(Cl.) Laser scanning microscopy (LSM), including confocal and 2-photon microscopy, continues to play a central role in many areas of biomedical research. In neuroscience alone, the number of applications continues to grow rapidly. However, in contrast to the ongoing advances made on the hardware aspects of LSM (eg. improved, cheaper light sources, detectors, and scanners), a major limitation to using LSM continues to be the cost and inflexibility of commercial software. Several years ago we introduced Scanlmage, an open source software package for LSM. Scanlmage has been highly successful and is now used by many labs, in particular for 2-photon microscopy. However, new types of cutting-edge applications require new functionality. In addition, it is usually important to combine LSM with other types of digital or analog stimulation or acquisition, such as electrophysiology, underscoring a related, more fundamental need, for an open-source general-purpose data acquisition program. Here, we propose (1) to continue to develop Scanlmage, with a focus on in vivo imaging and (2) to develop Ephus, a new and complementary program for general-purpose laser scanning and data acquisition, such as electrophysiological recording and video imaging. These programs are mostly written in Matlab, with an underlying C-backbone. Future releases of Scanimage will support new types of scanning hardware;improved region-of-interest and related scans;fast z-scanning;and, improved on-line multicolor display. Future releases of Ephus will include support for COD camera -based image acquisition and tools to facilitate easy creation of complex experimental paradigms, such as laser scanning photostimulation based mapping of neural circuits, We will maintain wiki-style documentation for Scanimage and Ephus. We believe that Scanlmage/Ephus will facilitate exciting biological discovery in numerous laboratories. v0, 0-0 0(Q --? CAA N-0 .t? ,-,. .(D (n? 0--u 6-0 aim ..c 11) (1) +-. (cu 07M O-> mom
(no more than two or three sentences, describe the relevance of this research to public health. fl- Laser scanning microscopy and computer-controlled data acquisition are techniques of major importance in many fields of biomedical research. We propose to develop highly flexible software for controlling laser scanning microscopes and general purpose analog and digital data acquisition. We expect these freely available tools to be widely useful for across a broad spectrum of experimental biomedical applications. Northwestern University Department of Physiology Feinberg School of Medicine 303 East Chicago Avenue M21 1) Chicago, Illinois 60611-3008 _.o Lao submitted 6/12/09 NORTH WESTERN UNIVERSITY To Whom It MaCO'y Concern: Principal Investigator Dr. Gordon Shepherd has been informed his ROl grant proposal titled Flexible, open source software for laser scanning microscopy is being considered for ARRA funding and JIT information has been requested. Dr. Shepherd is requestinga total amount of $660,835 ($440,220 directs costs, $220,615 indirect costs) for this revised ARRA grant. Contact information for Dr. Shepherd and Bruce Elliott, the Director of the Office for Sponsored Research and authorized institutional official, is as follows: Gordon Shepherd, Assistant Professor Northwestern University, Feinberg School of Medicine Ward Bldg., Rm. 7-233 303 E. Chicago Ave. Chicago, IL 60611 Tel: 312-503-1342 Email: g-shepherdnorthwestern.edu B ?ce Elliott, Director 'S4 Northwestern University, Office for Sponsored Research 7th Rubloff Bldg., floor 750 N. Lake Shore I)rive Chicago, IL 60611 Tel: 312-503-1780 Email: OSR-Chicago(northwestern.edu The Joseph and Bessie Feinberg Foundation is endowed by Bernard, Louis, Reuben, and Samuel H. Feinberg The McGuw Medical Center of Northwestern University
| Shepherd, Gordon M G (2012) Circuit mapping by ultraviolet uncaging of glutamate. Cold Spring Harb Protoc 2012:998-1004 |
| Suter, Benjamin A; O'Connor, Timothy; Iyer, Vijay et al. (2010) Ephus: multipurpose data acquisition software for neuroscience experiments. Front Neural Circuits 4:100 |
| Pologruto, Thomas A; Sabatini, Bernardo L; Svoboda, Karel (2003) ScanImage: flexible software for operating laser scanning microscopes. Biomed Eng Online 2:13 |
