Call Us: 555-555-1234

2023 -- 2022 -- 2021 -- 2020 -- 2019 -- 2018 -- 2017 -- 2016 -- 2015 -- 2014 -- 2013 -- 2012 -- 2011 -- 2010 -- 2009 -- 2008 -- 2007 -- 2006 -- 2005


Nontargeted Identification of D-Amino Acid-Containing Peptides through Enzymatic Screening, Chiral Amino Acid Analysis, and LC-MS, S. Okyem, E.V. Romanova, H.C. Tai, J.W. Checco, J.V. Sweedler, Methods Mol. Biol. 2758, 2024, 227–240. DOI:10.1007/978-1-0716-3646-6_12

Bioinformatics for Prohormone and Neuropeptide Discovery, B.R. Southey, E.V. Romanova, S.L. Rodriguez-Zas, J.V. Sweedler, Methods Mol. Biol. 2758, 2024, 151–178. DOI:10.1007/978-1-0716-3646-6_8

Single Cell Analysis of Proteoforms, P. Su, M.A.R. Hollas, F.A. Butun, V.L. Kanchustambham, S. Rubakhin, N. Ramani, J.B. Greer, B.P. Early, R.T. Fellers, M.A. Caldwell, J.V. Sweedler, J.O. Kafader, N.L. Kelleher, J. Proteome Res. 2024, in press (online ahead of print). DOI:10.1021/acs.jproteome.4c00075

Multiscale Biochemical Mapping of the Brain through Deep-Learning-Enhanced High-Throughput Mass Spectrometry, Y.R. Xie, D.C. Castro, S.S. Rubakhin, T.J. Trinklein, J.V. Sweedler, F. Lam, Nat. Methods 21, 2024, 521–530. DOI:10.1038/s41592-024-02171-3

Advances in Multimodal Mass Spectrometry for Single-Cell Analysis and Imaging Enhancement, S.W. Croslow, T.J. Trinklein, J.V. Sweedler, FEBS Lett. 598, 2024, 591–601. DOI:10.1002/1873-3468.14798

Probe-Based Mass Spectrometry Approaches for Single-Cell and Single-Organelle Measurements, D.C. Castro, P. Chan-Andersen, E.V. Romanova, J.V. Sweedler, Mass Spectrom. Rev., 2024, 1-25, online early view. DOI:10.1002/mas.21841

NanoLC-timsTOF-Assisted Analysis of Glycated Albumin in Diabetes-Affected Plasma and Tears, Y. Tan, E.A. De La Toba, S.S. Rubakhin, D. Pan, L.T. Labriola, C. Canfield, J.V. Sweedler, J. Amer. Soc. Mass Spectrom. 35, 2024, 106–113. DOI:10.1021/jasms.3c00331


Development of a Cell-Free Strategy to Recover Aged Skeletal Muscle After Disuse, Y.-F. Wu, E. De La Toba, S. Dvoretskiy, R. Jung, N. Kim, L. Daniels, E.V. Romanova, J. Drnevich, J.V. Sweedler, M.D. Boppart, J. Physiol. 601, 2023, 5011–5031. [First published online, March 22, 2022, and held for Special Issue entitled: Extracellular Vesicles in Organ and Systems Function in Health and Disease.] DOI:10.1113/JP282867

Workflow for High-throughput Screening of Enzyme Mutant Libraries Using Matrix-assisted Laser Desorption/Ionization Mass Spectrometry Analysis of Escherichia coli Colonies, K. Choe and J.V. Sweedler, Bio-protocol 13, 2023, e4862. DOI:10.21769/BioProtoc.4862

Influence of Maternal Immune Activation and Stressors on the Hippocampal Metabolome, B.R. Southey, R.W. Johnson, S.L. Rodriguez-Zas, Metabolites 13, 2023, 881. DOI:10.3390/metabo13080881

Genes Participating in the Ensheathment of Neurons Are Affected by Postnatal Stress and Maternal Immune Activation in the Pituitary Gland, S. Alsegehy, B.R. Southey, L. Rund, R.W. Johnson, S.L. Rodriguez-Zas, Genes (Basel) 14, 2023, 1007. DOI:10.3390/genes14051007

Site-specific Chirality-conferred Structural Compaction Differentially Mediates the Cytotoxicity of Aβ42, G. Li, C. K. Jeon, M. Ma, Y. Jia, Z. Zheng, D.G. Delafield, G. Lu, E V. Romanova, J.V. Sweedler, B.T. Ruotolo, L. Li, Chem. Sci. 14, 2023, 5936–5944. DOI:10.1039/D3SC00678F

Nonenzymatic Posttranslational Modifications and Peptide Cleavages Observed in Peptide Epimers, C.C. Long, A. Antevska, D.H. Mast, S. Okyem, J.V. Sweedler, T.D. Do, J. Am. Soc. Mass Spectrom. 34, 2023, 1898–1907. DOI:10.1021/jasms.3c00092

Chemical Decrosslinking-Based Peptide Characterization of Formaldehyde-Fixed Rat Pancreas Using Fluorescence-Guided Single-Cell Mass Spectrometry, D.K. Lee, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 95, 2023, 6732–6739. DOI:10.1021/acs.analchem.3c00612

Single-Cell and Subcellular Analysis Using Ultrahigh Resolution 21 T MALDI FTICR Mass Spectrometry, D.C. Castro, K.W. Smith, M.D. Norsworthy, S.S. Rubakhin, C.R. Weisbrod, C.L. Hendrickson, J.V. Sweedler, Anal. Chem. 95, 2023, 6980–6988. DOI:10.1021/acs.analchem.3c00393

Peptidomics, R. Hellinger, A. Sigurdsson, W. Wu, E.V. Romanova, L. Li, J.V. Sweedler, R.D. Süssmuth, C.W. Gruber, Nat. Rev. Methods Primers 3, 2023, 25. DOI:10.1038/s43586-023-00205-2

Assessment and Comparison of Database Search Engines for Peptidomic Applications, E.A. De La Toba, K.D.B. Anapindi, J.V. Sweedler, J. Proteome Res. 22, 2023, 3123–3134. DOI:10.1021/acs.jproteome.2c00307

Hippocampal Changes Elicited by Metabolic and Inflammatory Stressors following Prenatal Maternal Infection, S.L. Rodriguez-Zas, B.R. Southey, H.E. Rymut, L.A. Rund, R.W. Johnson. Genes (Basel) 14, 2022:77. DOI:10.3390/genes14010077

Data-Driven and Machine Learning-Based Framework for Image-Guided Single-Cell Mass Spectrometry, X.R. Xie, V.K. Chari, D.C. Castro, R. Grant, S.S. Rubakhin, J.V. Sweedler, J. Proteome Res. 22, 2023, 491–500. DOI:10.1021/acs.jproteome.2c00714

Structural and Mechanistic Basis for the Inactivation of Human Ornithine Aminotransferase by (S)-3-Amino-(S)-4-fluorocyclopentenecarboxylic Acid, S. Shen, A. Butrin, B.A. Beaupre, G.M. Ferreira, P.F. Doubleday, D.H. Grass, W. Zhu, N.L. Kelleher, G.R. Moran, D. Liu, R.B Silverman, Molecules 28, 2023, 1133. DOI:10.3390/molecules28031133



Single Cell Metabolism: Current and Future Trends, A. Ali, S. Davidson, E. Fraenkel, I. Gilmore, T. Hankemeier, J.A. Kirwan, A.N. Lane, I. Lanekoff, M. Larion, L.I. McCall, M. Murphy, J.V. Sweedler, C. Zhu, Metabolomics 18, 2022, 77. DOI:10.1007/s11306-022-01934-3

Attomole-Level Multiplexed Detection of Neurochemicals in Picoliter Droplets by on-Chip Nanoelectrospray Ionization Coupled to Mass Spectrometry, Y. Zhang, K. Li, Y. Zhao, W. Shi, H. Iyer, S. Kim, C. Brenden, J.V. Sweedler, Y. Vlasov, Anal. Chem. 94, 2022, 13804–13809. DOI:10.1021/acs.analchem.2c02323

Highly Multiplexed, Label-Free Proteoform Imaging of Tissues by Individual Ion Mass Spectrometry, P. Su, J.P. McGee, K.R. Durbin, M.A.R. Hollas, M. Yang, E.K. Neumann, J.L. Allen, B.S. Drown, F.A. Butun, J.B. Greer, B.P. Early, R.T. Fellers, J.M. Spraggins, J. Laskin, J.M. Camarillo, J.O. Kafader, N.L. Kelleher, Sci. Adv. 8, 2022, eabp9929. DOI:10.1126/sciadv.abp9929

Terpenoid Backbone Biosynthesis among Pig Hippocampal Pathways Impacted by Stressors, H.E. Rymut, L.A. Rund, B.R. Southey, R.W. Johnson, S.L. Rodriguez-Zas, Genes (Basel) 13, 2022, 814. DOI:10.3390/genes13050814

Changes in Neuropeptide Prohormone Genes among Cetartiodactyla Livestock and Wild Species Associated with Evolution and Domestication, B.R. Southey, S.L. Rodriguez-Zas, Vet. Sci. 9, 2022, 247. DOI:10.3390/vetsci9050247

Alternative Splicing of Neuropeptide Prohormone and Receptor Genes Associated with Pain Sensitivity Was Detected with Zero-Inflated Models, B.R. Southey, S.L. Rodriguez-Zas, Biomedicines 10, 2022, 877. DOI:10.3390/biomedicines10040877

Revving an Engine of Human Metabolism: Activity Enhancement of Triosephosphate Isomerase Via Hemi-Phosphorylation, L.F. Schachner, B.D. Soye, S. Ro, G.E. Kenney, A.N. Ives, T. Su, Y.A. Goo, M.C. Jewett, A.C. Rosenzweig, N.L. Kelleher, ACS Chem. Biol. 17, 2022, 2769-2780. DOI:10.1021/acschembio.2c00324

Profiling 26,000 Aplysia Californica Neurons by Single Cell Mass Spectrometry Reveals Neuronal Populations with Distinct Neuropeptide Profiles, P.C. Chan-Andersen, E.V. Romanova, S.S. Rubakhin, J.V. Sweedler, J. Biol. Chem. 298, 2022, 102254. DOI:10.1016/j.jbc.2022.102254

Prefrontal Cortex Response to Prenatal Insult and Postnatal Opioid Exposure, H.E. Rymut, L.A. Rund, B.R. Southey, R.W. Johnson, J.V. Sweedler, S.L. Rodriguez-Zas, Genes (Basel) 13, 2022, 1371. DOI:10.3390/genes13081371

Rapid Determination of RNA Modifications in Consensus Motifs by Nuclease Protection with Ion-Tagged Oligonucleotide Probes and Matrix-Assisted Laser Desorption Ionization Mass Spectrometry, M.E. Melzer, J.V. Sweedler, K.D. Clark, Genes (Basel) 13, 2022, 1008. DOI:10.3390/genes13061008

Metabolomics-Based Mass Spectrometry Methods to Analyze the Chemical Content of 3D Organoid Models, S.E. Murphy and J.V. Sweedler, Analyst 147, 2022, 2918–2929. DOI:10.1039/d2an00599a

Mass Spectrometry Approaches Empowering Neuropeptide Discovery and Therapeutics, K.D. B. Anapindi, E.V. Romanova, J.W. Checco, J.V. Sweedler, Pharmacol. Rev. 74, 2022, 662–679. DOI:10.1124/pharmrev.121.000423

Transcriptomic Plasticity of the Hypothalamic Osmoregulatory Control Centre of the Arabian Dromedary Camel, P. Lin, B.T. Gillard, A.G. Pauža, F.A. Iraizoz, M.A. Ali, A.S. Mecawi, F.Z.D. Alim, E.V. Romanova, P.A. Burger, M.P. Greenwood, A. Adem, D. Murphy, Commun. Biol. 5, 2022, 1008. DOI:10.1038/s42003-022-03857-0

Mass Spectrometry Measurements of Neuropeptides: From Identification to Quantitation, E.A. De La Toba, S.E. Bell, E.V. Romanova, J.V. Sweedler, Annu. Rev. Anal. Chem. (Palo Alto Calif.) 15, 2022, 83–106. DOI:10.1146/annurev-anchem-061020-022048

Characterizing RNA Modifications in Single Neurons using Mass Spectrometry, K.D. Clark, S.S. Rubakhin, J.V. Sweedler, J. Vis. Exp. (182), 2022, e63940. DOI:10.3791/63940

Enhancing the Throughput of FT Mass Spectrometry Imaging Using Compressed Sensing and Subspace Modeling, Y.R. Xie, D.C. Castro, S.S. Rubakhin, J.V. Sweedler, F. Lam, Anal. Chem. 94, 2022, 5335–5343. DOI:10.1021/acs.analchem.1c05279

Rational Design, Synthesis, and Mechanism of (3S,4R)-3-Amino-4-(difluoromethyl)cyclopent-1-ene-1-carboxylic Acid Employing a Second-Deprotonation Strategy for Selectivity of Human Ornithine Aminotransferase over GABA Aminotransferase, W. Zhu, A. Butrin, R.D. Melani, P.F. Doubleday, G. Monteiro Ferreira, M.T. Tavares, T.S. Habeeb Mohammad, B.A. Beaupre, N.L. Kelleher, G.R. Moran, D. Liu, and R.B. Silverman, J. Amer. Chem. Soc. 144, 2022, 5629–5642. DOI:10.1021/jacs.2c00924

ProSight Annotator: Complete Control and Customization of Protein Entries in UniProt XML Files, J.B. Greer, B.P. Early, K.R. Durbin, S.M. Patrie, P.M. Thomas, N.L. Kelleher, R.D. LeDuc, R.T. Fellers, Proteomics, 2022:e2100209. DOI:10.1002/pmic.202100209



Separation and Characterization of Endogenous Nucleosomes by Native Capillary Zone Electrophoresis-Top-Down Mass Spectrometry, K. Jooß, L. F. Schachner, R. Watson, Z.B. Gillespie, S.A. Howard, M.A. Cheek, M.J. Meiners, A. Sobh, J.D. Licht, M.C. Keogh, N.L. Kelleher, Anal. Chem. 93, 2021, 5151–5160. DOI:10.1021/acs.analchem.0c04975

