[2009 - 2006]
2008 -- 2007 -- 2006


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.

Capillary Electrophoresis with Electrospray Ionization Mass Spectrometric Detection for Single Cell Metabolomics. T. Lapainis, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 81, 2009, 5858–5864.

Analysis of Natural D-Amino Acid-Containing Peptides in Metazoa, L. Bai,  S. Sheeley, J.V. Sweedler, Bioanal. Rev. 1, 2009, 7–24.

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.

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.

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.

The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution, Bovine Genome Sequencing and Analysis Consortium, Science 324, 2009, 522–528.

Centrifugal Sedimentation for Selectively Packing Channels with Silica Microbeads in Three-Dimensional Micro/Nanofluidic Devices, M. Gong,  P.W. Bohn, J.V. Sweedler, Anal. Chem. 81, 2009, 2022–2026.

Multidimensional Separation of Chiral Amino Acid Mixtures in a Multilayered Three Dimensional Hybrid Microfluidic/Nanofluidic Device, B.Y. Kim, J. Yang, M. Gong, B.R. Flachsbart, M.A. Shannon, P. W. Bohn, J.V. Sweedler, Anal. Chem. 81, 2009, 2715–2722.

Single Cell Mass Spectrometry, E.V. Romanova, S.S. Rubakhin, E.B. Monroe, J.V. Sweedler, in Single Cell Analysis, edited by D. Anselmetti, Wiley-VCH, 2009, 109–126.

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.

A Python Analytical Pipeline to Identify Prohormone Precursors and Predict Prohormone Cleavage Sites, B. Southey, J.V. Sweedler, S, Rodriguez-Zas, Front. Neuroinformatics 2, 2009, Article 7.

Characterizing Intercellular Signaling Peptides in Drug Addiction, E.V. Romanova, N.G. Hatcher, S.S. Rubakhin, J.V. Sweedler, Neuropharmacology 56, 2009, 196–204.

Textural Guidance Cues for Controlling Process Outgrowth of Mammalian Neurons, J.N. Hanson, M.J. Motala, M.L. Heien, J.W. Mitchell, M.U. Gillette, J.V. Sweedler, R.G. Nuzzo, Lab Chip 9, 2009, 122–131.



Chapter 13: 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.

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.

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.

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

Electrokinetically Driven Fluidic Transport in Integrated Three-Dimensional Microfluidic Devices Incorporating Gold-Coated Nanocapillary Array Membranes, A. Piruska, S. Branagan, D.M. Cropek, J.V. Sweedler, P.W. Bohn, Lab Chip 8, 2008, 1625–1631.

MS-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.

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.

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

Peptides in our Brain: Mass Spectrometric-Based Measurement Approaches and Challenges, L. Li and J.V. Sweedler, Annu. Rev. Anal. Chem. 1, 2008, 451–483.

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.

Nanofluidics: Systems and Applications, S. Prakash, A. Piruska, E.N. Gatimu, P. W. Bohn, J.V. Sweedler, M.A. Shannon, IEEE Sensors J. 8, 441–450.

An On-Chip Fluorogenic Enzyme Assay Using a Multilayer Microchip Interconnected with Nanocapillary Array Membranes, M. Gong, B.Y. Kim, B.R. Flachsbart, M.A. Shannon, P.W. Bohn, J.V. Sweedler, IEEE Sensors J. 8, 2008, 601–607.

Immobilization of DNAzyme Catalytic Beacons on PMMA for Pb2+ Detection, T.S. Dalavoy, D.P. Wernette, M. Gong, J.V. Sweedler, Y. Lu, B.R. Flachsbart, M.A. Shannon, P.W. Bohn, D.M. Cropek, 2008, Lab Chip 8, 2008, 786–793.

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.

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.

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.

Fluidic Communication between Multiple Vertically Segregated Microfluidic Channels Connected by Nanocapillary Array Membranes, M. Gong, B.R. Flachsbart, M.A. Shannon, P.W. Bohn, J.V. Sweedler, Electrophoresis 29, 2008, 1237–1244.

