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• Article

  Single-Cell Classification Using Mass Spectrometry through Interpretable Machine Learning

  Xie, Y. R., Castro, D. C., Bell, S. E., Rubakhin, S. & Sweedler, J. V., Jul 7 2020, In: Analytical chemistry. 92, 13, p. 9338-9347 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Mass spectrometry
  • Astrocytes
  • Machine learning
  • Biochemistry
  • Mass spectrometers

• Single-cell metabolomics: Changes in the metabolome of freshly isolated and cultured neurons

  Nemes, P., Knolhoff, A. M., Rubakhin, S. S. & Sweedler, J. V., Oct 17 2012, In: ACS Chemical Neuroscience. 3, 10, p. 782-792 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Metabolomics
  • Metabolome
  • Neurons
  • Glycerol
  • Metabolites

• Single Cell Profiling Using Ionic Liquid Matrix-Enhanced Secondary Ion Mass Spectrometry for Neuronal Cell Type Differentiation

  Do, T. D., Comi, T. J., Dunham, S. J. B., Rubakhin, S. S. & Sweedler, J. V., Mar 7 2017, In: Analytical Chemistry. 89, 5, p. 3078-3086 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Ionic Liquids
  • Secondary ion mass spectrometry
  • Phosphatidylcholines
  • Lipids
  • Rats

• Single Synaptic Observation of Cholinergic Neurotransmission on Living Neurons: Concentration and Dynamics

  Shen, M., Qu, Z., Deslaurier, J., Welle, T. M., Sweedler, J. V. & Chen, R., Jun 27 2018, In: Journal of the American Chemical Society. 140, 25, p. 7764-7768 5 p.

  Research output: Contribution to journal › Article › peer-review

  • in situ measurement
  • Synaptic Transmission
  • Cholinergic Agents
  • Acetylcholine
  • Neurons

• Small molecule analysis and imaging of fatty acids in the zebra finch song system using time-of-flight-secondary ion mass spectrometry

  Amaya, K. R., Sweedler, J. V. & Clayton, D. F., Aug 2011, In: Journal of Neurochemistry. 118, 4, p. 499-511 13 p.

  Research output: Contribution to journal › Article › peer-review

  • Secondary Ion Mass Spectrometry
  • Secondary ion mass spectrometry
  • Finches
  • Equidae
  • Music

• Spatially dependent alkyl quinolone signaling responses to antibiotics in Pseudomonas aeruginosa swarms

  Morales-Soto, N., Dunham, S. J. B., Baig, N. F., Ellis, J. F., Madukoma, C. S., Bohn, P. W., Sweedler, J. V. & Shrout, J. D., Jun 15 2018, In: Journal of Biological Chemistry. 293, 24, p. 9544-9552 9 p.

  Research output: Contribution to journal › Article › peer-review

  • 2-heptyl-3-hydroxy-4-quinolone
  • Hydroxyquinolines
  • Quinolones
  • Tobramycin
  • Pseudomonas aeruginosa

• Spatial organization of pseudomonas aeruginosa biofilms probed by combined matrix-assisted laser desorption ionization mass spectrometry and confocal raman microscopy

  Masyuko, R. N., Lanni, E. J., Driscoll, C. M., Shrout, J. D., Sweedler, J. V. & Bohn, P. W., Oct 15 2014, In: Analyst. 139, 22, p. 5700-5708 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Biofilms
  • Ionization
  • Mass spectrometry
  • Matrix-Assisted Laser Desorption-Ionization Mass Spectrometry
  • Desorption

• Spatiotemporal distribution of Pseudomonas aeruginosa alkyl quinolones under metabolic and competitive stress

  Cao, T., Sweedler, J. V., Bohn, P. W. & Shrout, J. D., Jul 1 2020, In: mSphere. 5, 4, e00426-20.