Impact of Weaning and Maternal Immune Activation on the Metabolism of Pigs, B.R. Southey, C.R. Bolt, H.E. Rymut, M.R. Keever, A.V. Ulanov, Z. Li, L.A. Rund, J.V. Sweedler, R.W. Johnson, S.L. Rodriguez-Zas, Front Mol Biosci. 8, 2021, 660764. DOI:10.3389/fmolb.2021.660764

Biochemistry and Immune Biomarkers Indicate Interacting Effects of Pre- and Postnatal Stressors in Pigs across Sexes, H.E. Rymut, L.A. Rund, C.R. Bolt, M.B. Villamil, D.E. Bender, B.R. Southey, R.W. Johnson, S.L. Rodriguez-Zas, Animals (Basel) 11, 2021, 987. DOI:10.3390/ani11040987

Interacting Impact of Maternal Inflammatory Response and Stress on the Amygdala Transcriptome of Pigs, M.R. Keever-Keigher, P. Zhang, C.R. Bolt, H.E. Rymut, A.M. Antonson, M.P. Caputo, A.K. Houser, A.G. Hernandez, B.R Southey, L.A. Rund, R.W. Johnson, S.L. Rodriguez-Zas, G3 (Bethesda) 11, 2021, jkab113. DOI:10.1093/g3journal/jkab113

The Combined Effect of Weaning Stress and Immune Activation During Pig Gestation on Serum Cytokine and Analyte Concentrations, H.E. Rymut, L.A. Rund, C.R. Bolt, M.B. Villamil, B.R. Southey, R.W. Johnson, S.L. Rodriguez-Zas, Animals (Basel) 11, 2021, 2274. DOI:10.3390/ani11082274

Comparative Analysis of Neuropeptides in Homologous Interneurons and Prohormone Annotation in Nudipleuran Sea Slugs, C.A. Lee, E.V. Romanova, B.R. Southey, R. Gillette, J.V. Sweedler, Front. Aquat. Physiol. 12, 2021, 809529. DOI:10.3389/fphys.2021.809529

Physiopathological Relevance of D-Serine in the Mammalian Cochlea, J. Wang, N. Serratrice, C.J. Lee, J.V. Sweedler, J-L. Puel, J.-P. Mothet, J. Ruel, Front. Cell. Neurosci. 15, 2021, 733004. DOI:10.3389/fncel.2021.733004

Identification of Lipid Heterogeneity and Diversity in the Developing Human Brain, A. Bhaduri, E.K. Neumann, A.R. Kriegstein, J.V. Sweedler, JACS Au 1, 2021, 2261−2270. DOI:10.1021/jacsau.1c00393

Alternative Splicing Mechanisms Underlying Opioid-Induced Hyperalgesia, P. Zhang, O.C. Perez, B.R. Southey, J.V. Sweedler, A.A. Pradhan, S.L. Rodriguez-Zas, Genes (Basel) 12, 2021, 1570. DOI:10.3390/genes12101570

Single-Neuron RNA Modification Analysis by Mass Spectrometry: Characterizing RNA Modification Patterns and Dynamics with Single-Cell Resolution, K.D. Clark, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 93, 2021, 14537–1454. DOI:10.1021/acs.analchem.1c03507

Image-Guided MALDI Mass Spectrometry for High-throughput Single-Organelle Characterization, D.C. Castro, Y.R. Xie, S.S. Rubakhin, E.V. Romanova, J.V. Sweedler, Nat. Methods 18, 2021, 1233–1238. DOI:10.1038/s41592-021-01277-2

Droplet Microfluidics with MALDI-MS Detection: The Effects of Oil Phases in GABA Analysis, S.E. Bell, I. Park, S.S. Rubakhin, R. Bashir, Y. Vlasov, J.V. Sweedler, ACS Meas. Sci. Au 1, 2021, 147−156. DOI:10.1021/acsmeasuresciau.1c00017

Characterization of Neuronal RNA Modifications during Non-associative Learning in Aplysia Reveals Key Roles for tRNAs in Behavioral Sensitization, K.D. Clark, C. Lee, R. Gillette, J.V. Sweedler, ACS Central Sci. 7, 2021, 1183–1190. DOI: 10.1021/acscentsci.1c00351

Analysis of Peptide Stereochemistry in Single Cells by Capillary Electrophoresis-Trapped Ion Mobility Spectrometry Mass Spectrometry, D.H. Mast, H-W. Liao, E.V. Romanova, J.V. Sweedler, Anal. Chem. 93, 2021, 6205–6213. DOI:10.1021/acs.analchem.1c00445

Remarkable and Unexpected Mechanism for (S)-3-Amino-4-(Difluoromethylenyl)Cyclohex-1-Ene-1-Carboxylic Acid as a Selective Inactivator of Human Ornithine Aminotransferase, W. Zhu, P.F. Doubleday, A. Butrin, P.M. Weerawarna, R.D. Melani, D.S. Catlin, T.A. Dwight, D. Liu, N.L. Kelleher, R.B. Silverman, J. Am. Chem. Soc., 2021, 8193–8207. DOI:10.1021/jacs.1c03572

Turnover and Inactivation Mechanisms for (S)-3-Amino-4,4-Difluorocyclopent-1-Enecarboxylic Acid, a Selective Mechanism-Based Inactivator of Human Ornithine Aminotransferase, S. Shen, A. Butrin, P.F. Doubleday, R.D. Melani, B.A. Beaupre, M.T. Tavares, G.M. Ferreira, N.L. Kelleher, G.R. Moran, D. Liu, R.B. Silverman, J. Am. Chem. Soc. 143, 2021, 8689-8703. DOI:10.1021/jacs.1c02456

Reassembling Protein Complexes After Controlled Disassembly by Top-Down Mass Spectrometry in Native Mode, L.F. Schachner, D.P. Tran, A. Lee, J.P. McGee, K. Jooss, K. Durbin, H. Dos Santos Seckler, L. Adams, E, Cline, R, Melani, A.N. Ives, B. Des Soye, N.L. Kelleher, S.M. Patrie, Int. J. Mass Spectrom. 465, 2021, 116591. DOI:10.1016/j.ijms.2021.116591

macroMS: An Image-Guided Analysis of Random Objects by Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry, K. Choe, P. Xue, H. Zhao, J.V. Sweedler, J. Am. Soc. Mass Spectrom. 32, 2021, 1180–1188. DOI:10.1021/jasms.1c00013

Effects of Maternal Immune Activation in Porcine Transcript Isoforms of Neuropeptide and Receptor Genes, B.R. Southey, P. Zhang, M.R. Keever, H.E. Rymut, R.W. Johnson, J.V. Sweedler, S.L. Rodriguez-Zas, J. Integr. Neurosci. 20, 2021, 21–31. DOI:10.31083/j.jin.2021.01.332

Isotopic Resolution of Protein Complexes up to 466 kDa Using Individual Ion Mass Spectrometry, J.P. McGee, R.D. Melani, P.F. Yip, M.W Senko, P.D. Compton, J.O. Kafader, N.L. Kelleher, Anal. Chem. 93, 2021, 2723–2727. DOI:10.1021/acs.analchem.0c03282 Featured on the Front Cover

Enhanced Understanding of Molecular Interactions and Function Underlying Pain Processes Through Networks of Transcript Isoforms, Genes, and Gene Families, P. Zhang, B.R. Southey, J.V. Sweedler, A. Pradhan, S.L. Rodriguez-Zas, Adv. Appl. Bioinform. Chem. 14, 2021, 49–69. DOI:10.2147/AABC.S284986

3D Particle-Free Printing of Biocompatible Conductive Hydrogel Platforms for Neuron Growth and Electrophysiological Recording, C. Wang, S.S. Rubakhin, M.J. Enright, J.V. Sweedler, R.G. Nuzzo, Adv. Funct. Mater. 31, 2021, 2010246. DOI:10.1002/adfm.202010246

Advancing D-Amino Acid-Containing Peptide Discovery in the Metazoan, D.H. Mast, J.W. Checco, J.V. Sweedler, Biochim. Biophys. Acta Proteins Proteom. 1869, 2021, 140553. DOI:10.1016/j.bbapap.2020.140553



Accelerating Fourier-Transform Ion Cyclotron Resonance Mass Spectrometry Imaging Using a Subspace Approach, Y.R. Xie, D.C. Castro, F. Lam, J.V. Sweedler, J. Am. Soc. Mass Spectrom. 31, 2020, 2338–2347. DOI:10.1021/jasms.0c00276

A Remarkable Difference That One Fluorine Atom Confers on the Mechanisms of Inactivation of Human Ornithine Aminotransferase by Two Cyclohexene Analogues of γ-Aminobutyric Acid, W. Zhu, P.F. Doubleday, D.S. Catlin, P. Weerawarna, A. Butrin, S. Shen, Z. Wawrzak, N.L. Kelleher, D. Liu, R.B. Silverman, J. Amer. Chem. Soc. 142, 2020, 4892–4903. DOI:10.1021/jacs.0c00193

Mechanism-Based Design of 3-Amino-4-Halocyclopentenecarboxylic Acids as Inactivators of GABA Aminotransferase, S. Shen, P.F. Doubleday, P.M. Weerawarna, W. Zhu, N.L. Kelleher, R.B. Silverman, ACS Med. Chem. Lett. 11, 2020, 1949–1955. DOI:10.1021/acsmedchemlett.9b00672

Single-Cell Classification Using Mass Spectrometry Through Interpretable Machine Learning, Y.R. Xie, D.C. Castro, S.E. Bell, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 92, 2020, 9338–9347. DOI:10.1021/acs.analchem.0c01660

Enhanced Single-Cell Metabolomics by Capillary Electrophoresis Electrospray Ionization-Mass Spectrometry with Field Amplified Sample Injection, H-W. Liao, S.S. Rubakhin, M.C. Philip, J.V. Sweedler, Anal. Chim. Acta 1118, 2020, 36–43. DOI:10.1016/j.aca.2020.04.028

Quantitative Imprint Mass Spectrometry Imaging of Endogenous Ceramides in Rat Brain Tissue with Kinetic Calibration, Q. Wu, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 92, 2020, 6613–6621. DOI:10.1021/acs.analchem.0c00392

Co-expression Networks Uncover Regulation of Splicing and Transcription Markers of Disease. P. Zhang, B.R. Southey, S.L. Rodriguez-Zas, 2020. Qin Ding, Oliver Eulenstein and Hisham Al-Mubaid (editors). Proceedings of the 12th International Conference on Bioinformatics and Computational Biology 70, 2020, 119–128. DOI:10.29007/rl4h

Characterization of the Prohormone Complement in Amphiprion and Related Fish Species Integrating Genome and Transcriptome Assemblies, B.R. Southey, S.L. Rodriguez Zas, J.S. Rhodes, J.V. Sweedler, PLOS ONE 15, 2020: e0228562. DOI:10.1371/journal.pone.0228562

Quantitative Characterization of the Neuropeptide Level Changes in Dorsal Horn and Dorsal Root Ganglia Regions of the Murine Itch Models, E.G. Tillmaand, K.D.B. Anapindi, E.A. De La Toba, C.J. Guo, J. Krebs, A.N. Lenhart, J.V. Sweedler, Q. Liu, J. Proteome Res. 19, 2020, 1248–1257. DOI:10.1021/acs.jproteome.9b00758

Differential Post-translational Amino Acid Isomerization Found Among Neuropeptides in Aplysia californica, D.H. Mast, J.W. Checco, J.V. Sweedler, ACS Chem. Biol. 15, 2020, 272–281. DOI:10.1021/acschembio.9b00910



PACAP and Other Neuropeptides Link Chronic Migraine and Opioid-Induced Hyperalgesia in Mouse Models, K.D.B. Anapindi, N. Yang, E.V. Romanova, S.S. Rubakhin, A. Tipton, I. Dripps, Z. Sheets, J.V. Sweedler, A.A. Pradhan, Mol. Cell. Proteomics 18, 2019, 2447–2458. DOI:10.1074/mcp.RA119.001767

A Rotifer-Derived Paralytic Compound Prevents Transmission of Schistosomiasis to a Mammalian Host, J. Gao, N. Yang, F.A. Lewis, P. Yau, J.J. Collins, 3rd, J.V. Sweedler, P.A. Newmark, PLOS Biol. 17, 2019, e3000485. DOI:10.1371/journal.pbio.3000485

Multidimensional Top-Down Proteomics of Brain Region-Specific Mouse Brain Proteoforms Responsive to Cocaine and Estradiol, H.-M. Park, R. Satta, R.G. Davis, Y.A. Goo, R.D. LeDuc, R.T. Fellers, J.B. Greer, E.V. Romanova, S.S. Rubakhin, R. Tai, P.M. Thomas, J.V. Sweedler, N.L. Kelleher, S.M. Patrie, A.W. Lasek, J. Proteome Res. 18, 2019, 39994012. DOI:10.1021/acs.jproteome.9b00481 Featured on the Front Cover

Accurate Estimation of Context-Dependent False Discovery Rates in Top-Down Proteomics, R.D. LeDuc, R.T. Fellers, B.P. Early, J.B. Greer, D.P. Shams, P.M. Thomas, N.L. Kelleher, Mol. Cell. Proteomics 18, 2019, 796–805. DOI:10.1074/mcp.RA118.000993

Mechanism of Inactivation of Ornithine Aminotransferase by (1s,3s)-3-Amino-4-(Hexafluoropropan-2-Ylidenyl)Cyclopentane-1-Carboxylic Acid, M.J. Moschitto, P.F. Doubleday, D.S. Catlin, N.L. Kelleher, D. Liu, R.B. Silverman, J. Am. Chem. Soc. 141, 2019, 10711–10721. DOI:10.1021/jacs.9b03254

Seasonal Adaptations of the Hypothalamo-Neurohypophyseal System of the Dromedary Camel, F.Z.D. Alim, E.V. Romanova, Y.L. Tay, A. Rahman, K.G. Chan, K.W. Hong, M. Rogers, B.R. Southey, M.P. Greenwood, A.S. Mecawi, M.R. Mustafa, N. Mahy, C. Campbell, J. Antunes-Rodrigues, J.V. Sweedler, D. Murphy, C.C.T. Hindmarch, PLOS ONE 14, 2019, e0216679. DOI:10.1371/journal.pone.0216679

