2006

2005

Martone, M. E., Chen, L., Sargis, J., Tran, J., Grethe, J. and Gupta, A. (2005) Development of an ontology for the subcellular anatomy of the nervous system. Soc. Neuroscience, Abstract, #510.10.

Price DL, Rockenstein E, MacLean NAB, Martone, ME Ellisman MH, Masliah E (2005) Behavioral Deficits and Increased mGluR5 Immunoreactivity in CNS of Transgenic Mice Overexpressing Alpha-synuclein. 7th International Conference on AD/PD, Abstract #352, Sorrento, Italy. (PDF)

Price DL, Rockenstein E, MacLean NAB, Phung V, Martone ME, Masliah E, Ellisman MH (Submitted) Multidisciplinary approaches to characterizing behavioral deficits and altered mGluR5 immunoreactivity in CNS of transgenic mice overexpressing alpha-synuclein Society for Neuroscience, Abstract, #85.15.

2004

Martone ME, Gupta A, Wang Y, Sun L, Zaslavsky I, He H, Price DL, Tran J, Ellisman MH (2004) The Cell Centered Database Project: Advanced Informatics for Federation of Distributed Multi-scale Imaging Data Human Brain Project, Annual Meeting. (PDF)

Martone ME, Zaslavsky I, He H, Tran J, Wang Y, Sun J, Price DL, Ellisman MH, Gupta A (2004) The SMART Atlas: A web-based spatial data management and data mining tool for the mouse brain. Society for Neuroscience, Abstract. (PDF)

Price DL, Chow SK, Hakozaki H, Phung V, Smarr B, Peltier S, Martone ME, Ellisman MH (2004) Application of a Multi-Photon High-Resolution Large-Scale Montage Imaging Technique to Characterize Transgenic Mouse Models of Human Neurodisorders. Microscopy and Microanalysis Abstract, Annual Meeting Savannah, GA. (PDF)

Price DL, Rockenstein E, MacLean NAB, Martone ME, Masliah E, Ellisman MH (2004) Changes in mGluR5 immunoreactivity in CNS of transgenic mice overexpressing alpha-synuclein. Society for Neuroscience Abstract, #561.4. (PDF)

Rodrigues EM, Price DL, MacLean NAB, Martone ME, Bash R, Van Dyke T, Ellisman MH (2004) Diffusely transformed astrocytes by sv40 expression as a model for brain cancer: Alterations in filamentous-actin levels. Society for Neuroscience Abstract, #462.12. (PDF)

2003

Johnson GA, Jacobs R, Toga A, Ellisman MH, Martone ME, MacKenzie-Graham A, Ruffins S, Price DL, Gewalt S, Merchant E, Crawford K, Zhang S, Fehnel M (2003) Multi-Scale Investigations of Animal Models of Human Disease: The Mouse BIRN Project. BISTI Abstract. (PDF)

Martone ME, Gupta A, Zhang S, Santini S, He H, Zaslavsky I, Price DL, Thor A, Terada M, Ellisman MH (2003) Data Mining of neuronal structural and protein localization data using the cell centered database. Society for Neuroscience Abstract, #428.8. (PDF)

Price DL, Martone ME, Masliah E, Ellisman MH (2003) High-Resolution Large Scale 3-D Mapping Studies of Alpha-Synuclein Immunoreactivity in Transgenic Mice Overexpressing Human Alpha-Synuclein. Society for Neuroscience Abstract, #297.10. (PDF)

2002

2001

2006

Kempermann G, Chesler EJ, Lu L, Lein E, Nathanson J, Williams RW, Gage FH (2006) Natural variation and genetic covariance in adult hippocampal neurogenesis. Proc Natl Acac Sci 103:780-785

Price DL, Chow SK, MacLean NAB, Hakozaki H, Peltier S, Martone ME, Ellisman MH (2006) High-Resolution Large-Scale Mosaic Imaging using Multiphoton Microscopy to Characterize Transgenic Mouse Models of Human Neurological Disorders. Neuroinformatics 4(1):65-80.

Williams RW. Genomics and dyslexia: Bridging the gap. In: Developing new pathways in the study of the dyslexic brain, Rosen GD, ed. York Press. In Press.

Williams RW. Animal models in biomedical research: ethics, challenges, and opportunities. In: Principles of molecular medicine, 2nd ed. Runge MS, Patterson C, eds. Humana Press. In Press.

