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Publications

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Biochemistry & Molecular Biology (Membranes, Nucleic Acids, Proteins)

	Excited-state Lifetime Studies of the Three Tryptophan Residues in the N-lobe of Human Serum Transferrin James, N.G., Ross, J.A., Mason, A.B., Jameson, D.M. Protein Science, 2010, 19, 99-110.
	Chain Dynamics of Nascent Polypeptides Emerging from the Ribosome Ellis, J.P., Bakke, C.K., Kirchdoerfer, R.N., Jungbauer, L.M., Cavagnero, S. ACS Chem Biol., 2008, 3(9), 555-66.
	Hydration of the Folding Transition State Ensemble of a Protein Brun, L., Isom, D.G., Velu, P., Garc?a-Moreno, B., Royer, C.A. Biochemistry, 2006, 45(11), 3473-80.
	Chain Dynamics of Nascent Polypeptides Emerging from the Ribosome Ellis, J.P., Bakke, C.K., Kirchdoerfer, R.N., Jungbauer, L.M., Cavagnero, S. ACS Chem Biol., 2008, 3(9), 555-66.
	Reorientational Dynamics of Enzymes Adsorbed on Quartz: A Temperature-Dependent Time-Resolved TIRF Anisotropy Study Czeslik, C., Royer, C., Hazlett, T., Mantulin, W. Biophys. J., 2003, 84, 2533-2541.

Environmental Studies

Real-Time Determination of Picomolar Free Cu(II) in Seawater Using a Fluorescence-Based Fiber Optic Biosensor
Zeng, H.-H., Thompson, R. B., Maliwal, B. P., Fones, G. R., Moffett, J. W., Fierke, C. A.
Anal. Chem., 2003, 75(24), 6807-6812.

Pharmaceutical Chemistry

	Indocyanine Green-Loaded Biodegradable Nanoparticles: Preparation, Physicochemical Characterization and in Vitro Release Saxena, V., Sadoqi, M., Shao., J. Int. J. Pharm., 2004, 278(2), 293-301.
	Enhanced Photo-Stability, Thermal-Stability and Aqueous-Stability of Indocyanine Green in Polymeric Nanoparticulate Systems Saxena, V., Sadoqi, M., Shao., J. J. Photochem. Photobiol., 2004, 74(1) 29-38.
	Degradation Kinetics of Indocyanine Green in Aqueous Solution Saxena, V., Sadoqi, M., Shao., J. J. Pharm Sci.,2003, 92(10), 2090-2097.

Sensors

	Synthesis of Water-Soluble, Ring-Substituted Squaraine Dyes and Their Evaluation as Fluorescent Probes and Labels Tatarets, A.L., Fedyunyayeva, I.A., Dyubko, T.S., Povrozin, Y.A., Doroshenko, A.O., Terpetschnig, E.A., Patsenker, L.D. Anal Chim Acta., 2006, 570(2), 214-23.
	Fatty Acid Sensor for Low-Cost Lifetime-Assisted Ratiometric Sensing Using a Fluorescent Fatty Acid Binding Protein Bartolome, A., Bardliving, C., Rao G., Tolosa L. Analytical Biochemistry, 2005, 34(1), 133-139.
	Dual-Labeled Glucose Binding Protein for Ratiometric Measurements of Glucose Ge, X., Tolosa, L., Rao, G. Analytical Chemistry, 2004, 76(5), 1403-10.
	Reagentless Optical Sensing of Glutamine Using a Dual-Emitting Glutamine-Binding Protein Tolosa, L., Ge, X., Rao, G. Analytical Biochemistry, 2003, 314(2), 199-205.

Biochemistry & Molecular Biology (Membranes, Nucleic Acids, Proteins)