  Research output: Contribution to journal › Article › peer-review

  Open Access

  • 2-heptyl-3-hydroxy-4-quinolone
  • Physiological Stress
  • Quinolones
  • Pseudomonas aeruginosa
  • 2-(n-heptyl)-4-hydroxyquinoline N-oxide

• Stimulation and release from neurons via a dual capillary collection device interfaced to mass spectrometry

  Fan, Y., Lee, C. Y., Rubakhin, S. S. & Sweedler, J. V., Nov 7 2013, In: Analyst. 138, 21, p. 6337-6346 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Neuropeptides
  • Peptides
  • Mass spectrometry
  • Neurons
  • Mass Spectrometry

• Storage and uptake of D-serine into astrocytic synaptic-like vesicles specify gliotransmission

  Martineau, M., Shi, T., Puyal, J., Knolhoff, A. M., Dulong, J., Gasnier, B., Klingauf, J., Sweedler, J. V., Jahn, R. & Mothet, J. P., Feb 20 2013, In: Journal of Neuroscience. 33, 8, p. 3413-3423 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Synaptic Vesicles
  • Glutamic Acid
  • Astrocytes
  • SNARE Proteins
  • Synapses

• Stretched tissue mounting for MALDI mass spectrometry imaging

  Tucker, K. R., Lanni, E. J., Serebryannyy, L. A., Rubakhin, S. & Sweedler, J. V., Dec 1 2011, In: Analytical Chemistry. 83, 23, p. 9181-9185 5 p.

  Research output: Contribution to journal › Article › peer-review

  • Ionization
  • Mass spectrometry
  • Desorption
  • Mountings
  • Tissue

• Targeted single-cell microchemical analysis: MS-based peptidomics of individual paraformaldehyde-fixed and immunolabeled neurons

  Neupert, S., Rubakhin, S. S. & Sweedler, J. V., Aug 24 2012, In: Chemistry and Biology. 19, 8, p. 1010-1019 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Single-Cell Analysis
  • paraform
  • Mass spectrometry
  • Neuropeptides
  • Molecules

• The ctenophore genome and the evolutionary origins of neural systems

  Moroz, L. L., Kocot, K. M., Citarella, M. R., Dosung, S., Norekian, T. P., Povolotskaya, I. S., Grigorenko, A. P., Dailey, C., Berezikov, E., Buckley, K. M., Ptitsyn, A., Reshetov, D., Mukherjee, K., Moroz, T. P., Bobkova, Y., Yu, F., Kapitonov, V. V., Jurka, J., Bobkov, Y. V., Swore, J. J. & 16 others, Girardo, D. O., Fodor, A., Gusev, F., Sanford, R., Bruders, R., Kittler, E., Mills, C. E., Rast, J. P., Derelle, R., Solovyev, V. V., Kondrashov, F. A., Swalla, B. J., Sweedler, J. V., Rogaev, E. I., Halanych, K. M. & Kohn, A. B., 2014, In: Nature. 510, 7503, p. 109-114 6 p.

  Research output: Contribution to journal › Article › peer-review

  • Ctenophora
  • Genome
  • Ribes
  • Genes
  • Animals

• The effects of aging on biosynthetic processes in the rat hypothalamic osmoregulatory neuroendocrine system

  Greenwood, M. P., Greenwood, M., Romanova, E. V., Mecawi, A. S., Paterson, A., Sarenac, O., Japundžić-Žigon, N., Antunes-Rodrigues, J., Paton, J. F. R., Sweedler, J. V. & Murphy, D., May 2018, In: Neurobiology of Aging. 65, p. 178-191 14 p.

  Research output: Contribution to journal › Article › peer-review

  • Neurosecretory Systems
  • Arginine Vasopressin
  • Supraoptic Nucleus
  • Dehydration
  • Transcriptome

• The modified-bead stretched sample method: Development and application to MALDI-MS imaging of protein localization in the spinal cord

  Tucker, K. R., Serebryannyy, L. A., Zimmerman, T. A., Rubakhin, S. S. & Sweedler, J. V., 2011, In: Chemical Science. 2, 4, p. 785-795 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Ionization
  • Mass spectrometry
  • Desorption
  • Imaging techniques
  • Lasers

• The Notch effector gene Hes1 regulates migration of hypothalamic neurons, neuropeptide content and axon targeting to the pituitary

  Aujla, P. K., Bora, A., Monahan, P., Sweedler, J. V. & Raetzman, L. T., May 1 2011, In: Developmental Biology. 353, 1, p. 61-71 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Arginine Vasopressin
  • Neuropeptides
  • Axons
  • Supraoptic Nucleus
  • Paraventricular Hypothalamic Nucleus

• Therapeutic peptide production in Drosophila

  Park, D., Hou, X., Sweedler, J. V. & Taghert, P. H., Aug 2012, In: Peptides. 36, 2, p. 251-256 6 p.

