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.

National Institute of Health (NIH)
National Institute on Drug Abuse (NIDA)
Center Core Grants (P30)
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Special Emphasis Panel (ZDA1-RXL-E)
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University of Illinois Urbana-Champaign
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Yan, Zheng; Han, Mengdi; Shi, Yan et al. (2017) Three-dimensional mesostructures as high-temperature growth templates, electronic cellular scaffolds, and self-propelled microrobots. Proc Natl Acad Sci U S A 114:E9455-E9464
Comi, Troy J; Do, Thanh D; Rubakhin, Stanislav S et al. (2017) Categorizing Cells on the Basis of their Chemical Profiles: Progress in Single-Cell Mass Spectrometry. J Am Chem Soc 139:3920-3929
Mandacaru, Samuel C; do Vale, Luis H F; Vahidi, Siavash et al. (2017) Characterizing the Structure and Oligomerization of Major Royal Jelly Protein 1 (MRJP1) by Mass Spectrometry and Complementary Biophysical Tools. Biochemistry 56:1645-1655
Zhang, Guo; Vilim, Ferdinand S; Liu, Dan-Dan et al. (2017) Discovery of leucokinin-like neuropeptides that modulate a specific parameter of feeding motor programs in the molluscan model, Aplysia. J Biol Chem :
Badea, Adina; McCracken, Joselle M; Tillmaand, Emily G et al. (2017) 3D-Printed pHEMA Materials for Topographical and Biochemical Modulation of Dorsal Root Ganglion Cell Response. ACS Appl Mater Interfaces 9:30318-30328
Comi, Troy J; Neumann, Elizabeth K; Do, Thanh D et al. (2017) microMS: A Python Platform for Image-Guided Mass Spectrometry Profiling. J Am Soc Mass Spectrom 28:1919-1928
Do, Thanh D; Comi, Troy J; Dunham, Sage J B et al. (2017) Single Cell Profiling Using Ionic Liquid Matrix-Enhanced Secondary Ion Mass Spectrometry for Neuronal Cell Type Differentiation. Anal Chem 89:3078-3086
Wu, Qian; Chu, James L; Rubakhin, Stanislav S et al. (2017) Dopamine-modified TiO2 monolith-assisted LDI MS imaging for simultaneous localization of small metabolites and lipids in mouse brain tissue with enhanced detection selectivity and sensitivity. Chem Sci 8:3926-3938
Kang, Somi; Badea, Adina; Rubakhin, Stanislav S et al. (2017) Quantitative Reflection Imaging for the Morphology and Dynamics of Live Aplysia californica Pedal Ganglion Neurons Cultured on Nanostructured Plasmonic Crystals. Langmuir 33:8640-8650
Ong, Ta-Hsuan; Romanova, Elena V; Roberts-Galbraith, Rachel H et al. (2016) Mass Spectrometry Imaging and Identification of Peptides Associated with Cephalic Ganglia Regeneration in Schmidtea mediterranea. J Biol Chem 291:8109-20

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