	A New Competitive Fluorescence Assay for the Detection of Patulin Toxin de Champdoré, M., Bazzicalupo, P., De Napoli, L., Montesarchio, D., Di Fabio, G., Cocozza, I., Parracino, A., Rossi, M., D'Auria, S. Anal. Chem., 2007, 79, 751-757.
	Fluorescence of Amphotericin B-Deoxycholate (Fungizone) Monomers and Aggregates and the Effect of Heat-Treatment Stoodley, R., Wasan, K.M., Bizzotto, D. Langmuir, 2007, 23(17), 8718-8725.
	Structural Dynamics of the Actin–Myosin Interface by Site-Directed Spectroscopy Korman, V.L., Anderson, S.E.B., Prochniewicz, E., Titus, M.A., Thomas, D.D. Journal of Molecular Biology, 2006, 356(5), 1107-1117.
	Genetic and Fluorescence Studies of Affinity Maturation in Related Antibodies Pauyo, T., Hilinski, G.J., Chiu, P.T., Hansen, D.E., Choi, Y.J., Ratner, D.I., Shah-Mahoney, N., Southern, C.A., O'Hara, P.B. Molecular Immunology, 2006, 43(7), 812-821.
	A Fluorescence Spectroscopy Study on the Interactions of the TAT-PTD Peptide with Model Lipid Membranes Tiriveedhi, V., Butko, P. Biochemistry, 2007, 46, 3888-3895.
	IIA^Glc Inhibition of Glycerol Kinase: A Communications Network Tunes Protein Motions at the Allosteric Site Yu, P., Lasagna, M., Pawlyk, A.C., Reinhart, G.D., Pettigrew, D.W. Biochemistry, 2007, Printing Pending.
	Inhibition of Amyloid Fibril Formation and Cytotoxicity by Hydroxyindole Derivatives Cohen, T., Frydman-Marom, A., Rechter, M., Gazit, E. Biochemistry, 2006, 45, 4727-4735.
	Phosphorylation of a Single Head of Smooth Muscle Myosin Activates the Whole Molecule Rovner, A.S., Fagnant, P.M., Trybus, K.M. Biochemistry, 2006, 45, 5280-5289.
	Expression and Physicochemical Characterization of an Extracellular Segment of the Receptor Protein Tyrosine Phosphatase IA-2 Primo, M.E., Sica, M.P., Risso, V.A., Poskus, E., Ermácora, M.R. Biochimica et Biophysica Acta (BBA) - Proteins & Proteomics, 2006, 1764(2), 174-181.
	Structural Characterization of Novel Chitin-Binding Lectins from the GenusArtocarpus and Their Antifungal Activity Trindade, M.B., Lopes, J.L.S., Soares-Costa, A., Monteiro-Moreira, A.C., Moreira, R.A., Oliva, M.L.V., Beltramini, L.M. Biochimica et Biophysica Acta (BBA) - Proteins & Proteomics, 2006, 1764(1), 146-152.
	Direct Detection of Calmodulin Tuning By Ryanodine Receptor Channel Targets Using a Ca²⁺-Sensitive Acrylodan-Labeled Calmodulin Fruen, B.R., Balog, E.M., Schafer, J., Nitu, F.R., Thomas, D.D., and Corena, R.L. Biochemistry, 2005, 44, 278-284.
	Reductive and Oxidative DNA Damage by Photoactive Platinum(II) Intercalators Lu, W., Vicic, D.A., Barton, J.K. Inorg. Chem., 2005, 44(22), 7970-7980.
	Improved "Optical Highlighter" Probes Derived from Discosoma Red Fluorescent Protein Robinson, L.C. Biophys. J., 2005, 88, 1444-1457.
	Essential Role for Pro²¹ in Phospholamban for Optimal Inhibition of the Ca-ATPase Li, J., Boschek, C.B., Xiong, Y., Sacksteder, C.A., Squier, T.C., Bigelow, D.J. Biochemistry, 2005, 44(49), 16181-16191.
	Sequence-Specific Fluorescence Detection of DNA by Polyamide-Thiazole Orange Conjugates Fechter, E.J., Olenyuk, B., Dervan, P.B. J. Am. Chem. Soc., 2005, 127(47), 16685-16691.
	Ethanol-Perturbed Amyloidogenic Self-Assembly of Insulin: Looking for Origins of Amyloid Strains Dzwolak, W., Grudzielanek, S., Smirnovas, V., Ravindra, R., Nicolini, C., Jansen, R., Loksztejn, A., Porowski, S., Winter, R. Biochemistry, 2005, 44(25), 8948-8958.
	Probing the Interior of Peptide Amphiphile Supramolecular Aggregates Tovar, J.D., Claussen, R.C., Stupp, S.I. J. Am. Chem. Soc., 2005, 127(20), 7337-7345.
	Reductive and Oxidative DNA Damage by Photoactive Platinum(II) Intercalators Lu, W., Vicic, D.A., Barton, J.K. Inorg. Chem., 2005, 44(22), 7970-7980.
	Structural Uncoupling between Opposing Domains of Oxidized Calmodulin Underlies the Enhanced Binding Affinity and Inhibition of the Plasma Membrane Ca-ATPase Chen, B., Mayer, M.U., Squier, T.C. Biochemistry, 2005, 44(12), 4737-4747.
	Trans Fatty Acid Derived Phospholipids Show Increased Membrane Cholesterol and Reduced Receptor Activation as Compared To Their Cis Analogs Niu, S.-L., Mitchell, D.C., Litman, B.J. Biochemistry, 2005, 44(11), 4458-4465.