  Research output: Contribution to journal › Article › peer-review

  • Drosophila
  • Peptides
  • Metabolic Engineering
  • Metabolic engineering
  • Synthetic Chemistry Techniques

• Three-dimensional mesostructures as high-temperature growth templates, electronic cellular scaffolds, and self-propelled microrobots

  Yan, Z., Han, M., Shi, Y., Badea, A., Yang, Y., Kulkarni, A., Hanson, E., Kandel, M. E., Wen, X., Zhang, F., Luo, Y., Lin, Q., Zhang, H., Guo, X., Huang, Y., Nan, K., Jia, S., Oraham, A. W., Mevis, M. B., Lim, J. & 19 others, Guo, X., Gao, M., Ryu, W., Yu, K. J., Nicolau, B. G., Petronico, A., Rubakhin, S. S., Lou, J., Ajayan, P. M., Thornton, K., Popescu, G., Fang, D., Sweedler, J. V., Braun, P. V., Zhang, H., Nuzzo, R. G., Huang, Y., Zhang, Y. & Rogers, J. A., Nov 7 2017, In: Proceedings of the National Academy of Sciences of the United States of America. 114, 45, p. E9455-E9464

  Research output: Contribution to journal › Article › peer-review

  • elastomeric
  • Temperature
  • Optical Devices
  • Nanostructures
  • Electromagnetic Phenomena

• Top-Down Proteomics Enables Comparative Analysis of Brain Proteoforms between Mouse Strains

  Davis, R. G., Park, H. M., Kim, K., Greer, J. B., Fellers, R. T., Leduc, R. D., Romanova, E. V., Rubakhin, S. S., Zombeck, J. A., Wu, C., Yau, P. M., Gao, P., Van Nispen, A. J., Patrie, S. M., Thomas, P. M., Sweedler, J. V., Rhodes, J. S. & Kelleher, N. L., Mar 20 2018, In: Analytical Chemistry. 90, 6, p. 3802-3810 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Proteomics
  • Brain
  • Proteome
  • Mass spectrometry
  • cyclic AMP-regulated phosphoprotein ARPP-21

• Urotensin II in Invertebrates: From Structure to Function in Aplysia californica

  Romanova, E. V., Sasaki, K., Alexeeva, V., Vilim, F. S., Jing, J., Richmond, T. A., Weiss, K. R. & Sweedler, J. V., Nov 8 2012, In: PloS one. 7, 11, e48764.

  Research output: Contribution to journal › Article › peer-review

  • Invertebrates
  • urotensin II
  • Aplysia californica
  • Aplysia
  • invertebrates
• Chapter

  Bioinformatics for prohormone and neuropeptide discovery

  Southey, B. R., Romanova, E. V., Rodriguez-Zas, S. L. & Sweedler, J. V., 2018, Methods in Molecular Biology. Humana Press Inc., p. 71-96 26 p. (Methods in Molecular Biology; vol. 1719).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • Neuropeptides
  • Computational Biology
  • Peptide Hormones
  • Post Translational Protein Processing
  • Proteomics

• Neuropeptidomics: Mass spectrometry-based qualitative and quantitative analysis

  Yin, P., Hou, X., Romanova, E. V. & Sweedler, J. V., 2011, Neuropeptides: Methods and Protocols. Merighi, A. (ed.). p. 223-236 14 p. (Methods in Molecular Biology; vol. 789).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • Neuropeptides
  • Mass Spectrometry
  • Liquid Chromatography
  • Peptides
  • Protein Precursors

• Neuropeptidomics

  Sweedler, J. V., Xie, F. & Bora, A., Sep 23 2011, Protein and Peptide Mass Spectrometry in Drug Discovery. John Wiley and Sons, p. 393-433 41 p.

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

• Neuropeptidomics of the mammalian brain

  Xie, F., Romanova, E. V. & Sweedler, J. V., Jun 3 2011, Neuroproteomics. Li, K. W. (ed.). p. 229-242 14 p. (Neuromethods; vol. 57).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • Brain
  • Mass spectrometry
  • Peptides
  • Mass Spectrometry
  • Liquid chromatography

• Neuropeptidomics of the mammalian brain

  Xie, F., Anapindi, K. D. B., Romanova, E. V. & Sweedler, J. V., 2019, Neuromethods. Humana Press Inc., p. 161-177 17 p. (Neuromethods; vol. 146).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • Brain
  • Mass spectrometry
  • Peptides
  • Mass Spectrometry
  • Liquid chromatography

• New Mass Spectrometric Approaches for Uncovering Neuropeptides

  Hou, X. & Sweedler, J. V., Aug 29 2013, Handbook of Biologically Active Peptides. Elsevier Inc., p. 1749-1756 8 p.