Opioid-Induced Hyperalgesia is Associated with Dysregulation of Circadian Rhythm and Adaptive Immune Pathways in the Mouse Trigeminal Ganglia and Nucleus Accumbens, P. Zhang, L.S. Moye, B.R. Southey, I. Dripps, J.V. Sweedler, A. Pradhan, S.L. Rodriguez-Zas, Mol. Neurobiol. 56, 2019, 7929–7949. DOI:10.1007/s12035-019-01650-5

Lipid Analysis of 30 000 Individual Rodent Cerebellar Cells using High-Resolution Mass Spectrometry, E.K. Neumann, J.F. Ellis, A.E. Triplett, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 91, 2019, 7871–7878. DOI:10.1021/acs.analchem.9b01689

Lipid Heterogeneity Between Astrocytes and Neurons Revealed by Single-Cell MALDI-MS Combined with Immunocytochemical Classification, E.K. Neumann, T.J. Comi, S.S. Rubakhin, J.V. Sweedler, Angew. Chemie Int. Ed. 58, 2019, 5910–5914. DOI:10.1002/anie.201812892

Investigating Brain D-Serine: Advocacy for Good Practices, J.P. Mothet, J.M. Billard, L. Pollegioni, J.T. Coyle, J.V. Sweedler, Acta Physiol (Oxf) 226, 2019, e13257. DOI:10.1111/apha.13257

Exploring the Fundamental Structures of Life: Non-targeted, Chemical Analysis of Single Cells and Subcellular Structures, E.K. Neumann, T.D. Do, T.J. Comi, J.V. Sweedler, Angew. Chemie Int. Ed. Engl. 58, 2019, 9348–9364. DOI:10.1002/anie.201811951



Interplay between Amphetamine and Activity Level in Gene Networks of the Mouse Striatum, T.M. Goncalves, B.R. Southey, S.L. Rodriguez-Zas, Bioinform. Biol. Insights 12, 2018, 1177932218815152. DOI:10.1177/1177932218815152

Gene Network Dysregulation in the Trigeminal Ganglia and Nucleus Accumbens of a Model of Chronic Migraine-Associated Hyperalgesia, H. Jeong, L.S. Moye, B.R. Southey, A.G. Hernandez, I. Dripps, E.V. Romanova, S.S. Rubakhin, J.V. Sweedler, A.A. Pradhan, S.L. Rodriguez-Zas, Front. Sys. Neurosci. 12, 2018, 63. DOI:10.3389/fnsys.2018.00063

Exploring Exercise- and Context-Induced Peptide Changes in Mice by Quantitative Mass Spectrometry, S.E. Dowd, M.L. Mustroph, E.V. Romanova, B.R. Southey, H. Pinardo, J.S. Rhodes, J.V. Sweedler, ACS Omega 3, 2018, 13817–13827. DOI:10.1021/acsomega.8b01713

Aplysia Allatotropin-related Peptide and its Newly identified D-Amino Acid-containing Epimer both Activate a Receptor and a Neuronal Target, J.W. Checco, G. Zhang, W.-D. Yuan, Z.-W. Le, J. Jing, J.V. Sweedler, J. Biol. Chem. 293, 16862–16873. DOI:10.1074/jbc.RA118.004367

Multimodal Chemical Analysis of the Brain by High Mass Resolution Mass Spectrometry and Infrared Spectroscopic Imaging, E.K. Neumann, T.J. Comi, N. Spegazzini, J.W. Mitchell, S.S. Rubakhin, M.U. Gillette, R. Bhargava, J.V. Sweedler, Anal. Chem. 90, 11572–11580. DOI:10.1021/acs.analchem.8b02913

Brain Region-dependent Gene Networks Associated with Selective Breeding for Increased Voluntary Wheel-Running Behavior, P. Zhang, J.S. Rhodes, T. Garland Jr, S.D. Perez, B.R. Southey, S.L. Rodriguez-Zas, PLOS ONE 13, 2018, e0201773. DOI:10.1371/journal.pone.0201773

Striatal Transcriptome of a Mouse Model of ADHD Reveals a Pattern of Synaptic Remodeling, A.M. Sorokina, M. Saul, T.M. Goncalves, J.V. Gogola, P. Majdak, S.L. Rodriguez-Zas, J.S. Rhodes, PLOS ONE 13, 2018, e0201553. DOI:10.1371/journal.pone.0201553

cAMP, Ca2+, pHi, and NO Regulate H-Like Cation Channels That Underlie Feeding and Locomotion in the Predatory Sea-Slug Pleurobranchaea californica, D.J. Green, R.C. Huang, L. Sudlow, N.G. Hatcher, K. Potgieter, C.R. McCrohan, C. Lee, E.V. Romanova, J.V. Sweedler, M.U. Gillette, R.G. Gillette, ACS Chem. Neurosci. 9, 1986–1993. DOI:10.1021/acschemneuro.8b00187

Functional Peptidomics: Stimulus- and Time-of-Day-Specific Peptide Release in the Mammalian Circadian Clock, N. Atkins, Jr., S. Ren, N. Hatcher, P.W. Burgoon, J.W. Mitchell, J.V. Sweedler, M.U. Gillette, ACS Chem. Neurosci. 9, 2018,2001–2008. DOI:10.1021/acschemneuro.8b00089

Newly Identified Aplysia SPTR-Gene Family-Derived Peptides: Localization and Function, G. Zhang, W-D. Yuan,  F.S. Vilim, E.V. Romanova, K.Yu, S-Y. Yin, Z-W. Le, Y-Y. Xue, T-T. Chen, G-K. Chen, S-A. Chen, E.C. Cropper, J.V. Sweedler, K.R. Weiss, J. Jing, ACS Chem. Neurosci. 9, 2041–2053. DOI:10.1021/acschemneuro.7b00513

Conformational Investigation of the Structure – Activity Relationship of GdFFD and Its Analogues on an Achatin-like Neuropeptide Receptor of Aplysia californica Involved in the Feeding Circuit, T.D. Do, J.W. Checco, M.Tro, J.-E. Shea, M.T. Bowers, J.V. Sweedler, Phys. Chem. Chem. Phys. 20, 2018, 22047–22057. DOI:10.1039/C8CP03661F

Integrating Mass Spectrometry with Microphysiological Systems for Improved Chemical Information, E.G. Tillmaand and J.V. Sweedler, Microphysiol. Syst. 2, 2018, 4. DOI:10.21037/mps.2018.05.01

Disruption of Microglia Histone Acetylation and Protein Pathways in Mice Exhibiting Inflammation-Associated Depression-Like Symptoms, S.L. Rodriguez-Zas, C. Wu, B.R. Southey, J.C. O’Connor, S.E. Nixon, R. Garcia, C. Zavala, M. Lawson, R.H. McCusker, E.V. Romanova, J.V. Sweedler, K.W. Kelley, R. Dantzer, Psychoneuroendocrinology 97, 2018, 47–58. DOI:10.1016/j.psyneuen.2018.06.024

Single Synaptic Observation of Cholinergic Neurotransmission on Living Neurons: Concentration and Dynamics, M. Shen, Z. Qu, J. DesLaurier, T.M. Welle, J.V. Sweedler, R. Chen, J. Am. Chem. Soc. 140, 2018, 7764–7768. DOI:10.1021/jacs.8b01989

b-Glucocerebrosidase Modulators Promote Dimerization of b-Glucocerebrosidase and Reveal an Allosteric Binding Site, J. Zheng, L. Chen, O.S. Skinner, D. Ysselstein, J. Remis, P. Lansbury, R. Skerlj, M. Mrosek, U. Heunisch, S. Krapp, J. Charrow, M. Schwake, N.L. Kelleher, R.B. Silverman, D. Krainc, J. Am. Chem. Soc. 140, 2018, 5914–5924. DOI:10.1021/jacs.7b13003

A High Spatiotemporal Study of Somatic Exocytosis with Scanning Electrochemical Microscopy and NanoITIES Electrodes, T.M. Welle, K. Alanis, M.L. Colombo, J.V. Sweedler, M. Shen, Chem. Sci. 9, 2018, 4937–4941. DOI:10.1039/C8SC01131A

Top-Down Proteomics Enables Comparative Analysis of Brain Proteoforms between Mouse Strains, R.G. Davis, H.-M. Park, K. Kim, J.B. Greer, R.T. Fellers, R.D. LeDuc, E.V. Romanova, S.S. Rubakhin, J.A. Zombeck, C. Wu, P.M. Yau, P. Gao, A.J. van Nispen, S.M. Patrie, P.M. Thomas, J.V. Sweedler, J.S. Rhodes, N.L. Kelleher, Anal. Chem. 90, 2018, 3802–3810. DOI:10.1021/acs.analchem.7b04108

Exploring the Sea Urchin Neuropeptide Landscape by Mass Spectrometry, E.B. Monroe, S.P. Annangudi, A.A. Wadhams, T.A. Richmond, N. Yang, B.R. Southey, E.V. Romanova, L. Schoofs, G. Baggerman, J.V. Sweedler, J. Am. Soc. Mass Spectrom. 29, 2018, 923–934. DOI:10.1007/s13361-018-1898-x

Optically Guided Single Cell Mass Spectrometry of Rat Dorsal Root Ganglia to Profile Lipids, Peptides and Proteins, T.D. Do, J.F. Ellis, E.K. Neumann, T.J. Comi, E.G. Tillmaand, A.M. Lenhart, S.S. Rubakhin, J.V. Sweedler, ChemPhysChem. 19, 2018, 1180–1191. DOI:10.1002/cphc.201701364

Molecular and Physiological Characterization of a D-Amino Acid-Containing Neuropeptide Receptor, J.W. Checco, G. Zhang, W. Yuan, K. Yu, S. Yin, R.H. Roberts-Galbraith, P.M. Yau, E.V. Romanova, J. Jing, J.V. Sweedler, ACS Chem. Biol. 13, 2018,1343–1352. DOI:10.1021/acschembio.8b00167

Neuropeptidomics of the Rat Habenular Nuclei, N. Yang, K.D.B. Anapindi, S.S. Rubakhin, P. Wei, Q. Yu, L. Li, P.J. Kenny, J.V. Sweedler, J. Proteome Res. 17, 2018, 1463–1473. DOI:10.1021/acs.jproteome.7b00811

Non-Targeted Identification of D-Amino Acid-Containing Peptides through Enzymatic Screening, Chiral Amino Acid Analysis, and LC-MS, H.C. Tai, J.W. Checco, J.V. Sweedler, Methods Mol. Biol. 1719, 2018, 107–118. DOI:10.1007/978-1-4939-7537-2_7

Bioinformatics for Prohormone and Neuropeptide Discovery, B.R. Southey, E.V. Romanova, S.L. Rodriguez-Zas, J.V. Sweedler, Methods Mol. Biol. 1719, 2018, 71–96. DOI:10.1007/978-1-4939-7537-2_5

Peptide Identifications and False Discovery Rates using Different Mass Spectrometry Platforms, K.D.B. Anapindi, E. V. Romanova, B.R. Southey, J.V. Sweedler, Talanta 182, 2018,456–463. DOI:10.1016/j.talanta.2018.01.062

The Effects of Aging on Biosynthetic Processes in the Rat Hypothalamic Osmoregulatory Neuroendocrine System, M. Greenwood, E.V. Romanova, A.S. Mecawi, A.R. Paterson, O. Sarenac, N. Japundžić-Žigon, J. Antunes-Rodrigues, J.F. Paton, J.V. Sweedler, D. Murphy, Neurobiol. Aging 65, 2018, 178–191. DOI:10.1016/j.neurobiolaging.2018.01.008.

Single Cell Neurometabolomics, M. Qi, M.C. Philip, N. Yang, J.V. Sweedler, ACS Chem. Neurosci. 9, 2018, 40–50. DOI:10.1021/acschemneuro.7b00304



Chiral Measurement of Aspartate and Glutamate in Single Neurons by Large-Volume Sample Stacking Capillary Electrophoresis, A.V. Patel, T. Kawai, L. Wang, S.S. Rubakhin,  J.V. Sweedler, Anal. Chem. 89, 2017, 12375–12382. DOI:10.1021/acs.analchem.7b03435

Improved Identification and Quantitation of Mature Endogenous Peptides in Rodent Hypothalamus with the Use of a Rapid Conductive Heating System, N. Yang, K. Anapindi, S.S. Rubakhin, E.V. Romanova, J.V. Sweedler, Analyst 142, 2017, 4476–4485. DOI:10.1039/C7AN01358B

Three-Dimensional Mesostructures as High-Temperature Growth Templates, Electronic Cellular Scaffolds, and Self-Propelled Microrobots, Z. Yan, M. Han, Y. Shi, A. Badea, Y. Yang, A. Kulkarni, E. Hanson, M.E. Kandel, X. Wen, F. Zhang, Y. Luo, Q. Lin, H. Zhang, X. Guo, Y. Huang, K. Nan, S. Jia, A.W. Oraham, M.B. Mevis, J. Lim, X. Guo, M. Gao, W. Ryu, K.J. Yu, B.G. Nicolau, A. Petronico, S.S. Rubakhin, J. Lou, P.M. Ajayan, K. Thornton, G. Popescu, D. Fang, J.V. Sweedler, P.V. Braun, H. Zhang, R.G. Nuzzo, Y. Huang, Y. Zhang, J.A. Rogers, Proc. Natl. Acad. Sci., U.S.A. 114, 2017, E9455–E9464. DOI:10.1073/pnas.1713805114

Discovery of Leucokinin-like Neuropeptides that Modulate a Specific Parameter of Feeding Motor Programs in the Molluscan Model, Aplysia, G. Zhang, F.S. Vilim, D.-D. Liu, E.V. Romanova, K. Yu, W.-D. Yuan, H. Xiao, A.B. Hummon, T.-T. Chen, V. Alexeeva, S.-Y. Yin, S.-A. Chen, E.C Cropper, J.V. Sweedler, K.R Weiss, J. Jing, J. Biol. Chem. 292, 2017, 18775–18789. DOI:10.1074/jbc.M117.795450