	Phospholamban Pentamer Quaternary Conformation Determined by In-Gel Fluorescence Anisotropy Robia, S.L., Flohr, N.C., Thomas, D.D. Biochemistry, 2005, 44(11), 4302-4311.
	Oligomeric State and Mode of Self-Association ofThermotoga maritima Ribosomal Stalk Protein L12 in Solution Moens, P.D.J., Wahl, M.C., Jameson, D.M. Biochemistry, 2005, 44(9), 3298-3305.
	Dynamic Motion of Helix A in the Amino-Terminal Domain of Calmodulin Is Stabilized upon Calcium Activation Chen, B., Mayer, M.U., Markillie, L.M., Stenoien, D.L., Squier, T.C. Biochemistry, 2005, 44(3), 905-914.
	Interaction of the 20 kDa and 63 kDa Fragments of Anthrax Protective Antigen: Kinetics and Thermodynamics Christensen, K.A., Krantz, B.A., Melnyk, R.A., Collier, R.J. Biochemistry, 2005, 44(3), 1047-1053.
	A Detergent-like Mechanism of Action of the Cytolytic Toxin Cyt1A fromBacillus thuringiensis var.israelensis Manceva, S.D., Pusztai-Carey, M., Russo, P.S., Butko, P. Biochemistry, 2005, 44(2), 589-597.
	Structural Uncoupling between Opposing Domains of Oxidized Calmodulin Underlies the Enhanced Binding Affinity and Inhibition of the Plasma Membrane Ca-ATPase Chen, B., Mayer, M.U., Squier, T.C. Biochemistry, 2005, 44(12), 4737-4747.
	Reductive and Oxidative DNA Damage by Photoactive Platinum(II) Intercalators Lu, W., Vicic, D.A., Barton, J.K. Inorg. Chem., 2005, 44(22), 7970-7980.
	Probing the Interior of Peptide Amphiphile Supramolecular Aggregates Tovar, J.D., Claussen, R.C., Stupp, S.I. J. Am. Chem. Soc., 2005, 127(20), 7337-7345.
	Complex Formation Between Plasmid DNA and Self-Aggregates of Deoxycholic Acid-Modified Chitosan Lee, K.Y., Kwon, I.C., Jo, W.H., Jeong, S.Y. Polymer, 2005, 46(19), 8107-8112.
	Heterologous Expression, Characterization and Structural Studies of a Hydrophobic Peptide from the HIV-1 p24 Protein Castilho, P.V., Campana, P.T., Garcia, A.F., Beltramini, L.M., Araújo, A.P.U. Peptides, 2005, 26(2), 243-249.
	Conformation of a Synthetic Antigenic Peptide from HIV-1 p24 Protein Induced by Ionic Micelles Campana, P.T., Beltramini, L.M., Costa-Filho, A.J., Tonarelli, G., Lottersberger, J., Bianconi, M.L. Biophysical Chemistry, 2005, 113(2), 175-182.
	A Nature of Conformational Changes of Yeast tRNA^Phe: High Hydrostatic Pressure Effects Giel-Pietraszuk, M., Barciszewski, J. International Journal of Biological Macromolecules, 2005, 37(3), 109-114.
	Calcium Activation of the Ca-ATPase Enhances Conformational Heterogeneity between Nucleotide Binding and Phosphorylation Domains Chen, B., Squier, T. C., Bigelow, D. J. Biochemistry, 2004, 43(14), 4366-4374.
	Conformational Changes within the Cytosolic Portion of Phospholamban upon Release of Ca-ATPase Inhibition Li, J., Bigelow, D. J., Squier, T. C. Biochemistry, 2004, 43(13), 3870-3879.
	Correlation between Mechanical and Enzymatic Events in Contracting Skeletal Muscle Fiber Shepard, A., Borejdo, J. Biochemistry, 2004, 43(10), 2804-2811.
	Cholesterol Superlattice Modulates the Activity of Cholesterol Oxidase in Lipid Membranes Wang, M. M., Olsher, M., Sugar, I. P., Chong, P. L.-G. Biochemistry, 2004, 43(8), 2159-2166.
	Phospholamban Binds in a Compact and Ordered Conformation to the Ca-ATPase Li, J., Xiong, Y., Bigelow, D. J., Squier, T. C. Biochemistry, 2004, 43(2), 455-463.
	Partitioning of Dual-Lipidated Peptides into Membrane Microdomains: Lipid Sorting vs Peptide Aggregation Janosch, S., Nicolini, C., Ludolph, B., Peters, C., Volkert, M., Hazlet, T. L., Gratton, E., Waldmann, H., Winter, R. J. Am. Chem. Soc., 2004, 126(24), 7496-7503.
	Direct Detection of Phospholamban and Sarcoplasmic Reticulum Ca-ATPase Interaction in Membranes Using Fluorescence Resonance Energy Transfer Mueller, B., Karim, C. B., Negrashov, I. V., Kutchai, H., Thomas, D. D. Biochemistry, 2004, 43(27), 8754-8765.
	DNA Charge Transport: Conformationally Gated Hopping through Stacked Domains O'Neill, M. A., Barton, J. K. J. Am. Chem. Soc., 2004, 126(37), 11471-11483.
	Short-Lived Fluorescence Component of DPH Reports on Lipid-water Interface of Biological Membranes Konopásek, I., Vecer, J., Strzalka, K., Amler, E. Chemistry and Physics of Lipids, 2004, 130, 135-144.
