Abstract

The primary goal of the Bioinformatics Core is to provide a central facility to store, manage and analyze data generated by the research projects of the MGH/MIT Morris Udall Center of Excellence in PD Research. The Core will provide standardized methods for quality control and validation of microarray experiments, provide a centralized database system to store microarray experimental results, provide an integrated analysis system for all projects to access, offer experienced staff to analyze data, and irnplement, update, and develop bioinformatics software tools for microarray analysis and data mining. Data generated by the core will be incorporated into the research database for further analysis and querying by the individual investigators for hypothesis generation. This integration of data sets from the different projects (e.g. cross-species analyses) may generate new insights not visible in individual data sets. The core will also facilitate the sharing of research data, both with collaborators at other Udali Centers as well as with non-Udall investigators and public data repositories. In addition, the core will ensure the fail-safe availability of data generated by the investigators with routine backups and data archiving.
The specific aims are:
Aim 1 : To establish a network-accessible Parkinson's Disease Bioarray Database (PDBD) for data entry, analysis and data sharing.
Aim 2 : To facilitate interactive analyses of the project data and hypothesis generation.

  Funding Agency

Agency
National Institute of Health (NIH)
Institute
National Institute of Neurological Disorders and Stroke (NINDS)
Type
Specialized Center (P50)
Project #
5P50NS038372-10
Application #
7687302
Study Section
Special Emphasis Panel (ZNS1)
Project Start
Project End
Budget Start
2008-09-01
Budget End
2009-08-31
Support Year
10
Fiscal Year
2008
Total Cost
$133,974
Indirect Cost

  Institution

Name
Massachusetts General Hospital
Department
Type
DUNS #
073130411
City
Boston
State
MA
Country
United States
Zip Code
02199

  Publications

Caraveo, Gabriela; Soste, Martin; Cappelleti, Valentina et al. (2017) FKBP12 contributes to ?-synuclein toxicity by regulating the calcineurin-dependent phosphoproteome. Proc Natl Acad Sci U S A 114:E11313-E11322
Beecham, Gary W; Dickson, Dennis W; Scott, William K et al. (2015) PARK10 is a major locus for sporadic neuropathologically confirmed Parkinson disease. Neurology 84:972-80
Nuytemans, Karen; Inchausti, Vanessa; Beecham, Gary W et al. (2014) Absence of C9ORF72 expanded or intermediate repeats in autopsy-confirmed Parkinson's disease. Mov Disord 29:827-30
Hernandez, Ledia F; Kubota, Yasuo; Hu, Dan et al. (2013) Selective effects of dopamine depletion and L-DOPA therapy on learning-related firing dynamics of striatal neurons. J Neurosci 33:4782-95
Lemaire, Nuné; Hernandez, Ledia F; Hu, Dan et al. (2012) Effects of dopamine depletion on LFP oscillations in striatum are task- and learning-dependent and selectively reversed by L-DOPA. Proc Natl Acad Sci U S A 109:18126-31
Tardiff, Daniel F; Tucci, Michelle L; Caldwell, Kim A et al. (2012) Different 8-hydroxyquinolines protect models of TDP-43 protein, ?-synuclein, and polyglutamine proteotoxicity through distinct mechanisms. J Biol Chem 287:4107-20
Klucken, Jochen; Poehler, Anne-Maria; Ebrahimi-Fakhari, Darius et al. (2012) Alpha-synuclein aggregation involves a bafilomycin A 1-sensitive autophagy pathway. Autophagy 8:754-66
Lin, Michael T; Cantuti-Castelvetri, Ippolita; Zheng, Kangni et al. (2012) Somatic mitochondrial DNA mutations in early Parkinson and incidental Lewy body disease. Ann Neurol 71:850-4
Farabaugh, Amy H; Locascio, Joseph J; Yap, Liang et al. (2011) Assessing depression and factors possibly associated with depression during the course of Parkinson's disease. Ann Clin Psychiatry 23:171-7
Chen-Plotkin, Alice S; Martinez-Lage, Maria; Sleiman, Patrick M A et al. (2011) Genetic and clinical features of progranulin-associated frontotemporal lobar degeneration. Arch Neurol 68:488-97

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