The proposed Bioinformatics Core will work closely with the biological 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. In addition, the worldwide scientific community will be able to search and download from the completed database through this web portal. A top priority and a major benefit to the users will be custom written analysis software to address the specific needs of the investigators. One project is the development of an intercellular protein / peptide predictor that predicts prohormone cleavage; this facilitates the accurate prediction of the final enzymatic products. This predictor will provide a valuable link between genetic information coding for the long protein prohormones and the products one observes. NeuroProSightPTM will be developed, which is a bioinformatics tool that identifies PTMs in intact proteins through a """"""""top-down"""""""" 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 intercellular signaling. In addition, bioinformatics tools will be written to comprehensively compare data from both microarrays and proteomics experimentation using a range of animal models to gain a better understanding of relationships between the transcriptome and proteome. Together these exciting bioinformatics advances will create new tools to provide new approaches to study intercellular signaling proteins of the brain - essentially theorizing and experimenting """"""""out of the box"""""""".

Agency
National Institute of Health (NIH)
Institute
National Institute on Drug Abuse (NIDA)
Type
Center Core Grants (P30)
Project #
5P30DA018310-05
Application #
7640650
Study Section
Special Emphasis Panel (ZDA1)
Project Start
2008-06-01
Project End
2009-05-31
Budget Start
2008-06-01
Budget End
2009-05-31
Support Year
5
Fiscal Year
2008
Total Cost
$362,534
Indirect Cost
Name
University of Illinois Urbana-Champaign
Department
Type
DUNS #
041544081
City
Champaign
State
IL
Country
United States
Zip Code
61820
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
Tai, Hua-Chia; Checco, James W; Sweedler, Jonathan V (2018) Non-targeted Identification of D-Amino Acid-Containing Peptides Through Enzymatic Screening, Chiral Amino Acid Analysis, and LC-MS. Methods Mol Biol 1719:107-118
Davis, Roderick G; Park, Hae-Min; Kim, Kyunggon et al. (2018) Top-Down Proteomics Enables Comparative Analysis of Brain Proteoforms Between Mouse Strains. Anal Chem 90:3802-3810
Qi, Meng; Philip, Marina C; Yang, Ning et al. (2018) Single Cell Neurometabolomics. ACS Chem Neurosci 9:40-50
Neumann, Elizabeth K; Comi, Troy J; Spegazzini, Nicolas et al. (2018) Multimodal Chemical Analysis of the Brain by High Mass Resolution Mass Spectrometry and Infrared Spectroscopic Imaging. Anal Chem 90:11572-11580
Yang, Ning; Anapindi, Krishna D B; Rubakhin, Stanislav S et al. (2018) Neuropeptidomics of the Rat Habenular Nuclei. J Proteome Res 17:1463-1473
Tillmaand, Emily G; Sweedler, Jonathan V (2018) Integrating Mass Spectrometry with Microphysiological Systems for Improved Neurochemical Studies. Microphysiol Syst 2:
Greenwood, Michael P; Greenwood, Mingkwan; Romanova, Elena V et al. (2018) The effects of aging on biosynthetic processes in the rat hypothalamic osmoregulatory neuroendocrine system. Neurobiol Aging 65:178-191

Showing the most recent 10 out of 227 publications