Deterministic Integration of Biological and Soft Materials onto 3D Microscale Cellular Frameworks, J.M. McCracken, S. Xu, A. Badea, K.-I. Jang, Z. Yan, D.J. Wetzel, K. Nan, Q. Lin, M. Han, M.A. Anderson, J.W. Lee, Z. Wei, M. Pharr, R. Wang, J. Su, S.S. Rubakhin, J.V. Sweedler, J.A. Rogers, R.G. Nuzzo, Adv. Biosys. 1, 2017, 1700068. DOI:10.1002/adbi.201700068

3D-Printed pHEMA Materials for Topographical and Biochemical Modulation of Dorsal Root Ganglion Cell Response, A. Badea, J.M. McCracken, E.G. Tillmaand, M.E. Kandel, A.W. Oraham, M.B. Mevis, S.S. Rubakhin, G. Popescu, J.V. Sweedler, R.G. Nuzzo, ACS Appl. Mat. Interfaces 9, 2017, 30318–30328. DOI:10.1021/acsami.7b06742

MALDI MS Guided Liquid Microjunction Extraction for Capillary Electrophoresis–Electrospray Ionization MS Analysis of Single Pancreatic Islet Cells, T.J. Comi, M.A. Makurath, M.C. Philip, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 89, 2017, 7765–7772. DOI:10.1021/acs.analchem.7b01782

microMS: A Python Platform for Image-guided Mass Spectrometry Profiling, T.J. Comi, E.K. Neumann, T.D. Do, J.V. Sweedler, J. Am. Soc. Mass Spectrom. 28, 2017, 1919–1928. DOI:10.1007/s13361-017-1704-1

Quantitative Reflection Imaging for Morphology and Dynamics of Live Aplysia Californica Pedal Ganglion Neurons Cultured on Nanostructured Plasmonic Crystals, S. Kang, A. Badea, S.S. Rubakhin, J.V. Sweedler, J. Rogers, R. Nuzzo, Langmuir 33, 2017, 8640–8650. DOI:10.1021/acs.langmuir.6b04454

Dopamine-Modified TiO2 Monolith-Assisted LDI MS Imaging: Development and Application to Simultaneous Localization of Small Metabolites and Large Lipids in Mouse Brain Tissue with High Detection Selectivity and Sensitivity, Q. Wu, J.L. Chu, S.S. Rubakhin, M.U. Gillette, J.V. Sweedler, Chem. Sci. 8, 2017, 3926–3938. DOI:10.1039/C7SC00937B

Single Cell Profiling using Ionic Liquid Matrix-Enhanced Secondary Ion Mass Spectrometry for Neuronal Cell Type Differentiation, T.D. Do, T.J. Comi, S.J.B. Dunham, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 89, 2017, 3078–3086. DOI:10.1021/acs.analchem.6b04819

Categorizing Cells Based on their Chemical Profiles: Progress in Single Cell Mass Spectrometry, T.J. Comi, T.D. Do, S.S. Rubakhin, J.V. Sweedler, J. Am. Chem. Soc. 139, 2017, 3920–3929. DOI:10.1021/jacs.6b12822

Characterizing the Structure and Oligomerization of Major Royal Jelly Protein 1 (Mrjp1) by Mass Spectrometry and Complementary Biophysical Tools, S.C. Mandacaru, L.H.F. do Vale, S. Vahidi, Y. Xiao, O.S. Skinner, C.A.O. Ricart, N.L. Kelleher, M.V. de Sousa, L. Konermann, Biochemistry 56, 2017, 1645-1655. DOI:10.1021/acs.biochem.7b00020



A D-Amino Acid-Containing Neuropeptide Discovery Funnel, I. Livnat, H-C Tai, E.T. Jansson, L. Bai, E.V. Romanova, T. Chen, K. Yu, S. Chen, Y. Zhang, Z. Wang, D. Liu, K.R. Weiss, J. Jing, J.V. Sweedler, Anal. Chem. 88, 2016, 11868–11876. DOI:10.1021/acs.analchem.6b03658

Single Cell Peptide Heterogeneity of Rat Islets of Langerhans, E.T. Jansson, T.J. Comi, S.S. Rubakhin, J.V Sweedler, ACS Chem. Biol. 11, 2016, 2588–2595. DOI:10.1021/acschembio.6b00602

Cerebellum Transcriptome of Mice Bred for High Voluntary Activity Offers Insights into Locomotor Control and Reward-Dependent Behaviors, K. Caetano-Anolles, J.S. Rhodes, T. Garland, Jr., S.D. Perez, A.G. Hernandez, B.R. Southey, S.L. Rodriguez-Zas, PLOS ONE 11, 2016, e0167095. DOI:10.1371/journal.pone.0167095

Identification of Prohormones and Pituitary Neuropeptides in the African Cichlid, Astatotilapia burtoni, C. Hu, B.R. Southey, E.V. Romanova, K.P. Maruska, J.V. Sweedler, R.D. Fernald, BMC Genomics 17, 2016, 660. DOI:10.1186/s12864-016-2914-9

On-tissue Derivatization Via Electrospray Deposition for Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Imaging of Endogenous Fatty Acids in Rat Brain Tissues, Q. Wu, T.J. Comi, B. Li, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 88, 2016, 5988–5995. DOI:10.1021/acs.analchem.6b01021

Differential Transcriptome Networks between IDO1-Knockout and Wild-Type Mice in Brain Microglia and Macrophages, D. Gonzalez-Pena, S.E. Nixon, B.R. Southey, M.A. Lawson, R.H. McCusker, A.G. Hernandez, R. Dantzer, K.W. Kelley, S.L. Rodriguez-Zas, PLOS ONE 11, 2016, e0157727. DOI:10.1371/journal.pone.0157727

A Neuron-in-Capillary Platform for Facile Collection and Mass Spectrometric Characterization of a Secreted Neuropeptide, C.Y. Lee, Y. Fan, S.S. Rubakhin, S. Yoon, J.V. Sweedler, Sci. Rep. 6, 2016, 26940. DOI:10.1038/srep26940

Microglia Transcriptome Changes in a Model of Depressive Behavior after Immune Challenge, D. Gonzalez-Pena, S.E. Nixon, J.C. O'Connor, B.R. Southey, M.A. Lawson, R.H. McCusker, T. Borras, D. Machuca, A.G. Hernandez, R. Dantzer, K.W. Kelley, S.L. Rodriguez-Zas, PLOS ONE 11, 2016, e0150858. DOI:10.1371/journal.pone.0150858

Mass Spectrometry Imaging and Identification of Peptides Associated with Cephalic Ganglia Regeneration in Schmidtea mediterranea, T-H. Ong, E.V. Romanova, R.H. Roberts-Galbraith, N. Yang, T.A. Zimmerman, J.J. Collins III, J.E. Lee, N.L. Kelleher, P.A. Newmark, J.V. Sweedler, J. Biol. Chem. 291, 2016, 8109–8120. DOI:10.1074/jbc.M115.709196

Detection and Quantification of Protein Spots by Pinnacle, J.S. Morris, H.B. Gutstein, Methods Mol. Biol. 1384, 2016, 185–201. DOI:10.1007/978-1-4939-3255-9_11

Quantitation and Identification of Thousands of Human Proteoforms Below 30 KDa, K.R. Durbin, L. Fornelli, R.T. Fellers, P.F. Doubleday, M. Narita, N.L. Kelleher, J. Proteome Res. 4, 2016, 976–982. DOI:10.1021/acs.jproteome.5b00997

Targeted Analysis of Recombinant NF kappa B (RelA/p65) by Denaturing and Native Top Down Mass Spectrometry, J.P. Savaryn, O.S. Skinner, L. Fornelli, R.T. Fellers, P.D. Compton, S.S. Terhune, M.M. Abecassis, N.L. Kelleher, J. Proteomics 134, 2016, 76–84. DOI:10.1016/j.jprot.2015.04.025

Characterization of Genomic Variants Associated with Scout and Recruit Behavioral Castes in Honey Bees Using Whole-Genome Sequencing, B.R. Southey, P. Zhu, M.K. Carr-Markell, Z.S. Liang, A. Zayed, R. Li, G.E. Robinson, S.L. Rodriguez-Zas, PLOS ONE 11, 2016, e0146430. DOI: 10.1371/journal.pone.0146430



Peptidomics and Secretomics of the Mammalian Peripheral Sensory-Motor System, E.G. Tillmaand, N. Yang, C.A.C. Kindt, E.V. Romanova, S.S. Rubakhin, J.V. Sweedler, J. Am. Soc. Mass Spectrom. 26, 2015, 2051–2061. DOI:10.​1007/​s13361-015-1256-1

Differential Peptidomics Assessment of Strain and Age Differences in Mice in Response to Acute Cocaine Administration, E.V. Romanova, S.S. Rubakhin, J.R. Ossyra, J.A. Zombeck, M.R. Nosek, J.V. Sweedler, J.S. Rhodes, J. Neurochem. 135, 2015, 1038-1048. DOI:10.1111/jnc.13265

Peptidomics for the Discovery and Characterization of Neuropeptides and Hormones, E.V. Romanova and J.V. Sweedler, Trends Pharmacol. Sci. 36, 2015, 579–586. DOI:10.1016/

Classification of Large Cellular Populations and Discovery of Rare Cells Using Single Cell Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry, T.H. Ong, D.J. Kissick, E.T. Jansson, T.J. Comi, E.V. Romanova, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 87, 2015, 7036–7042. DOI:10.1021/acs.analchem.5b01557

Rapid Mitogenic Regulation of the Mtorc1 Inhibitor, Deptor, by Phosphatidic Acid, M.S. Yoon, C.L. Rosenberger, C. Wu, N. Truong, J.V. Sweedler, J. Chen, Mol. Cell 58, 2015, 549–556. DOI:10.1016/j.molcel.2015.03.028

Nanopipet-Based Liquid-Liquid Interface Probes for the Electrochemical Detection of Acetylcholine, Tryptamine, and Serotonin Via Ionic Transfer, M.L. Colombo, J.V. Sweedler, M. Shen, Anal. Chem. 87, 2015, 5095–5100. DOI:10.1021/ac504151e

Mass Spectrometry Imaging and GC-MS Profiling of the Mammalian Peripheral Sensory-Motor Circuit, S.S. Rubakhin, A. Ulanov, J.V. Sweedler, J. Am. Soc. Mass Spectrom. 26, 2015, 958–966. DOI:10.1007/s13361-015-1128-8

Mass Spectrometry-based Characterization of Endogenous Peptides and Metabolites in Small Volume Samples, T-H. Ong, E.G. Tillmaand, M. Makurath, S.S. Rubakhin, J.V. Sweedler, Biochim. Biophys. Acta 1854, 2015, 732–740. DOI:10.1016/j.bbapap.2015.01.008

Reducing Protein Oxidation in Low-Flow Electrospray Enables Deeper Investigation of Proteoforms by Top Down Proteomics, K. Kim, P.D. Compton, T.K. Toby, P.M. Thomas, J.T. Wilkins, R.K. Mutharasan, N.L. Kelleher, EuPA Open Proteom. 8, 2015, 40-47. DOI:10.1016/j.euprot.2015.05.005

Prosight Lite: Graphical Software to Analyze Top-Down Mass Spectrometry Data, R.T. Fellers, J.B. Greer, B.P. Early, X. Yu, R.D. LeDuc, N.L. Kelleher, P.M. Thomas, Proteomics 15, 2015, 1235–1238 DOI: 10.1002/pmic.201400313. DOI:10.1002/pmic.201570050

Online Matrix Removal Platform for Coupling Gel-Based Separations to Whole Protein Electrospray Ionization Mass Spectrometry, K.H. Kim, P.D. Compton, J.C. Tran, N.L. Kelleher, J. Proteome Res. 14, 2015, 2199–2206. DOI:10.1021/pr501331q



Identification of Best Indicators of Peptide-Spectrum Match Using a Permutation Resampling Approach, M.N. Akhtar, B.R. Southey, P.E. Andren, J.V. Sweedler, S.L. Rodriguez-Zas, J. Bioinform. Comput. Biol. 12, 2014, 1440001. DOI:10.1142/S0219720014400010

Accurate Assignment of Significance to Neuropeptide Identifications Using Monte Carlo K-Permuted Decoy Databases, M.N. Akhtar, B.R. Southey, P.E. Andrén, J.V. Sweedler, S.L. Rodriguez-Zas, PLOS ONE 9, 2014, e111112. DOI:10.1371/journal.pone.0111112

Analysis of Endogenous Nucleotides by Single Cell Capillary Electrophoresis-Mass Spectrometry, J-X. Liu, J.T. Aerts, S.S. Rubakhin, X-X. Zhang, J.V. Sweedler, Analyst 139, 2014, 5835–5842. DOI:10.1039/C4AN01133C

Ultraviolet Photodissociation for Characterization of Whole Proteins on a Chromatographic Time Scale, J.R. Cannon, M.B. Cammarata, S.A. Robotham, V.C. Cotham, J.B. Shaw, R.T. Fellers, B.P. Early, P.M. Thomas, N.L. Kelleher, J.S. Brodbelt, Anal. Chem. 86, 2014, 2185–2192. DOI:10.1021/ac403859a

Applying Label-Free Quantitation to Top Down Proteomics, I. Ntai, K. Kim, R.T. Fellers, O.S. Skinner, A.D. Smith, B.P. Early, J.P. Savaryn, R.D. LeDuc, P.M. Thomas, N.L. Kelleher, Anal. Chem. 86, 2014, 4961–4968. DOI:10.1021/pr401277r

Fragmentation of Integral Membrane Proteins in the Gas Phase, O.S. Skinner, A.D. Catherman, B.P. Early, P.M. Thomas, P.D. Compton, N.L. Kelleher, Anal. Chem. 86, 2014, 4627–4634. DOI:10.1021/ac500864w

Top-Down Proteomics with Mass Spectrometry Imaging: A Pilot Study Towards Discovery of Biomarkers for Neurodevelopmental Disorders, H. Ye, R. Mandal, A. Catherman, P.M. Thomas, N.L. Kelleher, C. Ikonomidou, L. Li, PLOS ONE 9, 2014, e92831. DOI:10.1371/journal.pone.0092831

Optimizing Capillary Electrophoresis for Top-Down Proteomics of 30-80 kDa Proteins, Y. Li, P.D. Compton, J.C. Tran, I. Ntai, N.L. Kelleher, Proteomics 14, 2014, 1158–1164. DOI:10.1002/pmic.201300381

