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Advanced Light Microscopy and Image Analysis Core

Selected References:

Al Kofahi, K.A., S.Lasek, D.H.Szarowski, C.J.Pace, G.Nagy, J.N.Turner, and B.Roysam. 2002. Rapid automated three-dimensional tracing of neurons from confocal image stacks. IEEE Transactions on Information. Technology in Biomedicine. 6(2):171.

Al Kofahi, K.A., A.Can, S.Lasek, D.H.Szarowski, N.Dowell-Mesfin, W.Shain, J.N.Turner, and B.Roysam. 2003. Median-based robust algorithms for tracing neurons from noisy confocal microscope images. IEEE Transactions on Information. Technology in Biomedicine. 7(4):302.

Al Kofahi, O., A.Can, S.Lasek, D.H.Szarowski, J.N.Turner, and B.Roysam. 2003. Algorithms for accurate 3D registration of neuronal images acquired by confocal scanning laser microscopy. Journal of Microscopy. 211 (Pt. 1):8.

Ancin, H., B.Roysam, T.E.Dufresne, M.M.Chestnut, G.M.Ridder, D.H.Szarowski, and J.N.Turner. 1996. Advances in automated 3-D image analyses of cell populations imaged by confocal microscopy. Cytometry. 25:221.

Becker, D.E., H.Ancin, D.H.Szarowski, J.N.Turner, and B.Roysam. 1996. Automated 3-D montage synthesis from laser-scanning confocal images: application to quantitative tissue-level cytological analysis. Cytometry. 25:235.

Can, A., O.Al Kofahi, S.Lasek, D.H.Szarowski, J.N.Turner, and B.Roysam. 2003. Attenuation correction in confocal laser microscopes: a novel two-view approach. Journal of Microscopy. 211:67.

Cole, R.W., C.Mannella, C.Renken, and J.N.Turner. 2006. Intermediate Magnification Imaging System for Whole Organs/Organisms. Microscopy Today.

Dowell-Mesfin, N.M., M.A.Abdul-Karim, A.M.Turner, S.Schanz, H.G.Craighead, B.Roysam, J.N.Turner, and W.Shain. 2004. Topographically modified surfaces affect orientation and growth of hippocampal neurons. Journal of Neural Engineering. 1:78.

Factor, J.R., K.Orban, D.H.Szarowski, G.Lin, T.Larocca, A.Becker, and K.Jacoff-Kapusta. 2005. A method for assessing removal of foreign particles from the blood by fixed phagocytes of the American lobster, Homarus americanus. Journal of Shellfish Research 24:713.

Gangwar, M., R.Cole, R.Ramani, D.J.Sheehan, and V.Chaturvedi. 2006. Application of fluorescent probes to study structural changes in Aspergillus fumigatus exposed to amphotericin B, itraconazole, and voriconazole. Mycopathologia 162:103.

He, W., T.A.Hamilton, A.R.Cohen, T.J.Holmes, C.Pace, D.H.Szarowski, J.N.Turner, and B.Roysam. 2003. Automated three-dimensional tracing of neurons in confocal and brightfield images. Microscopy & Microanalysis. 9(4):296.

Hoch, H.C., C.D.Galvani, D.H.Szarowski, and J.N.Turner. 2005. Two new fluorescent dyes applicable for visualization of fungal cell walls. Mycologia. 97:580.

James, C.D., A.J.Spence, N.M.Dowell-Mesfin, R.J.Hussain, K.L.Smith, H.G.Craighead, M.S.Isaacson, W.Shain, and J.N.Turner. 2004. Extracellular recordings from patterned neuronal networks using planar microelectrode arrays. IEEE Transactions on Biomedical Engineering. 51:1640.

Lin, G., C.S.Bjornsson, K.L.Smith, M.A.Abdul-Karim, J.N.Turner, W.Shain, and B.Roysam. 2005. Automated image analysis methods for 3-D quantification of the neurovascular unit from multichannel confocal microscope images. Cytometry Part A: The Journal of the International Society for Analytical Cytology. 66:9.

Mishra, N.N., S.Retterer, T.J.Zieziulewicz, M.Isaacson, D.Szarowski, D.E.Mousseau, D.A.Lawrence, and J.N.Turner. 2005. On-chip micro-biosensor for the detection of human CD4(+) cells based on AC impedance and optical analysis. Biosensors & Bioelectronics 21:696.

Mohamed, H., L.D.McCurdy, D.H.Szarowski, S.Duva, J.N.Turner, and M.Caggana. 2004. Development of a rare cell fractionation device: application for cancer detection. IEEE Transactions on Nanobioscience. 3:251.

Mohamed, H., A.P.Russo, D.H.Szarowski, E.McDonnell, L.A.Lepak, M.G.Spencer, D.L.Martin, M.Caggana, and J.N.Turner. 2006. Development and characterization of on-chip biopolymer membranes. Journal of Chromatography. 1111:214.

Padala, C., R.Cole, S.Kumar, and R.S.Kane. 2006. Lipid mobility controls the diffusion of small biopolymer adsorbates. Langmuir 22:6750.

Rieder, C.L. and R.W.Cole. 1998. Perfusion chambers for high-resolution video light microscopic studies of vertebrate cell monolayers: some considerations and a design. Methods in Cell Biology 56:253.

Shain, W., S.Kayali, D.Szarowski, M.Davis-Cox, H.Ancin, A.K.Bhattacharjya, B.Roysam, and J.N.Turner. 1999. Application and quantitative validation of computer-automated three-dimensional counting of cell nuclei. Microscopy & Microanalysis. 5(2):106

Sivers, N.L., B.C.Van de Workeen, S.M.Lee, M.Lee, J.N.Turner, and D.H.Szarowski. 2004. Improving fluorescence confocal microscopy with cryogenically-cooled diode lasers. Optics Express 12:4157.

Spataro, L., J.Dilgen, S.Retterer, A.J.Spence, M.Isaacson, J.N.Turner, and W.Shain. 194. Dexamethasone treatment reduces astroglia responses to inserted neuroprosthetic devices in rat neocortex. Experimental Neurology. 289.

Spink, B.C., R.W.Cole, B.H.Katz, J.F.Gierthy, L.M.Bradley, and D.C.Spink. 2006. Inhibition of MCF-7 breast cancer cell proliferation by MCF-10A breast epithelial cells in coculture. Cell Biology International. 30:227.

Szarowski, D.H., M.D.Andersen, S.Retterer, A.J.Spence, M.Isaacson, H.G.Craighead, J.N.Turner, and W.Shain. 2003. Brain responses to micro-machined silicon devices. Brain Research. 983:23.

Turner, J.N., H.Ancin, D.E.Becker, D.H.Szarowski, M.Holmes, N.Oconnor, M.Wang, T.Holmes, and B.Roysam. 1997. Automated image analysis technologies for biological 3d light microscopy. International. Journal of Imaging Systems & Technology. 8:240.

Wallace, W., L.H.Schaefer, and J.R.Swedlow. 2001. A workingperson's guide to deconvolution in light microscopy. Biotechniques. 31:1076.