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  • Jonathan V Sweedler
Article

Accurate assignment of significance to neuropeptide identifications using monte carlo K-permuted decoy databases

Akhtar, M. N., Southey, B. R., Andrén, P. E., Sweedler, J. V. & Rodriguez-Zas, S. L., Oct 17 2014, In : PloS one. 9, 10, e111112.

Research output: Contribution to journalArticle

A D-amino acid-containing neuropeptide discovery funnel

Livnat, I., Tai, H. C., Jansson, E. T., Bai, L., Romanova, E. V., Chen, T. T., Yu, K., Chen, S. A., Zhang, Y., Wang, Z. Y., Liu, D. D., Weiss, K. R., Jing, J. & Sweedler, J. V., Jan 1 2016, In : Analytical chemistry. 88, 23, p. 11868-11876 9 p.

Research output: Contribution to journalArticle

A diverse family of novel peptide toxins from an unusual cone snail, Conus californicus

Gilly, W. F., Richmond, T. A., Duda, T. F., Elliger, C., Lebaric, Z., Schulz, J., Bingham, J. P. & Sweedler, J. V., Jan 1 2011, In : Journal of Experimental Biology. 214, 1, p. 147-161 15 p.

Research output: Contribution to journalArticle

A high spatiotemporal study of somatic exocytosis with scanning electrochemical microscopy and nanoITIES electrodes

Welle, T. M., Alanis, K., Colombo, M. L., Sweedler, J. V. & Shen, M., Jan 1 2018, In : Chemical Science. 9, 22, p. 4937-4941 5 p.

Research output: Contribution to journalArticle

A hybrid, de novo based, genome-wide database search approach applied to the sea urchin neuropeptidome

Menschaert, G., Vandekerckhove, T. T. M., Baggerman, G., Landuyt, B., Sweedler, J. V., Schoofs, L., Luyten, W. & Van Criekinge, W., Feb 5 2010, In : Journal of Proteome Research. 9, 2, p. 990-996 7 p.

Research output: Contribution to journalArticle

Analysis of endogenous nucleotides by single cell capillary electrophoresis-mass spectrometry

Liu, J. X., Aerts, J. T., Rubakhin, S. S., Zhang, X. X. & Sweedler, J. V., Oct 15 2014, In : Analyst. 139, 22, p. 5835-5842 8 p.

Research output: Contribution to journalArticle

A neuron-in-capillary platform for facile collection and mass spectrometric characterization of a secreted neuropeptide

Lee, C. Y., Fan, Y., Rubakhin, S. S., Yoon, S. & Sweedler, J. V., Jun 1 2016, In : Scientific reports. 6, 26940.

Research output: Contribution to journalArticle

A novel pyridoxal 5'-phosphate-dependent amino acid racemase in the aplysia californica central nervous system

Wang, L., Ota, N., Romanova, E. V. & Sweedler, J. V., Apr 15 2011, In : Journal of Biological Chemistry. 286, 15, p. 13765-13774 10 p.

Research output: Contribution to journalArticle

A one-step matrix application method for MALDI mass spectrometry imaging of bacterial colony biofilms

Li, B., Comi, T. J., Si, T., Dunham, S. J. B. & Sweedler, J. V., Nov 1 2016, In : Journal of Mass Spectrometry. 51, 11, p. 1030-1035 6 p.

Research output: Contribution to journalArticle

Aplysia locomotion: Network and behavioral actions of GdFFD, a D-amino acid-containing neuropeptide

Yang, C. Y., Yu, K., Wang, Y., Chen, S. A., Liu, D. D., Wang, Z. Y., Su, Y. N., Yang, S. Z., Chen, T. T., Livnat, I., Vilim, F. S., Cropper, E. C., Weiss, K. R., Sweedler, J. V. & Jing, J., Jan 1 2016, In : PloS one. 11, 1, e0147335.

Research output: Contribution to journalArticle

A Versatile Strategy for Characterization and Imaging of Drip Flow Microbial Biofilms

Li, B., Dunham, S. J. B., Ellis, J. F., Lange, J. D., Smith, J. R., Yang, N., King, T. L., Amaya, K. R., Arnett, C. M. & Sweedler, J. V., Jun 5 2018, In : Analytical chemistry. 90, 11, p. 6725-6734 10 p.

