, Higbee AJ, Westphall MS, Pagliarini DJ, Prolla TA, Assadi-Porter F, Roy S, Denu JM, Coon JJ.

Mol Cell. 2013 Jan 10;49(1):186-99. doi: 10.1016/j.molcel.2012.10.024. Epub 2012 Nov 29.


A quantitative map of the liver mitochondrial phosphoproteome reveals posttranslational control of ketogenesis.

Grimsrud PA, Carson JJ, Hebert AS, Hubler SL, Niemi NM, Bailey DJ, Jochem A, Stapleton DS, Keller MP, Westphall MS, Yandell BS, Attie AD, Coon JJ, Pagliarini DJ.

Cell Metab. 2012 Nov 7;16(5):672-83. doi: 10.1016/j.cmet.2012.10.004.


Parallel reaction monitoring for high resolution and high mass accuracy quantitative, targeted proteomics.

Peterson AC, Russell JD, Bailey DJ, Westphall MS, Coon JJ.

Mol Cell Proteomics. 2012 Nov;11(11):1475-88. doi: 10.1074/mcp.O112.020131. Epub 2012 Aug 3.


A proteogenomic survey of the Medicago truncatula genome.

Volkening JD, Bailey DJ, Rose CM, Grimsrud PA, Howes-Podoll M, Venkateshwaran M, Westphall MS, Ané JM, Coon JJ, Sussman MR.

Mol Cell Proteomics. 2012 Oct;11(10):933-44. Epub 2012 Jul 5.


Rapid phosphoproteomic and transcriptomic changes in the rhizobia-legume symbiosis.

Rose CM, Venkateshwaran M, Volkening JD, Grimsrud PA, Maeda J, Bailey DJ, Park K, Howes-Podoll M, den Os D, Yeun LH, Westphall MS, Sussman MR, Ané JM, Coon JJ.

Mol Cell Proteomics. 2012 Sep;11(9):724-44. doi: 10.1074/mcp.M112.019208. Epub 2012 Jun 8.


Instant spectral assignment for advanced decision tree-driven mass spectrometry.

Bailey DJ, Rose CM, McAlister GC, Brumbaugh J, Yu P, Wenger CD, Westphall MS, Thomson JA, Coon JJ.

Proc Natl Acad Sci U S A. 2012 May 29;109(22):8411-6. doi: 10.1073/pnas.1205292109. Epub 2012 May 14.


Characterizing peptide neutral losses induced by negative electron-transfer dissociation (NETD).

Rumachik NG, McAlister GC, Russell JD, Bailey DJ, Wenger CD, Coon JJ.

J Am Soc Mass Spectrom. 2012 Apr;23(4):718-27. doi: 10.1007/s13361-011-0331-5.


Statistical analysis of electron transfer dissociation pairwise fragmentation patterns.

Li W, Song C, Bailey DJ, Tseng GC, Coon JJ, Wysocki VH.

Anal Chem. 2011 Dec 15;83(24):9540-5. doi: 10.1021/ac202327r. Epub 2011 Nov 28.


Proteomic and phosphoproteomic comparison of human ES and iPS cells.

Phanstiel DH, Brumbaugh J, Wenger CD, Tian S, Probasco MD, Bailey DJ, Swaney DL, Tervo MA, Bolin JM, Ruotti V, Stewart R, Thomson JA, Coon JJ.

Nat Methods. 2011 Sep 11;8(10):821-7. doi: 10.1038/nmeth.1699.


The effect of heterogeneity on invasion in spatial epidemics: from theory to experimental evidence in a model system.

Neri FM, Bates A, Füchtbauer WS, Pérez-Reche FJ, Taraskin SN, Otten W, Bailey DJ, Gilligan CA.

PLoS Comput Biol. 2011 Sep;7(9):e1002174. doi: 10.1371/journal.pcbi.1002174. Epub 2011 Sep 29.


Negative images of crystalline immunoglobulin in crystal storing histiocytosis: A potential cytologic mimic of mycobacteria in smears.

Ko HM, da Cunha Santos G, Boerner SL, Bailey DJ, Geddie WR.

Diagn Cytopathol. 2012 Oct;40(10):916-9. doi: 10.1002/dc.21677. Epub 2011 May 4.


COMPASS: a suite of pre- and post-search proteomics software tools for OMSSA.

Wenger CD, Phanstiel DH, Lee MV, Bailey DJ, Coon JJ.

Proteomics. 2011 Mar;11(6):1064-74. doi: 10.1002/pmic.201000616. Epub 2011 Feb 7.


Calbindin-D28K expression increases in the dorsolateral hippocampus following corticosterone treatment in female zebra finches (Taeniopygia guttata).

Ash AL, Saldanha CJ, Bailey DJ.

Hippocampus. 2012 Mar;22(3):510-5. doi: 10.1002/hipo.20917. Epub 2011 Feb 4.


Periodicity in host availability does not account for evolutionary branching as observed in many plant pathogens: an application to Gaeumannomyces graminis var. tritici.

van den Berg F, Gilligan CA, Bailey DJ, van den Bosch F.

Phytopathology. 2010 Nov;100(11):1169-75. doi: 10.1094/PHYTO-10-09-0282.

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