	A Recombinant Glutamine-Binding Protein fromEscherichia coli: Effect of Ligand-Binding on Protein Conformational Dynamics Herman, P., Vecer, J., Scognamiglio, V., Staiano, M., Rossi, M., D'Auria, S. Biotechnol. Prog., 2004, 20(6), 1847-1854.
	High Hydrostatic Pressure Perturbs the Interactions between CF₀F₁ Subunits and Induces a Dual Effect on Activity Souza, M.O., Creczynski-Pasa, T.B., Scofano, H.M., Gräber, P., Mignaco, J.A. The International Journal of Biochemistry & Cell Biology, 2004, 36(5), 920-930.
	Conformational and Enzymatic Changes of 20S Proteasome of Rat Natural Killer Cells Induced by Mono- and Divalent Cations Reshetnyak, Y.K., Kitson, R.P., Lu, M., Goldfarb, R.H. Journal of Structural Biology, 2004, 145(3), 263-271.
	Effects of Ethanol on Lipid Bilayers with and without Cholesterol: The Distearoylphosphatidylcholine System Tran, R., Ho, S., Dea, P. Biophysical Chemistry, 2004, 110(1-2), 39-47.
	Cloning and Characterization of the cDNA for the Brazilian Cratomorphus distinctus Larval Firefly Luciferase: Similarities with European Lampyris noctiluca and Asiatic Pyrocoelia luciferases Viviani, V.R., Arnoldi, F.G.C., Brochetto-Braga, M., Ohmiya, Y. Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology, 2004, 139(2), 151-156.
	Characterization of Lecithin: Cholesterol Acyltransferase Expressed in a Human Lung Cell Line Lane, S.B., Tchedre, K.T., Nair, M.P., Thigpen, A.E., Lacko, A.G. Protein Expression and Purification, 2004, 36(2), 157-164.
	Sequence Specific Fluorescence Detection of Double Strand DNA Rucker, V.C., Foister, S., Melander, C., Dervan, P.B. J. Am. Chem. Soc., 2003, 125(5), 1195-1202.
	Surface Changes and Role of Buried Water Molecules during the Sulfane Sulfur Transfer in Rhodanese and Azotobacter vinelandii: A Fluorescence Quenching and Nuclear Magnetic Relaxation Dispersion Spectroscopic Study Fasano, M., Orsale, M., Melino, S., Nicolai, E., Forlani, F., Rosato, N., Cicero, D., Pagani, S., Paci, M. Biochemistry, 2003, 42, 8550-8557.
	Phosphorylation by cAMP-Dependent Protein Kinase Modulates the Structural Coupling between the Transmembrane and Cytosolic Domains of Phospholamban Li, J., Bigelow, D. J., Squier, T. C. Biochemistry, 2003, 42(36), 10674-10682.
	Evidence for Tryptophan Residues in the Cation Transport Path of the Na⁺,K⁺-ATPase Yudowski, G. A., Bar Shimon, M., Tal, D. M., Gonzalez-Lebrero, R. M., Rossi, R. C., Garrahan, P. J., Beauge, L. A., Karlish, S. J. D. Biochemistry, 2003, 42(34), 10212-10222.
	Quantification of Allosteric Influence of Escherichia coli Phosphofructokinase by Frequency Domain Fluorescence Pham, A.S., Reinharty, G.D. Biophys. J., 2003, 85, 656-666.
	Fluorescence Resonance Energy Transfer Studies on Anthrax Lethal Toxin Croney, J.C., Cunningham, K.M., Collier, R.J., Jameson, D.M. FEBS Letters, 2003, 550, 175-178.
	DNA Cross-Linking with Metallointercalator-Peptide Conjugates Copeland, K.D., Lueras, A.M.K., Stemp, E.D.A., Barton, J.K. Biochemistry, 2002, 41, 12785-12797.
	Structural and Biochemical Characterization of a Fluorogenic Rhodamine-Labeled Malarial Protease Substrate Blackman, M.J., Corrie, J.E., Croney, J.C., Kelly, G., Eccleston, J.F., Jameson, D.M. Biochemistry, 2002, 41, 12244-12252.
	Lateral Diffusion Coefficients in Membranes Measured by Resonance Energy Transfer and a New Algorithm for Diffusion in Two Dimensions Kus´ba, J., Li, L., Gryczynski, I., Piszczek, G., Johnson, M., Lakowicz, J.R. Biophys. J., 2002, 82, 1358-1372.
	Time-Resolved Polarization Imaging By Pump-Probe (Stimulated Emission) Fluorescence Microscopy Buehler, C., Dong, C.Y., So, P.T.C., French, T., Gratton, E. Biophys. J., 2000, 79, 536-549.
	Low Temperature and Pressure Stability of Picornaviruses: Implications for Virus Uncoating Oliveira, A.C., Ishimaru, D., Gonçalves, R.B., Smith, T.J., Mason, P., Sá-Carvalho, D., Silva, J.L. Biophys. J., 1999, 76, 1270-1279.
	Water Dynamics in Glycosphingolipid Aggregates Studied by LAURDAN Fluorescence Bagatolli, L.A., Gratton, E., Fidelio, G.D. Biophys. J., 1998, 75, 331-341.