Research output: Contribution to journalArticle

Base-induced delignification of miscanthus x giganteus studied by three-dimensional confocal raman imaging

Chu, L. Q., Masyuko, R., Sweedler, J. V. & Bohn, P. W., Jul 1 2010, In : Bioresource Technology. 101, 13, p. 4919-4925 7 p.

Research output: Contribution to journalArticle

Characterization of bacillus subtilis colony biofilms via mass spectrometry and fluorescence imaging

Si, T., Li, B., Zhang, K., Xu, Y., Zhao, H. & Sweedler, J. V., Jun 3 2016, In : Journal of Proteome Research. 15, 6, p. 1955-1962 8 p.

Research output: Contribution to journalArticle

Characterization of GdFFD, a D-amino acid-containing neuropeptide that functions as an extrinsic modulator of the Aplysia feeding circuit

Bai, L., Livnat, I., Romanova, E. V., Alexeeva, V., Yau, P. M., Vilim, F. S., Weiss, K. R., Jing, J. & Sweedler, J. V., Nov 15 2013, In : Journal of Biological Chemistry. 288, 46, p. 32837-32851 15 p.

Research output: Contribution to journalArticle

Chronic morphine alters the presynaptic protein profile: Identification of novel molecular targets using proteomics and network analysis

Abul-Husn, N. S., Annangudi, S. P., Ma'ayan, A., Ramos-Ortolaza, D. L., Stockton, S. D., Gomes, I., Sweedler, J. V. & Devi, L. A., Oct 17 2011, In : PloS one. 6, 10, e25535.

Research output: Contribution to journalArticle

Circadian integration of glutamatergic signals by little SAAS in novel suprachiasmatic circuits

Atkins, N., Mitchell, J. W., Romanova, E. V., Morgan, D. J., Cominski, T. P., Ecker, J. L., Pintar, J. E., Sweedler, J. V. & Gillette, M. U., 2010, In : PloS one. 5, 9, p. 1-13 13 p., e12612.

Research output: Contribution to journalArticle

Classification of Large Cellular Populations and Discovery of Rare Cells Using Single Cell Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry

Ong, T. H., Kissick, D. J., Jansson, E. T., Comi, T. J., Romanova, E. V., Rubakhin, S. S. & Sweedler, J. V., Jul 21 2015, In : Analytical chemistry. 87, 14, p. 7036-7042 7 p.

Research output: Contribution to journalArticle

Combining small-volume metabolomic and transcriptomic approaches for assessing brain chemistry

Knolhoff, A. M., Nautiyal, K. M., Nemes, P., Kalachikov, S., Morozova, I., Silver, R. & Sweedler, J. V., Mar 19 2013, In : Analytical chemistry. 85, 6, p. 3136-3143 8 p.

Research output: Contribution to journalArticle

Comparing label-free quantitative peptidomics approaches to characterize diurnal variation of peptides in the rat suprachiasmatic nucleus

Southey, B. R., Lee, J. E., Zamdborg, L., Atkins, N., Mitchell, J. W., Li, M., Gillette, M. U., Kelleher, N. L. & Sweedler, J. V., Jan 7 2014, In : Analytical chemistry. 86, 1, p. 443-452 10 p.

Research output: Contribution to journalArticle

Comparison of sample pre-treatments for laser desorption ionization and secondary ion mass spectrometry imaging of Miscanthus × giganteus

Li, Z., Bohn, P. W. & Sweedler, J. V., Jul 1 2010, In : Bioresource Technology. 101, 14, p. 5578-5585 8 p.

Research output: Contribution to journalArticle

Composite modulatory feedforward loop contributes to the establishment of a network state

Wu, J. S., Vilim, F. S., Hatcher, N. G., Due, M. R., Sweedler, J. V., Weiss, K. R. & Jing, J., Apr 1 2010, In : Journal of neurophysiology. 103, 4, p. 2174-2184 11 p.

Research output: Contribution to journalArticle

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

Do, T. D., Checco, J. W., Tro, M., Shea, J. E., Bowers, M. T. & Sweedler, J. V., Jan 1 2018, In : Physical Chemistry Chemical Physics. 20, 34, p. 22047-22057 11 p.

Research output: Contribution to journalArticle

Correction: 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. 6058-6060 3 p.

