The Bioinformatics Core will work closely with the major users by providing a customized laboratory sample tracking system, an efficient and quick data pipeline, a tailored project management system, and a web portal to facilitate sharing of experimental results. The Core will convert the data acquired from a range of mass spectrometric platforms into qualitative and quantitative information to address the questions posed by our users. Besides facilitating the analysis of the data for the users using a range of commercial software, several new bioinformatics tools will be created to benefit both local users and the broader neuroscience communities. We will continue the development of NeuroPred, a currently available web-based tool that predicts prohormone cleavages and the resulting signaling peptides. This predictor provides a valuable link between genetic information coding for the protein prohormones and the peptide products one observes. NeuroProSightPTM is another important bioinformatics tool that identifies post-translational modifications in intact proteins from """"""""top-down"""""""" data analysis of absolute masses. The top-down approach will enable investigators to use absolute masses of intact proteins to identify neuropeptides, cytokines, hormones, and other neuron-specific proteins and peptides. Lastly, a unique method of shot-gun peptidomics that combines bioinformatics tools and high accuracy mass measurements will enhance peptide characterization and identification, and will be used across a range of important neuroscience models. Together, the well-planned experiments, existing tools, and new bioinformatics capabilities will create novel approaches and new data on the intercellular signaling molecules found in the brain.

Agency
National Institute of Health (NIH)
Institute
National Institute on Drug Abuse (NIDA)
Type
Center Core Grants (P30)
Project #
5P30DA018310-10
Application #
8471682
Study Section
Special Emphasis Panel (ZDA1-RXL-E)
Project Start
Project End
Budget Start
2013-06-01
Budget End
2014-05-31
Support Year
10
Fiscal Year
2013
Total Cost
$292,532
Indirect Cost
$99,659
Name
University of Illinois Urbana-Champaign
Department
Type
DUNS #
041544081
City
Champaign
State
IL
Country
United States
Zip Code
61820
Zheng, Jianbin; Chen, Long; Skinner, Owen S et al. (2018) ?-Glucocerebrosidase Modulators Promote Dimerization of ?-Glucocerebrosidase and Reveal an Allosteric Binding Site. J Am Chem Soc 140:5914-5924
Zhang, Guo; Yuan, Wang-Ding; Vilim, Ferdinand S et al. (2018) Newly Identified Aplysia SPTR-Gene Family-Derived Peptides: Localization and Function. ACS Chem Neurosci 9:2041-2053
Checco, James W; Zhang, Guo; Yuan, Wang-Ding et al. (2018) Aplysia allatotropin-related peptide and its newly identified d-amino acid-containing epimer both activate a receptor and a neuronal target. J Biol Chem 293:16862-16873
Monroe, Eric B; Annangudi, Suresh P; Wadhams, Andinet A et al. (2018) Exploring the Sea Urchin Neuropeptide Landscape by Mass Spectrometry. J Am Soc Mass Spectrom 29:923-934
Checco, James W; Zhang, Guo; Yuan, Wang-Ding et al. (2018) Molecular and Physiological Characterization of a Receptor for d-Amino Acid-Containing Neuropeptides. ACS Chem Biol 13:1343-1352
Do, Thanh D; Checco, James W; Tro, Michael et al. (2018) 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. Phys Chem Chem Phys 20:22047-22057
Green, Daniel J; Huang, Rong-Chi; Sudlow, Leland et al. (2018) cAMP, Ca2+, pHi, and NO Regulate H-like Cation Channels That Underlie Feeding and Locomotion in the Predatory Sea Slug Pleurobranchaea californica. ACS Chem Neurosci 9:1986-1993
Rodriguez-Zas, Sandra L; Wu, Cong; Southey, Bruce R et al. (2018) Disruption of microglia histone acetylation and protein pathways in mice exhibiting inflammation-associated depression-like symptoms. Psychoneuroendocrinology 97:47-58
Do, Thanh D; Ellis, Joseph F; Neumann, Elizabeth K et al. (2018) Optically Guided Single Cell Mass Spectrometry of Rat Dorsal Root Ganglia to Profile Lipids, Peptides and Proteins. Chemphyschem 19:1180-1191
Atkins Jr, Norman; Ren, Shifang; Hatcher, Nathan et al. (2018) Functional Peptidomics: Stimulus- and Time-of-Day-Specific Peptide Release in the Mammalian Circadian Clock. ACS Chem Neurosci 9:2001-2008

Showing the most recent 10 out of 227 publications