Environmental Studies

	Hg²⁺ Reacts with Different Components of the NADPH: Protochlorophyllide Oxidoreductase Macrodomains Solymosi, K., Lenti, K., Mysliwa-Kurdziel, B., Fidy, J., Strzalka, K., Böddi, B. Plant Biology, 2004, 6, 358-367.
	Real-Time Determination of Picomolar Free Cu(II) in Seawater Using a Fluorescence-Based Fiber Optic Biosensor Zeng, H.-H., Thompson, R.B., Maliwal, B.P., Fones, G. R., Moffett, J.W., Fierke, C.A. Anal. Chem., 2003, 75(24), 6807-6812.

Nanomaterials & Nanotechnology

	Coordinatively Induced Length Control and Photoluminescence of W18O49 Nanorods Woo, K., Hong, J., Ahn, J.-P., Park, J.-K., Kim, K.J. Inorg. Chem., 2005, 44(20), 7171-7174.
	Physicochemical Characterizations of Self-Assembled Nanoparticles of Glycol Chitosan-Deoxycholic Acid Conjugates Kim, K., Kwon, S., Park, J.H., Chung, H., Jeong, S.Y., Kwon, I.C., Kim, I.-S. Biomacromolecules, 2005, 6(2), 1154-1158.
	Preparation and Characterization of Self-Assembled Nanoparticles of Heparin-Deoxycholic Acid Conjugates Park, K., Kim, K., Kwon, I.C., Kim, S.K., Lee, S., Lee, D.Y., Byun, Y. Langmuir, 2004, 20(26), 11726-11731.