2005

Ali AA, Dale AM, Badea A, Johnson GA (2005) Automated Segmentation of Neuroanatomical Structures in Multispectral MR Microscopy of the Mouse Brain. NeuroImage, Aug 15;27(2):425-35.

Cyr M, Caron MG, Johnson GA, Laakso A (2005) Magnetic resonance imaging at microscopic resolution reveals subtle morphological changes in a mouse model of dopaminergic hyperfunction, NeuroImage, ay 15 2005; 26:83-90.

Lee EF, RE Jacobs, I Dinov, A Leow, AW Toga. (2005) Standard atlas space for C57BL/6J neonatal mouse brain, Anatomy and Embryology, 210:4:245-263.

2004

Martone ME, Gupta A, Ellisman MH (2004) E-neuroscience: challenges and triumphs in integrating distributed data from molecules to brains. Nature Neuroscience 7:467-472. (PDF)

Nash A and Ludäscher B (2004) "Processing Unions of Conjunctive Queries with Negation under Limited Access Patterns", 9th Intl. Conference on Extending Database Technology (EDBT) Heraklion, Crete, Greece, March 2004, to appear in LNCS. (PDF)

2003

Gupta A, Ludäscher B, Grethe JS, and Martone ME (2003) "Towards a Formalization of Disease-Specific Ontologies for Neuroinformatics." Special Issue on Neuroinformatics Neural Networks. (PDF)

Gupta A, Ludascher B, Martone M, Rajasekar A, Ross E, Qian X, Santini S, He H, Zaslavsky I (2003) "BIRN-M: A Semantic Mediator for Solving Real-World Neuroscience Problems." Proceedings of SIGMOD. (PDF)

Ludäscher B, A. Gupta, and M. E. Martone. (2003) "A Model-Based Mediator System for Scientific Data Management." In T. Critchlow and Z. Lacroix, editors, Bioinformatics: Managing Scientific Data. Morgan Kaufmann. (PDF)

Mackenzie-Graham A, Martin M, Jones E, Shattuck D, Jacobs R, Voskuhl R, Toga AW (2003) An atlas of experimental autoimmune encephalomyelitis in the C57BL/6 brain. Society for Neuroscience Nov 2003, New Orleans, LA.

Martone ME, Zhang S, Gupta A, Qian X, He H, Price D, Wong M, Santini S, and Ellisman MH (2003) "The Cell-Centered Database: A database for multiscale structural and protein localization data from light and electron microscopy." Neuroinformatics, 1(3): 379-396.

Peltier ST, Ellisman MH (2003) "The Biomedical Informatics Research Network, The Grid, Blueprint for a New Computing Infrastructure". 2nd edition: Elsevier (in press).

Santini S, Gupta A. (2003) "The role of Internet Imaging in the Biomedical Informatics Research Network." In: Proceedings of SPIE, Vol. 5018 (S. Santini, R. Schettini eds.) San Jose: Internet Imaging IV, January (PDF)

Wang T, Santini S, Amarnath Gupta (2003) "An Interpolated Volume Data Model." VLDB 2002: Oct. (in press)

Zhang S, Price DL, Qian X, Gupta A, Wong M, Ellisman MH, Martone ME (2003) A Cell Centered Database (CCDB) for Multi-Scale Microscopy Data Management. Microscopy and Microanalysis, Proceedings August 3-7, 2003, San Antonio, Texas. (PDF)

2002

Gupta A, Ludäscher B, Martone ME (2002) Registering Scientific Information Sources for Semantic Mediation. In: Proc. 21st International Conference on Conceptual Modeling, (ER). Tampere, Finland. (PDF)

Gupta A, Ludäscher B, Martone ME, Qian X, Ross E, Tran J, Zaslavsky I (2002) A System for Managing Alternate Models in Model-based Mediation. In: British Natl. Conf. on Databases (BNCOD). Sheffield, UK. (PDF)

Gupta A, Ludascher B, Martone ME, Qian X, Ross E, Tran J, Zaslavsky I. (2002) "KIND-2: A System for Managing Alternate Models in Integrated Views". In: 19th British National Conference on Databases (BNCOD). Sheffield, UK.