Detection of Nitric Oxide in Single Cells, X. Ye, S.S Rubakhin, J.V. Sweedler, The Analyst 133, 2008, 423-433.

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.

Contributions of Capillary Electrophoresis to Neuroscience, T. Lapainis, J.V. Sweedler, J. Chromatogr. A 1184, 2008, 144–158.

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

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.

Simultaneous Nitric Oxide and Dehydroascorbic Acid Imaging by Combining Diaminofluoresceins and Diaminorhodamines, X. Ye, S.S. Rubakhin, J.V. Sweedler, J. Neuro. Methods 168, 2008, 373–382.

Manipulating Mass Limited Samples Using Hybrid Microfluidic / Nanofluidic Networks, J.M. Iannacone, B.Y. Kim, , T.L. King, P.W. Bohn, J.V. Sweedler, in Biological Applications of Microfluidics, edited by F.A. Gomez, John Wiley & Sons, Inc., 2008, 451-472.



Transparent Triethylamine Containing MALDI Matrices, S.S. Rubakhin, J.V. Sweedler, Israel J. Chem. 47, 2007, 185–193.

Mass Spectrometric Imaging of the Nervous System, S.S. Rubakhin, N.G. Hatcher, E.B. Monroe, M.L. Heien, J.V. Sweedler, Curr. Pharm. Des. 13, 2007, 3325–3334.

Mass Spectrometric Imaging of Peptide Release from Neuronal Cells within Microfluidic Devices, K. Jo, M.L. Hein, L.B. Thompson, M. Zhong, R.G. Nuzzo, J.V. Sweedler, Lab Chip 7, 2007, 1454–1460.

Aplysia Temptin – The “Glue” in the Water-Borne Attracting Pheromone Complex, S.F. Cummins, F. Xie, M.R. de Vries, S.P. Annangudi, M. Misra, B.M. Degnan, J.V. Sweedler, G.T. Nagle, C.H. Schein, FEBS J. 274, 2007, 5425–5437.

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.

Characterizing Individual Mammalian Cells using Mass Spectrometry, S.S. Rubakhin and J.V. Sweedler, Nat. Protoc. 8, 2007, 1987–1997.

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, 987–994.

Neuropeptide Precursors in Tribolium castaneum, A. Amare and J.V. Sweedler, Peptides 28, 2007, 1282–1290.

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.

Three-Dimensional Integrated Microfluidic Architectures Enabled through Electrically Switchable Nanocapillary Array Membranes, E.N. Gatimu, T.L. King, J.V. Sweedler, P.W. Bohn, Biomicrofluidics 1, 2007, 021502.

Ubiquitous Presence of Argininosuccinate at Millimolar Levels in the Central Nervous System of Aplysia californica, X. Ye, W-S. Kim, S.S. Rubakhin, J.V. Sweedler, J. Neurochem. 101, 2007, 632–640.

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.

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, 2007, 481–491.

A Multichannel Native Fluorescence Detection System for Capillary Electrophoresis for Neurotransmitter Analysis in Single Neurons, T. Lapainis, C. Scanlan, S.S. Rubakhin, J.V. Sweedler, Anal. Bioanal. Chem. 387, 2007, 97–105.

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.

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.

Recombinant Production and Structural Studies of the Aplysia Water-Borne Protein Pheromone Enticin Indicates it has a Novel Disulfide Stabilized Fold, S.F. Cummins, F. Xie, M. Misra, A. Amare, J.A. Jakubowski, M.R. deVries, J.V. Sweedler, G.T. Nagle, C.H. Schein, Peptides 28, 2007, 94–102.

Light-Based Detection Methods for Capillary Electrophoresis, C. Scanlan, T. Lapainis and J.V. Sweedler, in CRC Handbook of Capillary and Microchip Electrophoresis and Associated Microtechniques, 3rd Edition, edited by J.P. Landers, CRC Press, 2007.

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 I.D. Wilson, Elsevier, 2007.