The C-Score: A Bayesian Framework to Sharply Improve Proteoform Scoring in High-Throughput Top Down Proteomics, R.D. LeDuc, R.T. Fellers, B.P. Early, J.B. Greer, P.M. Thomas, N.L. Kelleher, J. Proteome Res. 13, 2014, 3231–3240. DOI: 10.1021/pr401277r

The Ctenophore Genome and the Evolutionary Origins of Neural Systems, L.L. Moroz, K.M. Kocot, M.R. Citarella, S. Dosung, T.P. Norekian, I.S. Povolotskaya, A.P. Grigorenko, C. Dailey, E. Berezikov, K.M. Buckley, A. Ptitsyn, D. Reshetov, K. Mukherjee, T.P. Moroz, Y. Bobkova, F. Yu, V.V. Kapitonov, J. Jurka, Y.V. Bobkov, J.J. Swore, D.O. Girardo, A. Fodor, F. Gusev, R. Sanford, R. Bruders, E. Kittler, C.E. Mills, J.P. Rast, R. Derelle, V.V. Solovyev, F.A. Kondrashov, B.J. Swalla, J.V. Sweedler, E.I. Rogaev, K.M. Halanych, A.B. Kohn, Nature 510, 2014,109–114. DOI:10.1038/nature13400

Fibrinogen-α Chain-derived Peptide is Upregulated in Hippocampus of Rats Exposed to Acute Morphine Injection and Spontaneous Alternation Testing,A.E. Maki, K.A. Morris, K. Catherman, X. Chen, N.G. Hatcher, P.E. Gold, J.V. Sweedler, Pharma. Res. Perspect. 2, 2014, e00037. DOI:10.1002/prp2.37

d-Alanine in the Islets of Langerhans of Rat Pancreas, N. Ota, S.S. Rubakhin, J.V. Sweedler, Biochem. Biophys Res. Commun. 447, 2014, 328–333. DOI:10.1016/j.bbrc.2014.03.153

Patch Clamp Electrophysiology and Capillary Electrophoresis–Mass Spectrometry Metabolomics for Single Cell Characterization, J.T. Aerts, K.R. Louis, S.R. Crandall, G. Govindaiah, C.L. Cox, J.V. Sweedler, Anal. Chem. 86, 2014, 3203–3208. DOI:10.1021/ac500168d

Comparing Label-free Quantitative Peptidomics Approaches to Characterize Diurnal Variation of Peptides in the Rat Suprachiasmatic Nucleus, B.R. Southey, J.E. Lee, L. Zamdborg, N. Atkins, Jr., J.W. Mitchell, M. Li, M.U. Gillette, N.L. Kelleher, J.V. Sweedler, Anal. Chem., 86, 2014, 443–452. DOI:10.1021/ac4023378

Small-Volume Analysis of Cell-Cell Signaling Molecules in the Brain, E.V. Romanova, J.T. Aerts, C.A. Croushore, J.V. Sweedler, Neuropsychopharmacology 39, 2014, 50–64. DOI:10.1038/npp.2013.145



Characterization of GdFFD, a D-Amino Acid-Containing Neuropeptide, that Functions as an Extrinsic Modulator of the Aplysia Feeding Circuit, L. Bai, I. Livnat, E.V. Romanova, V. Alexeeva, P.M. Yau, F.S. Vilim, K.R. Weiss, J.Jing, J.V. Sweedler, J. Biol. Chem. 288, 2013, 32837–32851. DOI:10.1074/jbc.M113.486670

Bivariate Genome-wide Association Analysis of the Growth and Intake Components of Feed Efficiency, N.V. Serão, D. González-Peña, J.E. Beever, G.A. Bollero, B.R. Southey, D.B. Faulkner, S.L. Rodriguez-Zas, PLOS ONE 8, 2013, e78530. DOI:10.1371/journal.pone.0078530

Single Nucleotide Polymorphisms and Haplotypes Associated with Feed Efficiency in Beef Cattle, N.V. Serao, D. Gonzalez-Pena, J.E. Beever, D.B. Faulkner, B.R. Southey, S.L. Rodriguez-Zas, BMC Genet. 14, 2013, 94. DOI:10.1186/1471-2156-14-94

Stimulation and Release from Neurons via a Dual Capillary Collection Device Interfaced to Mass Spectrometry, Y. Fan, C.Y Lee, S.S. Rubakhin, J.V. Sweedler, Analyst 138, 6337–6346. DOI:10.1039/C3AN01010D

Signals from the Brainstem Sleep/Wake Centers Regulate Behavioral Timing via the CIrcadian Clock, S.M. Abbott, J.M. Arnold, Q. Chang, H. Miao, N. Ota, C. Cecala, P.E. Gold, J.V. Sweedler, M.U. Gillette, PLOS ONE 8, 2013, e70481. DOI:10.1371/journal.pone.0070481

Quantitation of Endogenous Peptides by Mass Spectrometry Based Methods, E.V. Romanova, S.E. Dowd, J.V. Sweedler, Curr. Opin. Chem. Biol. 17, 2013, 801–808. DOI:10.1016/j.cbpa.2013.05.030

Laminar Stream of Detergents for Subcellular Neurite Damage in a Microfluidic Device: A Simple Tool for the Study of Neuroregeneration, C.Y. Lee, E.V. Romanova, J.V. Sweedler, J. Neural Eng. 10, 2013, 036020. DOI:10.1088/1741-2560/10/3/036020 [Featured on the journal cover.]

Qualitative and Quantitative Metabolomic Investigation of Single Neurons by Capillary Electrophoresis Electrospray Ionization Mass Spectrometry, P. Nemes, S.S. Rubakhin, J.T. Aerts, J.V. Sweedler, Nat. Protoc. 8, 2013, 783–799. DOI:10.1038/nprot.2013.035

Microfluidic Systems for Studying Neurotransmitters and Neurotransmission, C.A. Croushore and J.V. Sweedler, Lab Chip 13, 2013, 1666–1676. DOI:10.1039/C3LC41334A

Multifactorial Understanding of Ion Abundance in Tandem Mass Spectrometry Experiments, Z. Fazal, B.R. Southey, J.V. Sweedler, S.L. Rodriguez-Zas, J. Proteomics Bioinform. 6, 2013, 023–029. DOI:10.4172/jpb.1000256

Combining Small-Volume Metabolomic and Transcriptomic Approaches for Assessing Brain Chemistry, A.M. Knolhoff, K.M. Nautiyal, P. Nemes, S. Kalachikov, I. Morozova, R. Silver, J.V. Sweedler, Anal. Chem. 85, 2013, 3136–3143. DOI:10.1021/ac3032959

Correlated Imaging - A Grand Challenge in Chemical Analysis, R. Masyuko, E.J. Lanni, J.V. Sweedler, P.W. Bohn, Analyst 138, 2013, 1924–1939. DOI:10.1039/C3AN36416J

Storage and Uptake of D-Serine into Astrocytic Synaptic-like Vesicles Specify Gliotransmission, M. Martineau, T. Shi, J. Puyal, A.M. Knolhoff, J. Dulong, B. Gasnier, J. Klingauf, J.V. Sweedler, R. Jahn, J.-P. Mothet, J. Neuroscience. 33, 2013, 3413–3423. DOI:10.1523/JNEUROSCI.3497-12.2013

Automated Method for Analysis of Tryptophan and Tyrosine Metabolites Using Capillary Electrophoresis with Native Fluorescence Detection, C.A. Dailey, N. Garnier, S.S. Rubakhin, J.V. Sweedler, Anal. Bioanal. Chem. 405, 2013, 2451–2459. DOI:10.1007/s00216-012-6685-0

Quantitative Peptidomics for Discovery of Circadian-related Peptides from the Rat Suprachiasmatic Nucleus, J.E. Lee, L. Zamdborg, B.R. Southey, N. Atkins, Jr., J.W. Mitchell, M. Li, M.U. Gillette, N.L. Kelleher, J.V. Sweedler, J. Proteome Res. 12, 2013, 585–593. DOI:10.1021/pr300605p

Progress Toward Single Cell Metabolomics, S.S. Rubakhin, E.J. Lanni, J.V. Sweedler, Curr. Opin. Biotechnol. 24, 2013, 95–104. DOI:10.1016/j.copbio.2012.10.021

Top Down Proteomics of Human Membrane Proteins from Enriched Mitochondrial Fractions, A.D Catherman, M. Li, J.C. Tran, K.R. Durbin, P.D. Compton, B.P. Early, P.M. Thomas, N.L. Kelleher, Anal. Chem. 85, 2013, 1880–1888. DOI:10.1021/ac3031527



High-definition De Novo Sequencing of Crustacean Hyperglycemic Hormone (CHH)-family Neuropeptides, C. Jia, L. Hui, W. Cao, C.B. Lietz, X. Jiang, R. Chen, A.D Catherman, P.M. Thomas, Y. Ge, N.L. Kelleher, L. Li, Mol. Cell. Proteomics 11, 2012, 1951–1964. DOI:10.1074/mcp.M112.020537

Analysis of Intact Monoclonal Antibody IgG1 by Electron Transfer Dissociation Orbitrap FTMS, L. Fornelli, E. Damoc, P.M. Thomas, N.L. Kelleher, K. Aizikov, E. Denisov, A. Makarov, Y.O Tsybin, Mol. Cell. Proteomics 11, 2012, 1758–1767. DOI:10.1074/mcp.M112.019620

Evaluation of Database Search Programs for Accurate Detection of Neuropeptides in Tandem Mass Spectrometry Experiment, M.N. Akhtar, B.R.Southey, P.E.Andrén, J.V. Sweedler, S.L. Rodriguez-Zas, J. Proteome Res. 11, 2012, 6044–6055. DOI:10.1021/pr3007123

Analyses of Pig Genomes Provide Insight into Porcine Demography and Evolution, M.A. Groenen et al., Nature 491, 2012, 393–398. DOI:10.1038/nature11622 [Featured on the journal cover.]

Identification and Characterization of Alternative Exon Usage Linked Glioblastoma Multiforme Survival, A. Sadeque, N.V. Serão, B.R. Southey, K.R. Delfino, S.L. Rodriguez-Zas, BMC Med Genomics 5, 2012, 59. DOI:10.1186/1755-8794-5-59

Urotensin II in Invertebrates: From Structure to Function in Aplysia californica, E.V. Romanova, K. Sasaki, V. Alexeeva, F.S. Vilim, J. Jing, T.A. Richmond, K.R. Weiss, J.V. Sweedler, PLOS ONE 7, 2012, e48764. Free Article

Microfluidic Device for the Selective Chemical Stimulation of Neurons and Characterization of Peptide Release with Mass Spectrometry, C.A. Croushore, S.Supharoek, C.Y. Lee, J. Jakmunee, J. V. Sweedler, Anal. Chem. 84, 2012, 9446–9452. DOI:10.1021/ac302283u

Relative Quantitation of Neuropeptides Over a Thousand-fold Concentration Range, X. Hou, F. Xie, J.V. Sweedler, J. Amer. Soc. Mass Spectrom. 23, 2012, 2083–2093. DOI: 10.1007/s13361-012-0481-0

Single-cell Metabolomics: Changes in the Metabolome of Freshly Isolated and Cultured Neurons, P. Nemes, A.M. Knolhoff, S.S. Rubakhin, J.V. Sweedler, ACS Chem. Neurosci. 3, 2012, 782–792. DOI:10.1021/cn300100u [Featured on the journal cover.]

Secondary Ion Mass Spectrometry Imaging of Molecular Distributions in Cultured Neurons and their Processes: Comparative Analysis of Sample Preparation, K.R. Tucker, Z. Li, S. S. Rubakhin, J.V. Sweedler, J. Amer. Soc. Mass Spectrom. 23, 2012, 1931–1938. DOI:10.1007/s13361-012-0472-1

Comparative Peptidomics Analysis of Neural Adaptations in Rats Repeatedly Exposed to Amphetamine, E.V. Romanova, J.E. Lee, N.L. Kelleher, J.V. Sweedler, J.M. Gulley, J. Neurochem. 123, 2012, 276–287. DOI:10.1111/j.1471-4159.2012.07912.x

Circadian Rhythm of Redox State Regulates Excitability in Suprachiasmatic Nucleus Neurons, T.A. Wang, Y.V. Yu , G. Govindaiah, X.Ye, L. Artinian, T.P. Coleman, J.V. Sweedler, C.L. Cox, M.U. Gillette, Science 337, 2012, 839–842. DOI:10.1126/science.1222826

Evaluation of the Compact High-Field Orbitrap for Top-Down Proteomics of Human Cells, D.R. Ahlf, P.D. Compton, J.C.Tran, B.P. Early, P.M. Thomas, N.L. Kelleher, J. Proteome Res 11, 2012, 4308–14. DOI:10.1021/pr3004216

Microarray Analysis of Natural Socially Regulated Plasticity in Circadian Rhythms of Honey Bees, S.L. Rodriguez-Zas, B.R. Southey, Y. Shemesh, E.B. Rubin, M. Cohen, G.E. Robinson,G. Bloch, J. Biol. Rhythms 27, 2012, 12–24. DOI:10.1177/0748730411431404

D-aspartate Acts as a Signaling Molecule in Nervous and Neuroendocrine Systems, N. Ota,T. Shi, J.V. Sweedler, Amino Acids 43, 2012, 1873–1886. DOI:10.1007/s00726-012-1364-1

Targeted Single Cell Microchemical Analysis: MS-based Peptidomics of Individual Paraformaldehyde-fixed Immunolabeled Neurons, S. Neupert, S.S. Rubakhin, J.V. Sweedler, Chem. Biol. 19, 2012, 1010–1019. DOI:10.1016/j.chembiol.2012.05.023

First Survey and Functional Annotation of Prohormone and Convertase Genes in the Pig, K.I. Porter, B.R. Southey, J.V. Sweedler, S. L. Rodriguez-Zas, BMC Genomics 15, 2012, 582. DOI:10.1186/1471-2164-13-582

Peptidomic Analyses of Mouse Astrocytic Cell Lines and Rat Primary Cultured Astrocytes, P. Yin, A.M. Knolhoff, H.J. Rosenberg, L.J. Millet, M.U. Gillette, J.V. Sweedler, J. Proteome Res. 75, 2012, 5036–5051. DOI:10.1021/pr201066t