Research output: Contribution to journalArticle

Correlated imaging with C60-SIMS and confocal raman microscopy: Visualization of cell-scale molecular distributions in bacterial biofilms

Lanni, E. J., Masyuko, R. N., Driscoll, C. M., Dunham, S. J. B., Shrout, J. D., Bohn, P. W. & Sweedler, J. V., Sep 30 2014, In : Analytical chemistry. 86, 21, p. 10885-10891 7 p.

Research output: Contribution to journalArticle

D-Alanine in the islets of Langerhans of rat pancreas

Ota, N., Rubakhin, S. S. & Sweedler, J. V., May 2 2014, In : Biochemical and Biophysical Research Communications. 447, 2, p. 328-333 6 p.

Research output: Contribution to journalArticle

Differential peptidomics assessment of strain and age differences in mice in response to acute cocaine administration

Romanova, E. V., Rubakhin, S. S., Ossyra, J. R., Zombeck, J. A., Nosek, M. R., Sweedler, J. V. & Rhodes, J. S., Dec 1 2015, In : Journal of Neurochemistry. 135, 5, p. 1038-1048 11 p.

Research output: Contribution to journalArticle

Direct cellular peptidomics of supraoptic magnocellular and hippocampal neurons in low-density cocultures

Millet, L. J., Bora, A., Sweedler, J. V. & Gillette, M. U., Jan 20 2010, In : ACS Chemical Neuroscience. 1, 1, p. 36-48 13 p.

Research output: Contribution to journalArticle

Discovery of new enzymes and metabolic pathways by using structure and genome context

Zhao, S., Kumar, R., Sakai, A., Vetting, M. W., Wood, B. M. K., Brown, S., Bonanno, J. B., Hillerich, B. S., Seidel, R. D., Babbitt, P. C., Almo, S. C., Sweedler, J. V., Gerlt, J. A., Cronan, J. E. & Jacobson, M. P., Sep 24 2013, In : Nature. 502, 7473, p. 698-702 5 p.

Research output: Contribution to journalArticle

Disruption of microglia histone acetylation and protein pathways in mice exhibiting inflammation-associated depression-like symptoms

Rodriguez-Zas, S. L., Wu, C., Southey, B. R., O'Connor, J. C., Nixon, S. E., Garcia, R., Zavala, C., Lawson, M., McCusker, R. H., Romanova, E. V., Sweedler, J. V., Kelley, K. W. & Dantzer, R., Nov 2018, In : Psychoneuroendocrinology. 97, p. 47-58 12 p.

Research output: Contribution to journalArticle

Distinct mechanisms produce functionally complementary actions of neuropeptides that are structurally related but derived from different precursors

Vilim, F. S., Sasaki, K., Rybak, J., Alexeeva, V., Cropper, E. C., Jing, J., Orekhova, I. V., Brezina, V., Price, D., Romanova, E. V., Rubakhin, S. S., Hatcher, N., Sweedler, J. V. & Weiss, K. R., Jan 6 2010, In : Journal of Neuroscience. 30, 1, p. 131-147 17 p.

Research output: Contribution to journalArticle

Diversity of conotoxin types from Conus californicus reflects a diversity of prey types and a novel evolutionary history

Elliger, C. A., Richmond, T. A., Lebaric, Z. N., Pierce, N. T., Sweedler, J. V. & Gilly, W. F., Feb 1 2011, In : Toxicon. 57, 2, p. 311-322 12 p.

Research output: Contribution to journalArticle

Effects of exercise and dietary epigallocatechin gallate and β-alanine on skeletal muscle in aged mice

Pence, B. D., Gibbons, T. E., Bhattacharya, T. K., Mach, H., Ossyra, J. M., Petr, G., Martin, S. A., Wang, L., Rubakhin, S. S., Sweedler, J. V., McCusker, R. H., Kelley, K. W., Rhodes, J. S., Johnson, R. W. & Woods, J. A., Oct 26 2015, In : Applied Physiology, Nutrition and Metabolism. 41, 2, p. 181-190 10 p.

Research output: Contribution to journalArticle

Electrokinetic control of fluid transport in gold-coated nanocapillary array membranes in hybrid nanofluidic-microfluidic devices

Piruska, A., Branagan, S. P., Minnis, A. B., Wang, Z., Cropek, D. M., Sweedler, J. V. & Bohn, P. W., 2010, In : Lab on a chip. 10, 10, p. 1237-1244 8 p.