Enhanced Prediction of Cleavage in Bovine Precursor Sequences, A.N. Tegge, B.R. Southey, J.V. Sweedler, S.L. Rodriguez-Zas, Lecture Notes in Computer Science, Bioinformatics Research and Applications, Springer, Vol. 4463, 2007, 350–360 .

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. 269-263.



Two Toxins from Conus striatus that Individually Induce Tetanic Paralysis, W.P. Kelley, J.R. Schulz, J. A. Jakubowski, W.F. Gilly, J.V. Sweedler, Biochemistry 45, 2006, 14212–14222.

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.

Insights into Social Insects from the Genome of the Honey Bee Apis mellifera, The Honey Bee Genome Sequencing Consortium, Nature 443, 2006, 931–949.

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.

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

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.

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.

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, Nucleic Acids Res. 34, 2006, W267–272.

Nanofluidics and the Role of Nanocapillary Array Membranes in Mass-Limited Chemical Analysis, E.N. Gatimu, J.V. Sweedler, P.W. Bohn, Analyst 131, 2006, 705–709.

Nanofluidic Injection and Heterogeneous Kinetics of Organomercaptan Surface Displacement Reactions on Colloidal Gold in a Microfluidic Stream, J.S. Kirk, J.V. Sweedler, P.W. Bohn, Anal. Chem. 78, 2006, 2335–2341.

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, 13463–13470.

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

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.

Screening for Post-Translational Modifications in Conotoxins using Liquid Chromatography / Mass Spectrometry: An Important Component of Conotoxin Discovery, J.A. Jakubowski, W.P. Kelley, J.V. Sweedler, Toxicon 47, 2006, 688–699.

The First γ-carboxyglutamate-Containing Neuropeptide, J.A. Jakubowski, N.G. Hatcher, F. Xie, J.V. Sweedler, Neurochem. Intl. 49, 2006, 223–229.

Measuring Nitric Oxide in Single Neurons by Capillary Electrophoresis with Laser-Induced Fluorescence: Use of Ascorbate Oxidase in Diaminofluorescein Measurements, W.-S. Kim, X. Ye, S.S. Rubakhin, J.V. Sweedler, Anal. Chem. 78, 2006, 1859–1865.

Design and Fabrication of a Multilayered Polymer Microfluidic Chip with Nanofluidic Interconnects via Adhesive Contact Printing, B.R. Flachsbart, K. Wong, J.M. Iannacone, E.N. Abante, R.L. Vlach, P.A. Rauchfuss, P.W. Bohn, J.V. Sweedler, M.A. Shannon, Lab Chip 6, 2006, 667–674.

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

Confirmation of Peak Assignments in Capillary Electrophoresis using Immunoprecipitation Application to D-Aspartate Measurements in Neurons, H. Miao, S.S. Rubakhin, J.V. Sweedler, J. Chromatogr. A 1106, 2006, 56–60.

Self-Assembled Monolayers of Alkanethiols on Gold Modulate Electrophysiological Parameters and Cellular Morphology of Cultured Neurons, E.V. Romanova, S.P. Oxley, S.S. Rubakhin, P.W. Bohn, J.V. Sweedler, Biomaterials 27, 2006, 1665–1669.

Incorporation of a DNAzyme into Au-Coated Nanocapillary Array Membranes with an Internal Standard for Pb(Ii) Sensing, D.P. Wernette, C.B. Swearingen, D.M. Cropek, Y. Lu, J.V. Sweedler, P.W. Bohn, Analyst 131, 2006, 41–47.

Discovering New Invertebrate Neuropeptides using Mass Spectrometry, A.B. Hummon, A. Amare, J.V. Sweedler, Mass Spectrom. Rev. 25, 2006, 77–98.

Microcoil NMR for Miniaturized Reactors, L. Ciobanu, J.V. Sweedler, A.G. Webb, in NMR Imaging in Chemical Engineering, edited by S. Stapf and S. I. Han, Wiley-VCH, 2006, 123–137.