A Protease for Middle Down Proteomics, C. Wu, J.C. Tran, L.Zamdborg, K.R. Durbin, M. Li, D.R. Ahlf, B.P. Early, P.M. Thomas, J.V. Sweedler, N.L. Kelleher, Nat. Methods 9, 2012, 822–824. DOI:10.1038/nmeth.2074

Mass Spectrometry Imaging and Profiling of Single Cells, E. J. Lanni, S.S. Rubakhin, J.V. Sweedler, J. Proteomics 75, 2012, 5036–5051. DOI:10.1016/j.jprot.2012.03.017

Therapeutic Peptide Production in Drosophila, D. Park, X. Hou, J. V. Sweedler, P. H. Taghert, Peptides 36, 2012, 251–256. DOI:10.1016/j.peptides.2012.05.003

Serotonin of Mast Cell Origin Contributes to Hippocampal Function, K.M. Nautiyal, C.A. Dailey, J.A. Jahn, E. Rodriguez, N.H. Son, J.V Sweedler, R. Silver, Eur. J. Neuroscience 36, 2012, 2347–2359. DOI:10.1111/j.1460-9568.2012.08138.x

Label-Free Quantitation of Peptide Release from Neurons in a Microfluidic Device with Mass Spectrometry Imaging, M. Zhong, C.Y. Lee, C. Croushore, J.V. Sweedler, Lab Chip 12, 2012, 2037–2045. DOI:10.1039/C2LC21085A

The Hypothalamo-Neurohypophyseal System: from Genome to Physiology, D. Murphy, A. Konopacka, C. Hindmarch, J. F.R. Paton, J.V. Sweedler, M.U. Gillette, Y. Ueta, V. Grinevich, M. Lozic, N. Japundzic-Zigon, J. Neuroendocrinol. 24, 2012, 539–553. DOI:10.1111/j.1365-2826.2011.02241.x

Sampling Techniques for Single Cell Electrophoresis, C. Cecala and J.V. Sweedler, Analyst 137, 2012, 2922–2929. DOI:10.1039/C2AN16211C

An Enhanced Protein Crosslink Identification Strategy using CID-Cleavable Chemical Crosslinkers and LC/MS(n) Analysis, F. Liu, C. Wu, J.V. Sweedler, M.B. Goshe, Proteomics 12, 2012, 401–405. DOI:10.1002/pmic.201100352



Probing the Production of Amidated Peptides Following Genetic and Dietary Copper Manipulations, P. Yin, D. Bousquet-Moore, S.P. Annangudi, B.R. Southey, R.E. Mains, B.A. Eipper, J.V. Sweedler, PLOS ONE 6: e28679, 2011. DOI:10.1371/journal.pone.0028679

Collection of Peptides Released from Single Neurons with Particle-Embedded Monolithic Capillaries followed by Detection with Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry, Y. Fan, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 83, 2011, 9557–9563. DOI:10.1021/ac202338e

Stretched Tissue Mounting for MALDI Mass Spectrometry Imaging, K.R. Tucker, E.J. Lanni, L.A. Serebryannyy, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 83, 2011, 9181–9185. DOI:10.1021/ac201857k

Neuropeptidomics: Mass Spectrometry-based Qualitative and Quantitative Analysis, P. Yin, X. Hou, E.V. Romanova, J.V. Sweedler, Methods Mol. Biol. 789, 2011, 223–236. DOI: 10.1007/978-1-61779-310-3_14

Mice Deficient in Endothelin-Converting Enzyme-2 (ECE-s) Exhibit Altered Morphine Responses and Peptide Levels in the Spinal Cord, L. Miller, X. Hou, R.M. Rodriguiz, K. Gagnidze, J.V. Sweedler, W.C. Wetsel, L.A. Devi, J. Neurochem. 119, 2011, 1074–1085. DOI:10.1111/j.1471-4159.2011.07513.x

Chronic Morphine Alters the Presynaptic Protein Profile: Identification of Novel Molecular Targets using Proteomics and Network Analysis, N.S. Abul-Husn, S.P. Annangudi, A. Ma’ayan, D.L. Ramos-Ortolaza, J.V. Sweedler, L.A. Devi, PLOS ONE 6, 2011, e25535s. DOI:10.1371/journal.pone.0025535

Molecular Organization of Drosophila Neuroendocrine Cells by DIMMED, D. Park, T. Hadžić, P. Yin, J. Rusch, K. Abruzzi, M. Rosbash, J.B. Skeath, S. Panda, J.V Sweedler, P.Taghert, Curr. Biol. 21, 2011, 1515–1524. DOI:10.1016/j.cub.2011.08.015

Small Molecule Analysis and Imaging of Fatty Acids in the Zebra Finch Song System Using Time-of-Flight-Secondary Ion Mass Spectrometry, K.R. Amaya, J.V. Sweedler, and D. F. Clayton, J. Neurochem. 118, 2011, 499–511. DOI:10.1111/j.1471-4159.2011.07274.x

Direct Cellular Peptidomics of Hypothalamic Neurons, J.W. Mitchell, N. Atkins, Jr., J.V. Sweedler, M.U. Gillette, Front. Neuroendocrinol. 32, 2011, 377–386. DOI:10.1016/j.yfrne.2011.02.005

The Notch Effector Gene Hes1 Regulates Migration of Hypothalamic Neurons, Neuropeptide Content and Axon Targeting to the Pituitary, P.K. Aujla, A. Bora, P. Monahan, J.V. Sweedler, L.T. Raetzman, Dev. Biol. 353, 2011, 61–71. DOI:10.1016/j.ydbio.2011.02.018

MALDI Mass Spectrometric Imaging of Neuronal Cell Cultures, T.A. Zimmerman, S.S. Rubakhin, J.V. Sweedler, J. Amer. Soc. Mass Spectrom. 5, 2011, 828–836. DOI:10.1007/s13361-011-0111-2

Profiling Metabolites and Peptides in Single Cells, S.S. Rubakhin, E.V. Romanova, P. Nemes, J.V. Sweedler, Nat. Methods 8, 2011, S20–S29. DOI:10.1038/nmeth.1549

The Modified-Bead Stretched Sample Method: Development and Application to MALDI-MS Imaging of Protein Localization in the Spinal Cord, K.R. Tucker, L.A. Serebryannyy, T.A. Zimmerman, S.S. Rubakhin, J.V. Sweedler, Chem. Sci. 2, 2011, 785–795. DOI: 10.1039/C0SC00563K

Diversity of Conotoxin Types from Conus californicus Reflects a Diversity of Prey Types and a Novel Evolutionary History, C.A. Elliger, T.A. Richmond, Z.N. Lebaric, N.T. Pierce, J.V. Sweedler, W. F. Gilly, Toxicon 57, 2011, 311–322. DOI:10.1016/j.toxicon.2010.12.008

A Diverse Family of Novel Peptide Toxins from an Unusual Cone Snail, Conus californicus, W.F. Gilly, T.A. Richmond, T.F. Duda, Jr., C. Elliger, Z. Lebaric, J. Schulz, J.P. Bingham, J.V. Sweedler, J. Exp. Biol. 214, 2011, 147–161. DOI: 10.1242/jeb.046086

Microarray Analysis of Natural Socially Regulated Plasticity in Circadian Rhythms of Honey Bees,  S.L.  Rodriguez-Zas,  B.R.  Southey,  Y.  Shemesh,  E.B.  Rubin,  M.  Cohen,  G.E. Robinson, G. Bloch, J. Biol. Rhythms 27, 2012, 12–24. DOI:10.1177/0748730411431404

Analysis of Intact Protein Isoforms by Mass Spectrometry, J.D. Tipton, J.C. Tran, A.D. Catherman, D.R. Ahlf, K.R. Durbin, N.L. Kelleher, J. Biol. Chem. 286, 2011, 25451–25458.DOI:10.1074/jbc.R111.239442

On the Scalability and Requirements of Whole Protein Mass Spectrometry, P.D. Compton, L. Zamdborg, P.M. Thomas, N.L. Kelleher, Anal. Chem. 83, 2011, 6868–6874. DOI:10.1021/ac2010795

Mapping Intact Protein Isoforms in Discovery Mode Using Top-Down Proteomics, J.C. Tran, L. Zamdborg, D.R. Ahlf, J.E. Lee, A.D. Catherman, K.R. Durbin, J.D. Tipton, A. Vellaichamy, J.F. Kellie, M. Li, C. Wu, S.M. Sweet, B.P. Early, N. Siuti, R.D. LeDuc, P.D. Compton, P.M. Thomas, N.L. Kelleher, Nature 480, 2011, 254–258. DOI:10.1038/nature10575

Voluntary Wheel Running Reverses Age-Induced Changes in Hippocampal Gene Expression, R.A. Kohman, S.L. Rodriguez-Zas, B.R. Southey, K.W. Kelley, R. Dantzer, J.S. Rhodes, PLOS ONE 6, 2011, e22654. DOI:10.1371/journal.pone.0022654

Cell Cycle and Aging, Morphogenesis, and Response to Stimuli Genes are Individualized Biomarkers of Glioblastoma Progression and Survival, N.V. Serão, K.R. Delfino, B.R. Southey, J.E. Beever, S.L. Rodriguez-Zas, BMC Med. Genomics 4, 2011, 49. DOI:10.1186/1755-8794-4-49

Transferase Activity Function and System Development Process are Critical in Cattle Embryo Development, H.A. Adams, B.R. Southey, R.E. Everts, S.L. Marjani, C.X. Tian, H.A. Lewin, S.L. Rodriguez-Zas, Funct. Integr. Genomics 11, 2011, 139–150. DOI:10.1007/s10142-010-0189-9

Therapy-, Gender- and Race-Specific MicroRNA Markers,Target Genes and Networks Related To Glioblastoma Recurrence and Survival, K.R. Delfino, N.V. Serão, B.R. Southey, S.L. Rodriguez-Zas, Cancer Genomics Proteomics 8, 2011, 173–83. Link to article.

Discovery of Gene Network Variability Across Samples Representing Multiple Classes, Y. Ko, C. Zhai, S.L. Rodriguez-Zas, Int. J. Bioinform. Res. Appl. 6, 2010, 402–417.



Feedforward Compensation Mediated by the Central and Peripheral Actions of a Single Neuropeptide Discovered Using Representational Difference Analysis, J. Jing, J.V. Sweedler, E.C. Cropper, V. Alexeeva, J.-H. Park, E.V. Romanova, F. Xie, N.C. Dembrow, B.C. Ludwar, Kl.R. Weiss, F.S. Vilim, J. Neurosci. 30, 2010, 16545–16558. DOI:10.1523/JNEUROSCI.4264-10.2010 [Featured on the journal cover.]

Synthesis, Accumulation, and Release of D-Aspartate in the Aplysia californica Central Nervous System, C. Scanlan, T. Shi, N.G. Hatcher, S.S. Rubakhin, J.V. Sweedler, J. Neurochem. 115, 2010,1234–1244. DOI:10.1111/j.1471-4159.2010.07020.x

Genome-Wide Analyses Reveal a Role for Peptide Hormones in Planarian Germline Development, J.J. Collins, III, X. Hou, E.V. Romanova, B.G. Lambrus, C.M. Miller, A. Saberi, J.V. Sweedler, P.A. Newmark, PLOS Biol. 8, 2010, e10000509. Epub available. DOI:10.1371/journal.pbio.1000509

Circadian Integration of Glutamatergic Signals by Little SAAS in Novel Suprachiasmatic Circuits, N. Atkins, Jr., J.W. Mitchell, E.V. Romanova, D.J. Morgan, T.P. Cominski, J.L. Ecker, J.E. Pintar, J.V. Sweedler, M.U. Gillette, PLOS ONE 5, 2010, e12612. DOI:10.1371/journal.pone.0012612

Mass Spectrometry Screening Reveals Peptides Modulated Differentially in the Medial Prefrontal Cortex of Rats with Disparate Initial Sensitivity to Cocaine, E.V. Romanova, J.E. Lee, N.L. Kelleher, J.V. Sweedler, J.M. Gulley, AAPS J. 12, 2010, 443–454. DOI:10.1208/s12248-010-9204-2

Intact Mass Detection, Interpretation, and Visualization to Automate Top-Down Proteomics on a Large Scale,. K.R. Durbin, J.C. Tran, L. Zamdborg, S.M. Sweet, A.D. Catherman, J.E. Lee, M. Li, J.K. Kellie, N.L. Kelleher, Proteomics 10, 2010, 3589–3597. DOI:10.1002/pmic.201000177

Serotonin and its Metabolism in Basal Deuterostomes: Insights from Strongylocentrotus purpuratus and Xenoturbella bocki, L.N. Squires, S.S. Rubakhin, A. Amare, K.N. Talbot, H. Nakano, L.L. Moroz, J.V. Sweedler, J. Exp. Biol. 213, 2010, 2647–2654. DOI:10.1242/jeb.042374

The Zebra Finch Neuropeptidome: Prediction, Detection and Expression, F. Xie, S.E. London, B.R. Southey, S.P. Annangudi, A. Amare, S.L. Rodriguez-Zas, D.F. Clayton, J.V. Sweedler, BMC Biology 8, 2010, 28.DOI:10.1186/1741-7007-8-28

The Genome of a Songbird, W.C. Warren et al., Nature 464, 2010, 757–762. DOI:10.1038/nature08819

A Mass Spectrometry Primer for Mass Spectrometry Imaging, S.S. Rubakhin, J.V. Sweedler, Methods Mol. Biol. 656, 2010, 21–49. DOI:10.1007/978-1-60761-746-4_2

Mass Spectrometry Imaging using the Stretched Sample Approach, T.A. Zimmerman, S.S. Rubakhin, J.V. Sweedler, Methods Mol. Biol. 656, 2010, 465–479. DOI:10.1007/978-1-60761-746-4_27

Composite Modulatory Feedforward Loop Contributes to the Establishment of a Network State, J-S Wu, F.S. Vilim, N. G. Hatcher, M.R. Due, J.V. Sweedler, K.R. Weiss, J. Jing, J. Neurophysiol. 103, 2010, 2174–2184. DOI:10.1152/jn.01054.2009

Single Cell Mass Spectrometry, A.M. Knolhoff, S.S. Rubakhin, J.V. Sweedler, in Chemical Cytometry – Ultrasensitive Analysis of Single Cells, John Wiley & Sons, Inc., 2010, 197–218.