Research output: Contribution to journalArticle

Endogenous peptide discovery of the rat circadian clock: A focused study of the suprachiasmatic nucleus by ultrahigh performance tandem mass spectrometry

Lee, J. E., Atkins, N., Hatcher, N. G., Zamdborg, L., Gillette, M. U., Sweedler, J. V. & Kelleher, N. L., Feb 1 2010, In : Molecular and Cellular Proteomics. 9, 2, p. 285-297 13 p.

Research output: Contribution to journalArticle

Expired Epinephrine Maintains Chemical Concentration and Sterility

Weir, W. B., Fred, L. Y., Pike, M., Rubakhin, S. S., Ludwig, T. J., Shar, A. M., Zhu, L., Frederick, A., Uzoaru, I., Wang, L. & Sweedler, J. V., Jul 4 2018, In : Prehospital Emergency Care. 22, 4, p. 414-418 5 p.

Research output: Contribution to journalArticle

Exploring Exercise- and Context-Induced Peptide Changes in Mice by Quantitative Mass Spectrometry

Dowd, S. E., Mustroph, M. L., Romanova, E. V., Southey, B. R., Pinardo, H., Rhodes, J. S. & Sweedler, J. V., Oct 24 2018, In : ACS Omega. 3, 10, p. 13817-13827 11 p.

Research output: Contribution to journalArticle

Exploring the Sea Urchin Neuropeptide Landscape by Mass Spectrometry

Monroe, E. B., Annangudi, S. P., Wadhams, A. A., Richmond, T. A., Yang, N., Southey, B. R., Romanova, E. V., Schoofs, L., Baggerman, G. & Sweedler, J. V., May 1 2018, In : Journal of the American Society for Mass Spectrometry. 29, 5, p. 923-934 12 p.

Research output: Contribution to journalArticle

Feedforward compensation mediated by the central and peripheral actions of a single neuropeptide discovered using representational difference analysis

Jing, J., Sweedler, J. V., Cropper, E. C., Alexeeva, V., Park, J. H., Romanova, E. V., Xie, F., Dembrow, N. C., Ludwar, B. C., Weiss, K. R. & Vilim, F. S., Dec 8 2010, In : Journal of Neuroscience. 30, 49, p. 16545-16558 14 p.

Research output: Contribution to journalArticle

Fibrinogen α-chain-derived peptide is upregulated in hippocampus of rats exposed to acute morphine injection and spontaneous alternation testing

Maki, A. E., Morris, K. A., Catherman, K., Chen, X., Hatcher, N. G., Gold, P. E. & Sweedler, J. V., Jun 2014, In : Pharmacology Research and Perspectives. 2, 3, e00037.

Research output: Contribution to journalArticle

Functional Peptidomics: Stimulus- and Time-of-Day-Specific Peptide Release in the Mammalian Circadian Clock

Atkins, N., Ren, S., Hatcher, N., Burgoon, P. W., Mitchell, J. W., Sweedler, J. V. & Gillette, M. U., Aug 15 2018, In : ACS Chemical Neuroscience. 9, 8, p. 2001-2008 8 p.

Research output: Contribution to journalArticle

Genome-wide analyses reveal a role for peptide hormones in planarian germline development

Collins, J. J., Hou, X., Romanova, E. V., Lambrus, B. G., Miller, C. M., Saberi, A., Sweedler, J. V. & Newmark, P. A., Oct 1 2010, In : PLoS biology. 8, 10, e1000509.

Research output: Contribution to journalArticle

Genome-wide census and expression profiling of chicken neuropeptide and prohormone convertase genes

Delfino, K. R., Southey, B. R., Sweedler, J. V. & Rodriguez-Zas, S. L., Feb 1 2010, In : Neuropeptides. 44, 1, p. 31-44 14 p.

Research output: Contribution to journalArticle

Identification of best indicators of peptide-spectrum match using a permutation resampling approach

Akhtar, M. N., Southey, B. R., Andrén, P. E., Sweedler, J. V. & Rodriguez-Zas, S. L., Oct 30 2014, In : Journal of Bioinformatics and Computational Biology. 12, 5, 1440001.

Research output: Contribution to journalArticle

Identification of prohormones and pituitary neuropeptides in the African cichlid, Astatotilapia burtoni

Hu, C. K., Southey, B. R., Romanova, E. V., Maruska, K. P., Sweedler, J. V. & Fernald, R. D., Aug 19 2016, In : BMC genomics. 17, 1, 660.

Research output: Contribution to journalArticle