Pharmaceutical Chemistry

	Thermosensitive Poly(organophosphazene) Hydrogels for a Controlled Drug Delivery Kang, G.D., Cheon, S.H., Khang, G., Song, S.-C. European Journal of Pharmaceutics and Biopharmaceutics, in press, Available online 9 March 2006.
	Polycations Enhance Emulsion-Mediated in Vitro and in Vivo Transfection Kim, T.W., Chung, H., Kwon, I.C., Sung, H.C., Shin, B.C., Jeon, S.Y. International Journal of Pharmaceutics, 2005, 295(1-2), 35-45.

Photochemistry & Photobiology

	Fluorescence Lifetimes and Spectral Properties of Protochlorophyllide in Organic Solvents in Relation to the Respective Parameters in Vivo Mysliwa-Kurdziel, B., Kruk, J., Strzalka, K. Photochemistry and Photobiology, 2004, 79(1), 62-67.
	Nanosecond Photoreduction of Cytochrome P450cam by Channel-Specific Ru-diimine Electron Tunneling Wires Dunn, A.R., Dmochowski, I. J., Winkler, J. R., Gray, H.B. J. Am. Chem. Soc., 2003, 125(41), 12450-12456.
	PsbS-Dependent Enhancement of Feedback De-Excitation Protects Photosystem II from Photoinhibition Li, X., Muller-Moulë, P., Gilmore, A.M., Niyogi, K. PNAS, 2002, 99, 15222-15227.

Physical Chemistry

	Daunomycin Binding to Detergent Micelles: A Model System for Evaluating the Hydrophobic Contribution to Drug-DNA Interactions Dignam, J.D., Qu, X., Ren, J., Chaires, J.B. J. Phys. Chem. B, 2007, 111(39), 11576-11584.
	Synthesis, Characterization and Fluorescence Study of Eu(III) Tungstates and Molybdates< De Farias, R.F, Airoldi, C., Belian, M.F., Alvres, Jr., S. Journal of Alloys and Compounds, 2006, 419(1-2), 50-53.
	Preparative Routes to Luminescent Mixed-Ligand Rhenium(I) Dicarbonyl Complexes Smithback, J.L., Helms, J.B., Schutte, E., Woessner, S.M., Sullivan, B.P. Inorg. Chem., 2006, 45(5), 2163-2174.
	Detection of Adsorption of Ru(II) and Os(II) Polypyridyl Complexes on Gold and Silver Nanoparticles by Single-Photon Counting Emission Measurements Glomm, W.R., Moses, S.J., Brennaman, M.K., Papanikolas, J.M., Franzen, S. J. Phys. Chem. B, 2005, 109(2), 804-810.
	Synthesis and Micellar Characteristics of Dendron-PEG Conjugates Chang, Y., Park, C., Kim, K.T., Kim, C. Langmuir, 2005, 21(10), 4334-4339.
	Nanosecond Photoreduction of Cytochrome P450cam by Channel-Specific Ru-diimine Electron Tunneling Wires Dunn, A.R., Dmochowski, I.J., Winkler, J.R., Gray, H.B. J. Am. Chem. Soc., 2003, 125(41), 12450-12456.
	Determination of Diffusion Coefficients of Humic Substances by Fluorescence Correlation Spectroscopy: Role of Solution Conditions Lead, J.R., Starchev, K., Wilkinson, K.J. Environ. Sci. Technol., 2003, 37(3), 482-487.

Sensors

	Long Wavelength Fluorescence Lifetime Standards for Front-Face Fluorometry McCranor, B.J., Thompson, R.B. J. Fluoresc., March 2010, 20(2), 435-440.
	Modeling of Spherical Fluorescent Glucose Microsensor Systems: Design of Enzymatic Smart Tattoos Brown, J.Q., McShane, M.J. Biosens. Bioelectron., 2006, 21(9), 1760-9.
	Coordinatively Induced Length Control and Photoluminescence of W18O49 Nanorods Woo, K., Hong, J., Ahn, J.-P., Park, J.-K., Kim, K.-J. Inorg. Chem., 2005, 44(20), 7171-7174.
	Fatty Acid Sensor for Low-Cost Lifetime-Assisted Ratiometric Sensing Using a Fluorescent Fatty Acid Binding Protein Bartolome, A., Bardliving, C., Rao, G., Tolosa, L. Analytical Biochemistry, 2005, 345(1), 133-139.
	[Ru(bpy)₂(L)]Cl₂: Luminescent Metal Complexes That Bind DNA Base Mismatches Ruba, E., Hart, J. R., Barton, J. K. Inorg. Chem., 2004, 43(15), 4570-4578.
	Short-Lived Fluorescence Component of DPH Reports on Lipid–Water Interface of Biological Membranes Konopásek, I., Vecer, J., Strzalka, K., Amler, E. Chemistry and Physics of Lipids, 2004, 130(2) 135-144.
	Synthesis and Characterization of a Sulfhydryl-Reactive Rhenium Metal-Ligand Complex Dattelbaum, J.D., Abugo, O.O., Lakowicz, J.R. Bioconjug. Chem., 2000, 11(4), 533-536.