Quantitative Neuroproteomics of the Synapse, D.L. Ramos-Ortolaza, I. Bushlin, N. Abul-Husn, S.P. Annangudi, J.V. Sweedler, L.A. Devi, Methods Mol. Biol. 615, 2010, 227–246. DOI:10.1007/978-1-60761-535-4_18

Neuropeptide Release is Impaired in a Mouse Model of Fragile-X Mental Retardation Syndrome, S.P. Annangudi,  A.E. Luszpak, S.H..Kim, S. Ren,  N.G. Hatcher,  I.J. Weiler,  K.T. Thornley, B.M. Kile, R.M. Wightman, W.T. Greenough, J.V. Sweedler, ACS Chem. Neurosci. 1, 2010, 306–314. DOI:10.1021/cn900036x

A Hybrid, De Novo Based, Genome-Wide Database Search Approach Applied to the Sea Urchin Neuropeptidome, G. Menschaert, T.T. Vandekerckhove, G. Baggerman, B. Landuyt, J.V. Sweedler, L. Schoofs, W. Luyten, W. Van Criekinge, J. Proteome Res. 9, 2010, 990–996. DOI:10.1021/pr900885k

Direct Cellular Peptidomics of Supraoptic Magnocellular and Hippocampal Neurons in Low-Density Co-Cultures, L.J Millet, A. Bora, J.V. Sweedler, M.U. Gillette, ACS Chem. Neurosci. 1, 2010, 36–48. DOI:10.1021/cn9000022

Production of Nitric Oxide within the Aplysia californica Nervous System, X. Ye, F. Xie, E.V. Romanova, S.S. Rubakhin, J.V. Sweedler, ACS Chem. Neurosci. 1, 2010, 182–193. DOI:10.1021/cn900016z

Endogenous Peptide Discovery of the Rat Circadian Clock: A Focused Study of the Suprachiasmatic Nucleus by Ultra-High Performance Tandem Mass Spectrometry, J.E. Lee, N.A. Atkins, Jr., N.G. Hatcher, L. Zamdborg, M.U. Gillette, J.V. Sweedler, N.L. Kelleher, Mol. Cell Proteomics 9, 2010, 285–297. DOI:10.1074/mcp.M900362-MCP200

Genome-Wide Census and Expression Profiling of Chicken Neuropeptide and Prohormone Convertase Genes, K.R. Delfino, B.R. Southey, J.V. Sweedler, S.L. Rodriguez-Zas, Neuropeptides 44, 2010, 31–44. DOI:10.1016/j.npep.2009.11.002

Distinct Mechanisms Produce Functionally Complementary Actions of Neuropeptides that are Structurally Related but Derived from Different Precursors, F. Vilim, K. Sasaki, J. Rybak, V. Alexeeva, E. Cropper, J. Jing, I. Orekhova, V. Brezina, D. Price, E.V. Romanova, S.S. Rubakhin, N.G. Hatcher, J.V. Sweedler, K. Weiss, J. Neurosci. 30, 2010, 131–147. DOI:10.1523/​JNEUROSCI.3282-09.2010

Evaluating the Performance of New Approaches to Spot Quantification and Differential Expression in 2-Dimensional Gel Electrophoresis Studies, J.S. Morris, B.N. Clark, W. Wei, H.B. Gutstein, J. Proteome Res. 9, 2010, 595–604. DOI:10.1021/pr9005603

Discovery of Gene Network Variability Across Samples Representing Multiple Classes, Y. Ko, C. Zhai, S.L. Rodriguez-Zas, Int. J. Bioinform. Res. Appl. 6, 2010, 402-17. DOI:10.1504/IJBRA.2010.036002

Statistical Contributions to Proteomic Research, J.S. Morris, K.A. Baggerly, H.B. Gutstein, K.R. Coombes, Methods Mol. Biol 641, 2010, 143–66. DOI:10.1007/978-1-60761-711-2_9

Transcriptional Orchestration of the Regulated Secretory Pathway in Neurons by the bHLH Protein DIMM, Y. Hamanaka, D. Park, P. Yin, S.P. Annangudi, T.N. Edwards, J.V.Sweedler, I.A. Meinertzhagen, P.H. Taghert, Curr. Biol. 20, 2010, 1–10. DOI:10.1016/j.cub.2009.11.065



MALDI Mass Spectrometric Imaging using the Stretched Sample Method to Reveal Neuropeptide Distributions in Aplysia Nervous Tissue, T.A. Zimmerman, S.S. Rubakhin, E.V. Romanova, K.R. Tucker, Jonathan V. Sweedler, Anal. Chem. 81, 2009, 9402–9409. DOI:10.1021/ac901820v

Characterizing Intercellular Signaling Peptides in Drug Addiction, E.V. Romanova, N.G. Hatcher, S.S. Rubakhin, J.V. Sweedler, Neuropharmacology 56, 2009, 196–204.DOI:10.1016/j.neuropharm.2008.07.036 

Analysis of Endogenous D-Amino Acid-Containing Peptides in Metazoa, L. Bai,  S. Sheeley, J.V. Sweedler, Bioanal. Rev. 1, 2009, 7–24. DOI:10.1007/s12566-009-0001-2

Discrete Molecular States in the Brain Accompany Changing Responses to a Vocal Signal, S. Dong, K.L. Replogle, L. Hasadsri, B.S. Imai, P.M. Yau, S.L Rodriguez-Zas, B.R. Southey, J.V. Sweedler, D.F. Clayton, Proc. Natl. Acad. Sci. U.S.A. 106, 2009, 11364–11369. DOI:10.1073/pnas.0812998106

Collecting Peptide Release from the Brain using Porous Polymer Monolith-Based Solid Phase Extraction Capillaries, J.M. Iannacone, S. Ren, N.G. Hatcher, J.V. Sweedler, Anal. Chem. 81, 2009, 5433–5438. DOI:10.1021/ac9005843

Characterization of the Prohormone Complement in Cattle using Genomic Libraries and Cleavage Prediction Approaches, B.R. Southey, S.L. Rodriguez-Zas, J.V Sweedler, BMC Genomics 10, 2009, 228. Open Access, BioMed Central

The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution, Bovine Genome Sequencing and Analysis Consortium, Science 324, 2009, 522–528. DOI:10.1126/science.1169588 [Featured on the journal cover.]

Quantitative Peptidomics Reveal Brain Peptide Signatures of Behavior, A. Brockmann, S.P. Annangudi, T.A. Richmond, S.A. Ament, F. Xie, B.R. Southey, S.R. Rodriguez-Zas, G.E. Robinson, J.V. Sweedler, Proc. Natl. Acad. Sci. U.S.A. 106, 2009, 2383–2388. DOI:10.1073/pnas.0813021106

A Robust Two-Dimensional Separation for Top-Down Tandem Mass Spectrometry of the Low-Mass Proteome, J.-E. Lee, J.F. Kellie, J.C. Tran, J.D. Tipton, A.D. Catherman, H.M. Thomas, D R. Ahlf, K.R. Durbin, A. Vellaichamy, I. Ntai, A.G. Marshall, N.L. Kelleher, J. Am. Soc. Mass Spectrom. 20, 2009, 2183-91. DOI:10.1016/j.jasms.2009.08.001

Inference of Gene Pathways using Mixture Bayesian Networks, Y. Ko, C. Zhai, S.L. Rodriguez-Zas, BMC Syst. Biol. 3, 2009, 54. DOI:10.1186/1752-0509-3-54

Textural Guidance Cues for Controlling Process Outgrowth of Mammalian Neurons, J.N. Hanson, M.J. Motola, M.L. Heien, J.W. Mitchell, M.U. Gillette, J.V. Sweedler, R.G. Nuzzo, Lab Chip 9, 2008, 122–131. DOI:10.1039/B803595D



Neuropeptidomics of the Rat Supraoptic Nucleus, A. Bora, S.P. Annangudi, L.J. Millet, S.S. Rubakhin, A.J. Forbes, N.L. Kelleher, M.U. Gillette, J.V. Sweedler, J. Proteome Res. 7, 2008, 4992–5003. DOI:10.1021/pr800394e

Quantitative Measurements of Cell-Cell Signaling Peptides with Single Cell MALDI MS, S.S. Rubakhin and J.V. Sweedler, Anal. Chem. 80, 2008, 7128–7136. DOI:10.1021/ac8010389

Imaging of Cells and Tissues with Mass Spectrometry: Adding Chemical Information to Imaging, T.A. Zimmerman, E.B. Monroe, K.R. Tucker, S.S. Rubakhin, J.V. Sweedler, Methods Cell Biol. 89, 2008, 361–390. DOI:10.1016/S0091-679X(08)00613-4  

Adapting the Stretched Sample Method from Tissue Profiling to Imaging, T.A. Zimmerman, E.B. Monroe, J.V. Sweedler, Proteomics 8, 2008, 3809–3815. DOI:10.1002/pmic.200800331

Mass Spectrometry-Based Discovery of Circadian Peptides, N.G. Hatcher, N. Atkins, Jr., S.P. Annangudi, A.J. Forbes, N.L. Kelleher, M.U. Gillette, J.V. Sweedler, Proc. Natl. Acad. Sci., U.S.A. 105, 2008, 12527–12532. DOI:10.1073/pnas.0804340105

SIMS and MALDI MS Imaging of the Spinal Cord, E.B. Monroe, S.P. Annangudi, N.G. Hatcher, H.B. Gutstein, S.S. Rubakhin, J.V. Sweedler, Proteomics 8, 2008, 3746–3754. DOI:10.1002/pmic.200800127

Proteotyping: Population Proteomics of Human Leukocytes using Top Down Mass Spectrometry, M.J. Roth, B.A. Parks, J.T. Ferguson, M.T. Boyne II, N.L. Kelleher, Anal. Chem. 80, 2008, 2857–2866. DOI:10.1021/ac800141g

Peptides in the Brain: Mass Spectrometric-Based Measurement Approaches and Challenges, L. Li and J.V. Sweedler, Annu. Rev. Anal. Chem. 1, 2008, 451–483. DOI:10.1146/annurev.anchem.1.031207.113053

Detecting D-Amino Acid-Containing Neuropeptides using Selective Enzymatic Digestion, M.A. Ewing, J. Wang, S.A. Sheeley, J.V. Sweedler, Anal. Chem. 80, 2008, 2874–2880. DOI:10.1021/ac7025173

One Step Sampling, Extraction and Storage Protocol for Neuropeptidomics using Dihydroxybenzoic Acid, E. Romanova, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 80, 2008, 3379–3386. DOI:10.1021/ac7026047

Insulin Signaling is Involved in the Regulation of Worker Division of Labor in Honey Bee Colonies, S.A Ament, M. Corona, H.S. Pollock, G.E. Robinson. Proc. Natl. Acad. Sci. U.S.A. 105, 2008, 4226–4231. DOI:10.1073/pnas.0800630105

Meta-Analysis of Genome-wide Expression Patterns Associated with Behavioral Maturation in Honey Bees, H.A. Adams, B. R. Southey, G.E. Robinson, S.L. Rodriguez-Zas, BMC Genomics 9, 2008, 503. DOI:10.1186/1471-2164-9-503

The Myth of Automated, High-throughput Two-dimensional Gel Analysis, B.N. Clark, N. Brittan, H.B. Gutstein, Proteomics 8, 2008, 1197–1203. DOI: 10.1002/pmic.200700709

Pinnacle: A Fast, Automatic and Accurate Method for Detecting and Quantifying Protein Spots in 2-Dimensional Gel Electrophoresis Data, J.S. Morris, B.N. Clark, H.B. Gutstein, Bioinformatics 24, 2008, 529–536. DOI:10.1093/bioinformatics/btm590

Detection of Nitric Oxide in Single Cells, X. Ye, S.S Rubakhin, J.V. Sweedler, Analyst 133, 2008, 423–433 (review). DOI:10.1039/b716174c [Featured on the journal cover.]

Prediction of Neuropeptide Cleavage Sites in Insects, B.R. Southey, A.B. Hummon, T.A. Richmond, J.V. Sweedler, S.L. Rodriguez-Zas, Bioinformatics 24 , 2008, 815–825. DOI:10.1093/bioinformatics/btn044

Comparative Analysis of Neuropeptide Cleavage Sites in Human, Mouse, Rat, and Cattle, A.N. Tegge, B.R. Southey, J.V. Sweedler, S.L. Rodriguez-Zas, Mamm. Genome 19, 2008,106–120. DOI:10.1007/s00335-007-9090-9

Advancing the Understanding of the Embryo Transcriptome Co-Regulation Using Meta-, Functional, and Gene Network Analysis Tools: Focus on Mammalian Embryogenomics, S.L. Rodriguez-Zas, Y. Ko, H.A. Adams, B.R. Southey, Reproduction 135, 2008, 213–224. DOI:10.1530/REP-07-0391

Microproteomics: Analysis of Protein Diversity in Small Samples, H.B. Gutstein, J.S. Morris, S.B.A. Palani, J.V. Sweedler, Mass Spectrom. Rev. 27, 2008, 316–330. DOI:10.1002/mas.20161

Biological Interpretations of Transcriptomic Profiles in Mammalian Oocytes and Embryos: Focus on Mammalian Embryogenomics, S.L. Rodriguez-Zas, K. Schellander, and H.A. Lewin, Reproduction 135, 2008, 129–139. DOI:10.1530/REP-07-0426

Simultaneous Nitric Oxide and Dehydroascorbic Acid Imaging by Combining Diaminofluoresceins and Diaminorhodamines, X. Ye, S.S. Rubakhin, J.V. Sweedler, J. Neuro. Methods 15, 2008, 373–382. DOI:10.1016/j.jneumeth.2007.10.026 

5-HT and 5-HT-SO4, but not Tryptophan or 5-HIAA Levels in Single Feeding Neurons Track Animal Hunger State, N.G. Hatcher, X. Zhang, J.N. Stuart, L.L. Moroz, J.V. Sweedler, R. Gillette, J. Neurochem. 104, 2008, 1358–1363. DOI:10.1111/j.1471-4159.2007.05084.x

Aplysia Bag Cells Function as a Distributed Neurosecretory Network, N.G. Hatcher and J.V. Sweedler, J. Neurophysiol. 99, 2008, 333–343. DOI:10.1152/jn.00968.2007

Contributions of Capillary Electrophoresis to Neuroscience, T. Lapainis, J.V. Sweedler, J. Chromatogr. A 1184, 2008, 144–158. DOI:10.1016/j.chroma.2007.10.098

Mass Spectrometry of Proteins, E.V. Romanova, S.P. Annangudi, J.V. Sweedler, in The Encyclopedia of Neuroscience, edited by L. Squire et al., Elsevier Science, 2008, available online via Science Direct.

