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 #
5P30DA018310-09
Application #
8375851
Study Section
Special Emphasis Panel (ZDA1-RXL-E)
Project Start
Project End
Budget Start
2012-06-01
Budget End
2013-05-31
Support Year
9
Fiscal Year
2012
Total Cost
$304,931
Indirect Cost
$104,106
Name
University of Illinois Urbana-Champaign
Department
Type
DUNS #
041544081
City
Champaign
State
IL
Country
United States
Zip Code
61820
Lee, Chang Young; Fan, Yi; Rubakhin, Stanislav S et al. (2016) A neuron-in-capillary platform for facile collection and mass spectrometric characterization of a secreted neuropeptide. Sci Rep 6:26940
Hu, Caroline K; Southey, Bruce R; Romanova, Elena V et al. (2016) Identification of prohormones and pituitary neuropeptides in the African cichlid, Astatotilapia burtoni. BMC Genomics 17:660
Durbin, Kenneth R; Fornelli, Luca; Fellers, Ryan T et al. (2016) Quantitation and Identification of Thousands of Human Proteoforms below 30 kDa. J Proteome Res 15:976-82
Southey, Bruce R; Zhu, Ping; Carr-Markell, Morgan K et al. (2016) Characterization of Genomic Variants Associated with Scout and Recruit Behavioral Castes in Honey Bees Using Whole-Genome Sequencing. PLoS One 11:e0146430
Wu, Qian; Comi, Troy J; Li, Bin et al. (2016) On-Tissue Derivatization via Electrospray Deposition for Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Imaging of Endogenous Fatty Acids in Rat Brain Tissues. Anal Chem 88:5988-95
Gonzalez-Pena, Dianelys; Nixon, Scott E; O'Connor, Jason C et al. (2016) Microglia Transcriptome Changes in a Model of Depressive Behavior after Immune Challenge. PLoS One 11:e0150858
Jansson, Erik T; Comi, Troy J; Rubakhin, Stanislav S et al. (2016) Single Cell Peptide Heterogeneity of Rat Islets of Langerhans. ACS Chem Biol 11:2588-95
Savaryn, John Paul; Skinner, Owen S; Fornelli, Luca et al. (2016) Targeted analysis of recombinant NF kappa B (RelA/p65) by denaturing and native top down mass spectrometry. J Proteomics 134:76-84
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
Livnat, Itamar; Tai, Hua-Chia; Jansson, Erik T et al. (2016) A d-Amino Acid-Containing Neuropeptide Discovery Funnel. Anal Chem 88:11868-11876

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