Biochemistry & Molecular Biology (Membranes, Nucleic Acids, Proteins)

	From the Cover: Side-chain Hydrophobicity Scale Derived From Transmembrane Protein Folding Into Lipid Bilayers Moon, C.P., Fleming, K.G. Proc. Natl. Acad. Sci. U.S.A., 2011, 108(25), 10174-7.
	Specificity in DNA Recognition by a Peptide from Papillomavirus E2 Protein Faber-Barata, J., Mohana-Borges, R., Lima, L.M. T.R. FEBS Letters, 2006, 580(8), 1919-1924.
	The Asymmetry in the Mature Amino-Terminus of ClpP Facilitates a Local Symmetry Match in ClpAP and ClpXP Complexes Bewley, M.C., Graziano, V., Griffin, K., Flanagan, J.M. Journal of Structural Biology, 2006, 153(2), 113-128
	Methane Monooxygenase Hydroxylase and B Component Interactions Zhang, J., Wallar, B.J., Popescu, C.V., Renner, D.B., Thomas, D.D., Lipscomb, J.D. Biochemistry, 2006, 45(9), 2913-2926.
	The SRC-3/AIB1 Coactivator Is Degraded in a Ubiquitin- and ATP-Independent Manner by the REGγ Proteasome Li, X., Lonard, D.M., Jung, S.Y., Malovannaya, A., Feng, Q., Qin, J., Tsai, S.Y., Tsai, M.-J., O'Malley, B.W. Cell, 2006, 124(2), 381-392.
	Target Structure-Based Discovery of Small Molecules that Block Human p53 and CREB Binding Protein Association Sachchidanand, Resnick-Silverman, L., Yan, S., Mutjaba, S., Liu, W.-J., Zeng, L., Manfredi J.J., Zhou, M.M. Chemistry & Biology, 2006, 13(1), 81-90.
	Supramolecular Fluorophores for Biological Studies: Phenylene Vinylene-Amino Acid Amphiphiles Harrington, D.A., Behanna, H.A., Tew, G.N., Claussen, R.C., Stupp, S.I. Chemistry & Biology, 2005, 12(10), 1085-1091.
	Förster Resonance Energy Transfer Measurements Are Consistent with a Helical Bundle Model for Lipid-Free Apolipoprotein Brouillette, C.G., Dong, W.-J., Yang, Z.W., Ray, M.J., Protasevich, I.I., Cheung, H.C., Engler, J.A. Biochemistry, 2005, 44(50), 16413-16425.
	Probing the Interior of Peptide Amphiphile Supramolecular Aggregates Tovar, J.D., Claussen, R.C., Stupp, S.I. J. Am. Chem. Soc., 2005, 127(20), 7337-7345.
	Measurements of Internal Distance Changes of the 30 S Ribosome Using FRET with Multiple Donor-Acceptor Pairs: Quantitative Spectroscopic Methods Majumdar, Z.K., Hickerson, R., Noller, H.F., Clegg, R.M. Journal of Molecular Biology, 2005, 351(5), 1123-1145.
	Acid- and Pressure-Induced (Un)folding of Yeast Glutathione reductase: Competition Between Protein Oligomerization and Aggregation Morais, A.C.S., Chapeaurouge, A., Ferreira, S.T. The International Journal of Biochemistry & Cell Biology, 2005, 37(9), 1890-1899.
	A Bioactive Titanium Foam Scaffold for Bone Repair Spoerke, E.D., Murray, N.G., Li, H., Brinson, L.C., Dunand, D.C., Stupp S.I. Acta Biomaterialia, 2005, 1(5), 523-53.
	Effect of Modification of the Length and Flexibility of the Acyl Carrier Protein-Thioesterase Interdomain Linker on Functionality of the Animal Fatty Acid Synthase Joshi, A.K., Witkowski, A., Berman, H.A., Zhang, L., Smith, S. Biochemistry, 2005, 44(10), 4100-4107.