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

• Non-targeted identification of d-amino acid-containing peptides through enzymatic screening, chiral amino acid analysis, and LC-MS

  Tai, H. C., Checco, J. W. & Sweedler, J. V., 2018, Methods in Molecular Biology. Humana Press Inc., p. 107-118 12 p. (Methods in Molecular Biology; vol. 1719).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • Amino Acids
  • Peptides
  • Post Translational Protein Processing
  • Mass Spectrometry
  • Animals
• Comment/debate

  An enhanced protein crosslink identification strategy using CID-cleavable chemical crosslinkers and LC/MS ⁿ analysis

  Liu, F., Wu, C., Sweedler, J. V. & Goshe, M. B., Feb 2012, In: Proteomics. 12, 3, p. 401-405 5 p.

  Research output: Contribution to journal › Comment/debate › peer-review

  • Peptides
  • aspartyl-proline
  • Cross-Linking Reagents
  • Proteins
  • Optical resolving power
• Conference contribution

  Comparison of tandem mass spectrometry search methods to identify neuropeptides

  Akhtar, M. N., Southey, B. R., Porter, K. I., Sweedler, J. V. & Rodriguez-Zas, S. L., 2011, 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011. p. 982-984 3 p. 6112530. (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Neuropeptides
  • Mass spectrometry
  • Tandem Mass Spectrometry
  • Peptides
  • Amino acids

• Evaluation of significance level assignment of database search programs using monte carlo permutation approach

  Akhtar, M. N., Southey, B. R., Andrén, P. E., Sweedler, J. V. & Rodriguez-Zas, S. L., Jan 1 2014, Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014. International Society for Computers and Their Applications, p. 103-107 5 p. (Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Peptides
  • Neuropeptides
  • Databases
  • Mass spectrometry
  • Tandem Mass Spectrometry

• Integration of sequence and functional information to identify and annotate neuropeptides in the pig genome

  Porter, K. I., Southey, B. R., Akhtar, M. N., Sweedler, J. V. & Rodriguez-Zas, S. L., Dec 1 2011, 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011. p. 988-990 3 p. 6112532. (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Neuropeptides
  • Genes
  • Swine
  • Genome
  • proenkephalin

• Microscale transport physics during atomic force microscopy mass spectrometry and improved sampling efficiency

  Moon, H., Comi, T. J., Dunham, S. J. B., Kwon, B., Sweedler, J. V. & King, W. P., Jul 26 2017, TRANSDUCERS 2017 - 19th International Conference on Solid-State Sensors, Actuators and Microsystems. Institute of Electrical and Electronics Engineers Inc., p. 24-27 4 p. 7993978. (TRANSDUCERS 2017 - 19th International Conference on Solid-State Sensors, Actuators and Microsystems).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Mass spectrometry
  • Atomic force microscopy
  • microbalances
  • mass spectroscopy
  • Physics

• Model of ion intensity from tandem mass spectra for improved peptide identification and simulation

  Fazal, Z., Southey, B. R., Sadeque, A., Sweedler, J. V. & Rodriguez-Zas, S. L., Dec 1 2011, 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011. p. 994-996 3 p. 6112534. (2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2011).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Peptides
  • Ions
  • Mass spectrometry
  • Protons
  • Tandem Mass Spectrometry

• Spatiotemporal dynamics of molecular messaging in bacterial co-cultures studied by multimodal chemical imaging

  Cao, T., Morales-Soto, N., Jia, J., Baig, N. F., Dunham, S. J. B., Ellis, J., Sweedler, J. V., Shrout, J. D. & Bohn, P. W., 2019, Photonic Diagnosis and Treatment of Infections and Inflammatory Diseases II. Dai, T., Popp, J. & Wu, M. X. (eds.). SPIE, 108630A. (Proceedings of SPIE - The International Society for Optical Engineering; vol. 10863).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Co-culture
  • Quorum Sensing
  • Imaging
  • Microscopic examination
  • Imaging techniques

• The mechanical sensitivity of vesicle dynamics in in vivo and in vitro neurons

  Ahmed, W. W., Li, T. C., Rubakhin, S., Chiba, A., Sweedler, J. V. & Saif, M. T. A., Nov 23 2011, Technical Proceedings of the 2011 NSTI Nanotechnology Conference and Expo, NSTI-Nanotech 2011. p. 436-439 4 p. (Technical Proceedings of the 2011 NSTI Nanotechnology Conference and Expo, NSTI-Nanotech 2011; vol. 3).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Neurons
  • Cones
  • Imaging techniques