Light-Based Detection Methods for Capillary Electrophoresis, C. Scanlan, T. Lapainis and J.V. Sweedler, in CRC Handbook for Capillary Electrophoresis, 3rd Edition, edited by J.P. Landers, CRC Press, 2008, 305–334.

A Python Analytical Pipeline to Identify Prohormone Precursors and Predict Prohormone Cleavage Sites, B. Southey, J.V. Sweedler, S.L. Rodriguez-Zas, Front. Neuroinformatics 2, 2008, Article 7. DOI:10.3389/neuro.11.007.2008



Transparent Triethylamine Containing MALDI Matrices, S.S. Rubakhin, J.V. Sweedler, Israel J. Chem. 47, 2007, 185–193. DOI:10.1560/IJC.47.2.185

Mass Spectrometric Imaging of the Nervous System, S.S. Rubakhin, N.G. Hatcher, E.B. Monroe, M.L. Heien, J.V. Sweedler, Curr. Pharma. Design 13, 2007, 3325–3334. Abstract, DOI:10.2174/138161207782360708

Single Cell Measurements with Mass Spectrometry, E.B. Monroe, J.C. Jurchen, S.S. Rubakhin, J.V. Sweedler, in New Frontiers in Ultrasensitive Bioanalysis: Advanced Analytical Chemistry Applications in Nanobiotechnology, Single Molecule Detection, and Single Cell Analysis, Wiley Chemical Analysis Series, Edited by Xiaohong N. Xu, 2007, p. 269–293.

Using ProSight PTM and Related Tools for Targeted Protein Identification and Characterization with High Mass Accuracy Tandem MS Data. R.D. LeDuc, N.L. Kelleher, Curr. Protoc. Bioinform. 19, 2007, 13.6.1–13.6.28. DOI:10.1002/0471250953.bi1306s19

Imaging MS in Proteomics. E.B. Monroe and J.V. Sweedler, in Encyclopedia of Separation Science, First On-line Update, Level III: Practical Applications, “Omics”: Proteomics, Edited by Ian D. Wilson, Elsevier Science, 2007. DOI:10.1016/B978-012226770-3/10714-9 

Serotonin Catabolism in the Central and Enteric Nervous Systems of Rats upon Induction of Serotonin Syndrome, L.N. Squires, K.N. Talbot, S.S. Rubakhin, J.V. Sweedler, J. Neurochem. 103, 2007, 174–180. DOI:10.1111/j.1471-4159.2007.04739.x

Enhanced Prediction of Cleavage in Bovine Precursor Sequence,A.N. Tegge, B.R. Southey, J.V. Sweedler, S.L. Rodriguez-Zas, Lecture Notes in Computer Science, Bioinformatics Research and Applications, Vol. 4463, pp. 350-360, 2007, Springer. DOI:10.1007/978-3-540-72031-7_32

ProSight PTM 2.0: Improved Protein Identification and Characterization for Top Down Mass Spectrometry, L. Zamdborg, R.D. LeDuc, K.J. Glowacz, Y.B. Kim, V. Viswanathan, I.T. Spaulding, B.P. Early, E.J. Bluhm, S. Babai, N.L. Kelleher, Nucleic Acids Res. 35 (web server issue), W701-706. DOI 10.1093/nar/gkm371

Top-down Proteomics on a Chromatographic Time Scale using Linear Ion Trap Fourier Transform Hybrid Mass Spectrometers, B.A. Parks, L. Jiang, P.M. Thomas, C.D. Wenger, M.J. Roth, M.T. Boyne II, P.V. Burke, K.E. Kwast, N.L. Kelleher, Anal. Chem. 79, 2007, 7984–7991. DOI:10.1021/ac070553t

Characterizing Peptides in Individual Mammalian Cells using Mass Spectrometry. S.S. Rubakhin and J.V. Sweedler, Nat. Protoc. 8, 2007, 1987–1997. DOI:10.1038/nprot.2007.277

Microfluidic Devices for Culturing Primary Mammalian Neurons at Low Densities, L.J. Millet, M.E. Stewart, J.V. Sweedler, R.G. Nuzzo, M.U. Gillette, Lab Chip 7, 2007, 987–984. DOI:10.1039/b705266a [Featured on the journal cover.]

Neuropeptide Precursors in Tribolium castaneum, A. Amare and J.V. Sweedler, Peptides 28, 2007, 1282-1290. DOI:10.1016/j.peptides.2007.04.014 

Direct Immobilization of Fab' in Nanocapillaries for Manipulating Mass Limited Samples, B.Y. Kim, C.B. Swearingen, J.A. Ho, E.V. Romanova, P.W. Bohn, J.V. Sweedler, J. Am. Chem. Soc. 129, 2007, 7620-7626. DOI:10.1021/ja070041w

From Hunger to Satiety: Reconfiguration of a Feeding Network by Aplysia Neuropeptide Y, J. Jing, F.S. Vilim, C.C. Horn, V. Alexeeva, N.G. Hatcher, K. Sasaki, I. Yashina, Y. Zhurov, I. Kupfermann, J.V. Sweedler, K.R. Weiss, J. Neurosci. 27, 2007, 3490–3502. DOI:10.1523/JNEUROSCI.0334-07.2007

Autonomic Control Network in Aplysia Driven by Central Command During Locomotion Includes Neurons that Express Splice-Variants of R15-Neuropeptides, E.V. Romanova, U.T. Koch, N. McKay, A.T. Green, K.R. Weiss, J.V. Sweedler, J. Koester, J. Neurophysiol. 97, 181–191, 2007. DOI:10.1152/jn.00581.2006

Laser Capture Sampling and Analytical Issues in Proteomics, H.B. Gutstein, J.S. Morris, Expert Rev Proteomics 4, 2007, 627–37. DOI:10.1586/14789450.4.5.627

Lipid Imaging in the Zebra Finch Brain with Secondary Ion Mass Spectrometry, K.R. Amaya, E.B. Monroe, J.V. Sweedler, D.F. Clayton, Int. J. Mass Spectrom. 260, 2007, 121–127. DOI:10.1016/j.ijms.2006.09.032

Measuring Salty Samples without Adducts with MALDI MS. E.B. Monroe, B.A. Koszczuk, J.L. Losh, J.V. Sweedler, Int. J. Mass Spectrom. 260, 2007, 237–242. DOI:10.1016/j.ijms.2006.08.019



From the Genome to the Proteome: Uncovering Peptides in the Apis Brain, A.B. Hummon, T.A. Richmond, P. Verleyen, G. Baggerman, J. Huybrechts, M A. Ewing, E. Vierstraete, S.L. Rodriguez-Zas, L. Schoofs, G.E. Robinson, J.V. Sweedler, Science 314, 2006, 647–649. DOI:10.1126/science.1124128

Insights into Social Insects from the Genome of the Honeybee Apis mellifera, The Honey Bee Genome Sequencing Consortium, Nature 443, 2006, 931–949. DOI:10.1038/nature05260 [Featured on the journal cover.]

Profiling Signaling Peptides in Single Mammalian Cells using Mass Spectrometry, S.S. Rubakhin, J.D. Churchill, W.T. Greenough, J.V. Sweedler, Anal. Chem. 78, 2006, 7267–7272. DOI:10.1021/ac0607010

Massively Parallel Sample Preparation for the MALDI MS Analyses of Tissue, E.B. Monroe, J.C. Jurchen, B.A. Koszczuk, J.L. Losh, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 78, 2006, 6826–6832. DOI:10.1021/ac060652r

Identification and Characterization of Homologues of Vertebrate β-Thymosin in the Marine Mollusk Aplysia californica,. E.V. Romanova, M.J. Roth, S.S. Rubakhin, J.A. Jakubowski, W.P. Kelley, M.D. Kirk, N.L. Kelleher, J.V. Sweedler, J. Mass Spectrom. 41, 2006, 1030–1040. DOI:10.1002/jms.1060

NeuroPred: A Tool to Predict Cleavage Sites in Neuropeptide Precursors and Provide the Masses of the Resulting Peptides, B. R. Southey, A. Amare, T.A. Zimmerman, S.L. Rodriguez-Zas, J.V. Sweedler, 2006, Nucleic Acids Res. 34, 2006, W267-272. Web server article.

Bridging Neuropeptidomics and Genomics with Bioinformatics: Prediction of Mammalian Neuropeptide Prohormone Processing, A. Amare, A.B. Hummon, B.R. Southey, T.A. Zimmerman, S.L. Rodriguez-Zas, J.V. Sweedler, J. Proteome Res. 5, 2006, 1162–1167. DOI:10.1021/pr0504541

Serotonin Catabolism and the Formation and Fate of 5-Hydroxyindole Thiazolidine Carboxylic Acid. L.N. Squires, J.A. Jakubowski, J.N. Stuart, S.S. Rubakhin, N.G. Hatcher, W.-S. Kim, K. Chen, J.C. Shih, I. Seif, J.V. Sweedler, J. Biol. Chem. 281, 2006, 13463–13471. DOI:10.1074/jbc.M602210200

Prediction of Neuropeptide Prohormone Cleavages with Application to Rfamides, B.R. Southey, S L. Rodriguez-Zas, J.V. Sweedler, Peptides 27, 2006, 1087–1098. DOI:10.1016/j.peptides.2005.07.026

The First γ-Carboxyglutamate-Containing Neuropeptide, J.A. Jakubowski, N.G. Hatcher, F. Xie, J.V. Sweedler, Neurochem. Intl. 49, 2006, 223–229. DOI:10.1016/j.neuint.2006.01.007

D-Aspartate as a Putative Cell-Cell Signaling Molecule in the Aplysia californica Central Nervous System, H. Miao, S.S. Rubakhin, C.R. Scanlan, L. Wang, J.V. Sweedler, J. Neurochem. 97, 2006, 595–606. DOI:10.1111/j.1471-4159.2006.03791.x

Discovering New Invertebrate Neuropeptides Using Mass Spectrometry, A.B. Hummon, A. Amare, J.V. Sweedler, Mass Spectrom. Rev. 25, 2006, 77–98. DOI:10.1002/mas.20055

Capillary Electrophoresis of Ultrasmall Carboxylate Functionalized Silicon Nanoparticles, D.A. Eckhoff, J.N. Stuart, J.D. Sutin, J.V. Sweedler, E. Gratton, J. Chem. Phys. 125, 2006, 081103. DOI:10.1063/1.2345366



A Multilayer Poly(dimethylsiloxane) Electrospray Ionization Emitter for Sample Injection and Online Mass Spectrometric Detection, J.M. Iannacone, J.A. Jakubowski, P.W. Bohn, J.V. Sweedler, Electrophoresis 26, 2005, 4684–4690. DOI:10.1002/elps.200500498

Identification of a New Neuropeptide Precursor Reveals a Novel Source of Extrinsic Modulation in the Feeding System of Aplysia, A. Proekt, F.S. Vilim, V. Alexeeva, V. Brezina, A. Friedman, J. Jing, L. Li, Y. Zhurov, J.V. Sweedler, K.R. Weiss, J. Neurosci. 25, 2005, 9637–9648. DOI:10.1523/JNEUROSCI.2932-05.2005

Profiling Ph Gradients Across Nanocapillary Array Membranes Connecting Microfluidic Channels, K. Fa, J.J. Tulock, J.V. Sweedler, P.W. Bohn, J. Am. Chem. Soc. 127, 2005, 13928–13933. DOI:10.1021/ja052708p

Vitamin E Imaging and Localization in the Neuronal Membrane, E.B. Monroe, J.C. Jurchen, J. Lee, S.S. Rubakhin, J.V. Sweedler, J. Am. Chem. Soc. 127, 2005, 12152–12153. DOI:10.1021/ja051223y

MALDI-MS Imaging of Features Smaller than the Size of the Laser Beam, J.C. Jurchen, S.S. Rubakhin, J.V. Sweedler, J. Am. Soc. Mass. Spectrom. 16, 2005, 1654–1659. DOI:10.1016/j.jasms.2005.06.006

Measuring D-Amino Acid-Containing Neuropeptides with Capillary Electrophoresis, S.A. Sheeley, H. Miao, M.A. Ewing, S.S. Rubakhin, J.V. Sweedler, Analyst 130, 2005, 1198-1203. DOI:10.1039/b504717j

Imaging Mass Spectrometry: Fundamentals and Applications to Drug Discovery, S.S. Rubakhin, J.C. Jurchen, E.B. Monroe, J.V. Sweedler, Drug Discov. Today 10, 2005, 823–837. DOI:10.1016/S1359-6446(05)03458-6

Online Microdialysis-Dynamic Nanoelectrospray Ionization-Mass Spectrometry for Monitoring Neuropeptide Secretion, J.A. Jakubowski, N.G. Hatcher, J.V. Sweedler, J. Mass Spectrom. 40, 2005, 924–931. DOI:10.1002/jms.869

The Detection of Nitrated Tyrosine in Neuropeptides: A MALDI Matrix-Dependent Response, S.A. Sheeley, S.S. Rubakhin, J.V. Sweedler, Anal. Bioanal. Chem. 382, 2005, 22–27. DOI:10.1007/s00216-005-3145-0

New and Automated MSn Approaches for Top-Down Identification of Modified Proteins, V. Zabrouskov, M.W. Senko, Y. Du, R.D. Leduc, N.L. Kelleher, J. Am. Soc. Mass. Spectrom. 16, 2005, 2027–2038. DOI:10.1016/j.jasms.2005.08.004

Precise and Parallel Characterization of Coding Polymorphisms, Alternative Splicing, and Modifications in Human Proteins by Mass Spectrometry, M.J. Roth, A.J. Forbes, M.T. Boyne 2nd, Y.B. Kim, D.E. Robinson, N.L. Kelleher, Mol. Cell Proteomics 4, 2005, 1002–1008. DOI:10.1074/mcp.M500064-MCP20