Ludäscher B, Altintas I, Gupta A (2002) Time to Leave the Trees: From Syntactic to Conceptual Querying of XML. In: Proc. Intl. Workshop on XML Data Management, in conjunction with Intl. Conf. on Extending Database Technology. Prague, Czech Republic. (PDF)

Martone ME, Gupta A, Wong M, Qian X, Sosinsky G, Lamont S, Ludäscher B, Ellisman MH (2002) A Cell-Centered Database for Electron Tomographic Data. Journal of Structural Biology 138:145-155. (PDF)

Martone ME, Gupta A, Ludäscher B, Zaslavsky I, Ellisman MH (2002) Federation of Brain Data through Knowledge-Guided Mediation: Kluwer Academic Publishers. (PDF)

Qian X, Ludäscher B, Martone ME, Gupta A (2002) Navigating Virtual Information Sources with Know-ME. In: Intl. Conference on Extending Database Technology, demonstration track. Prague, Czech Republic. (PDF)

Rajasekar AK, Wan M (2002) SRB & SRB Rack - Components of a Virtual Data Grid Architecture. In: Advanced Simulation Technologies Conference (ASTC02). San Diego, CA. (PDF)

Santini S, Gupta A (2002) GeMBASE: A Geometric Mediator for Brain Analysis with Surface Ensembles. In: 28th Int'l Conference on Very Large Databases. Hong Kong, China.(PDF)

Santini S, Gupta A (2002) Conceptual Integration of Multiple Partial Geometric Models. In: 21st International Conference on Conceptual Modeling. Tampere, Finland. (PDF)

Santini S, Gupta A (2002) Principles of schema design for multimedia databases. IEEE Transactions on Multimedia. (PDF)

2001

Gupta A, Ludäscher B, Martone ME (2001) An Extensible Model-Based Mediator System with Domain Maps. In: 17th Intl. Conference on Data Engineering (ICDE), demonstration track. Heidelberg, Germany. (PDF)

Ludäscher B, Gupta A, Martone ME (2001) Model-Based Mediation with Domain Maps. In: 17th Intl. Conference on Data Engineering (ICDE). Heidelberg, Germany. (PDF)

2000

Gupta A, Ludäscher B, Martone ME (2000) Knowledge-Based Integration of Neuroscience Data Sources. In: 12th Intl. Conference on Scientific and Statistical Database Management (SSDBM). Berlin, Germany. (PDF)

Ludäscher B, Gupta A, Martone ME (2000) Model-Based Information Integration in a Neuroscience Mediator System. In: 26th Intl. Conference on Very Large Databases (VLDB) demo track. Cairo, Egypt.(PDF)

2006

BIRN participants Randy Gallub (BIRN), Jyl Boline (Mouse), Christine Fennema-Notestine (Morphometry), and Jessica Turner (Function) presented at the 17th Annual Spring Brain Conference March 15-18, 2006.

BIRN principal investigators Mark Ellisman (Coordinating Center PDF), Bruce Rosen (Overview PDF, Morphometry PDF), Steven Potkin (Function PDF) and Arthur Toga (Mouse PDF) gave the National Advisory Research Resources Council (NARRC) a detailed update on BIRN's progress Jan. 19 in Bethesda, MD. The presentation was well-received by council members.

Boline  JK, AA Mackenzie-Graham, DW Shattuck, H Yuan, SP Anderson, DM Sforza J Wang, RW Williams, W Wong, ME Martone, I Zaslavsky, AW Toga  2006.   A digital atlas and neuroinformatics framework for query and display of disparate data.  Society for Neuroscience Conference, Atlanta, Oct 14, 2006.

Price DL, E Rockenstein, V Phung NAB Maclean, E Masliah, MH Ellisman 2006.  A Parkinsonian mouse model overexpressing alpha-synuclein: assessment of changes in behavior and glutamate and dopamine receptor immunoreactivity. Society for Neuroscience Conference, Atlanta, Oct 14, 2006.

2005

2004

2003

Zhang S, Price D, Qian X, Gupta A, Ellisman MH, Martone ME (2003) "A Cell Centered Database (CCDB) for Multi-Scale Microscopy Data Management." Microscopy and Microanalysis 2003 (M&M 2003). San Antonio, Texas, August 3-7, 2003. (Presentation)

Zhang S, Qian X, Gupta A, Martone ME (2003) "A Practical Approach for Microscopy Imaging Data Management (MIDM) in Neuroscience." 15th International Conference on Scientific and Statistical Database Management (SSDBM 2003). Cambridge, Massachusetts, July 9-11, 2003. (Presentation)

2002

2001