• Understanding the impact of fractionation and dynamic exclusion on proteomics

  Zavala, C., Nixon, S., Southey, B. R., Wu, C., Romanova, E. V., Sweedler, J. V. & Rodriguez-Zas, S. L., 2014, Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014. International Society for Computers and Their Applications, p. 93-96 4 p. (Proceedings of the 6th International Conference on Bioinformatics and Computational Biology, BICOB 2014).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Proteomics
  • Fractionation
  • Proteins
  • Peptides
  • Macrophages

• Using microfluidics and mass spectrometry to study peptide release in neurons

  Croushore, C. A., Lee, C. Y., Zhong, M. & Sweedler, J. V., Dec 1 2011, 15th International Conference on Miniaturized Systems for Chemistry and Life Sciences 2011, MicroTAS 2011. p. 858-860 3 p. (15th International Conference on Miniaturized Systems for Chemistry and Life Sciences 2011, MicroTAS 2011; vol. 2).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Peptides
  • Mass spectrometry
  • Microfluidics
  • Neurons
  • Neuropeptides
• Editorial

  2014 ACS national chemical historic landmark recognizing Kolthoff's influence on the field of analytical chemistry

  Sweedler, J. V., Mar 4 2014, In: Analytical chemistry. 86, 5, 1 p.

  Research output: Contribution to journal › Editorial › peer-review

• 2018: The 90th Volume of Analytical Chemistry and Still Growing

  Sweedler, J. V., Dec 5 2017, In: Analytical Chemistry. 89, 23, p. 12617 1 p.

  Research output: Contribution to journal › Editorial › peer-review

• Advancing the Fields of Measurement Science with Partnerships and Awards

  Sweedler, J. V., Apr 2 2019, In: Analytical chemistry. 91, 7, 1 p.

  Research output: Contribution to journal › Editorial › peer-review

• Analytical chemistry: The synergies between the division and the journal

  Sweedler, J. V. & Koppenaal, D. W., Nov 6 2012, In: Analytical chemistry. 84, 21, 1 p.

  Research output: Contribution to journal › Editorial › peer-review

• An Editor's Reflections on an Unusual Year

  Sweedler, J. V., Dec 15 2020, In: Analytical Chemistry. 92, 24, p. 15686-15687 2 p.

  Research output: Contribution to journal › Editorial › peer-review

• Animal Model Systems in Neuroscience

  Romanova, E. V. & Sweedler, J. V., Aug 15 2018, In: ACS Chemical Neuroscience. 9, 8, p. 1869-1870 2 p.

  Research output: Contribution to journal › Editorial › peer-review

• A Resource for Our Reagents: ACS Reagent Chemicals

  Sweedler, J. V., May 1 2018, In: Analytical Chemistry. 90, 9, p. 5511 1 p.

  Research output: Contribution to journal › Editorial › peer-review

• Are we growing more picky, more careless or simply under more pressure?

  Sweedler, J. V., Aug 7 2012, In: Analytical chemistry. 84, 15, 1 p.

  Research output: Contribution to journal › Editorial › peer-review

• Are we virtual yet?

  Sweedler, J. V., Apr 2 2013, In: Analytical chemistry. 85, 7, 1 p.

  Research output: Contribution to journal › Editorial › peer-review

• Around the world with analytical chemistry

  Sweedler, J. V., May 6 2014, In: Analytical chemistry. 86, 9, 1 p.

  Research output: Contribution to journal › Editorial › peer-review

• Avoiding a Retraction: Some Simple Guidelines on What NOT to Do

  Sweedler, J. V., Aug 6 2019, In: Analytical chemistry. 91, 15, p. 9331-9332 2 p.

  Research output: Contribution to journal › Editorial › peer-review

• Buyer beware! Think twice when selecting a journal (or attending a conference)

  Sweedler, J. V., Nov 5 2013, In: Analytical chemistry. 85, 21, 1 p.

  Research output: Contribution to journal › Editorial › peer-review

• Celebrating the 75th anniversary of the ACS division of analytical chemistry: A special collection of the most highly cited analytical chemistry papers published between 1938 and 2012

  Larive, C. K. & Sweedler, J. V., May 7 2013, In: Analytical chemistry. 85, 9, p. 4201-4202 2 p.

  Research output: Contribution to journal › Editorial › peer-review