	Site-Directed Fluorescence Labeling Reveals Differences on the R-Conformer of Glucosamine 6-Phosphate Deaminase of Escherichia coli Induced by Active or Allosteric Site Ligands at Steady State Sosa-Peinado, A., Gonzalez-Andrade, M. Biochemistry, 2005, 44(46), 15083-15092.
	Separating the Contribution of Translational and Rotational Diffusion to Protein Association Kuttner, Y.Y., Kozer, N., Segal, E., Schreiber, G., Haran, G. J. Am. Chem. Soc., 2005, 127(43), 15138-15144.
	Reversible Equilibrium Unfolding of Triosephosphate Isomerase from Trypanosoma cruzi in Guanidinium Hydrochloride Involves Stable Dimeric and Monomeric Intermediates Chanez-Cardenas, M.E., Perez-Hernandez, G., Sanchez-Rebollar, B.G., Costas, M., Vazquez-Contreras, E. Biochemistry, 2005, 44(32), 10883-10892.
	Acyl-Coenzyme A Binding Protein Expression Alters Liver Fatty Acyl-Coenzyme A Metabolism Huang, H., Atshaves, B.P., Frolov, A., Kier, A.B., Schroeder, F. Biochemistry, 2005, 44(30), 10282-10297.
	Structural and Functional Characterization of Mycobacterium tuberculosis CmtR, a PbII/CdII-Sensing SmtB/ArsR Metalloregulatory Repressor Wang, Y., Hemmingsen, L., Giedroc, D.P. Biochemistry, 2005, 44(25), 8976-8988.
	Oligomeric State and Mode of Self-Association of Thermotoga maritima Ribosomal Stalk Protein L12 in Solution Moens, P.D.J., Wahl, M.C., Jameson, D.M. Biochemistry, 2005, 44(9), 3298-3305.
	A Detergent-like Mechanism of Action of the Cytolytic Toxin Cyt1A from Bacillus thuringiensis var. israelensis Manceva, S.D., Pusztai-Carey, M., Russo, P.S., Butko, P. Biochemistry, 2005, 44(2), 589-597.
	Domain Study of Bacteriophage P22 Coat Protein and Characterization of the Capsid Lattice Transformation by Hydrogen/Deuterium Exchange Kang, S., Prevelige, Jr., P.E. Journal of Molecular Biology, 2005, 347(5), 935-948.
	Entamoeba histolytica: Inhibition of Cellular Functions by Overexpression of EhGEF1, a Novel Rho/Rac Guanine Nucleotide Exchange Factor Aguilar-Rojas, A., De Jesús Almaraz-Barrera, M., Krzeminski, M., Robles-Flores, M., Hernández-Rivas, R., Guillén, N., Maroun, R.C., Vargas, M. Experimental Parasitology, 2005, 109(3), 150-162.
	Effect of pH and Ionic Strength on the Cytolytic Toxin Cyt1A: a Fluorescence Spectroscopy Study Manceva, S.D., Pusztai-Carey, M., Butko, P. Biochimica et Biophysica Acta (BBA) - Proteins & Proteomics, 2004, 1699(1-2), 123-130.
	Inhibition of Yeast Glutathione Reductase by Trehalose: Possible Implications in Yeast Survival and Recovery from Stress Sebollela, A., Louzada, P.R., Sola-Penna, M., Sarone-Williams, V., Coelho-Sampaio, T., Ferreira, S.T. The International Journal of Biochemistry & Cell Biology, 2004, 36(5), 900-908.
	Effects of Protein Kinase C Dependent Phosphorylation and a Familial Hypertrophic Cardiomyopathy-Related Mutation of Cardiac Troponin I on Structural Transition of Troponin C and Myofilament Activation Kobayashi, T., Dong, W.-J., Burkart, E.M., Cheung, H.C., Solaro, R.J. Biochemistry, 2004, 43(20), 5996-6004.
	Conserved Cysteine 126 in Triosephosphate Isomerase Is Required Not for Enzymatic Activity but for Proper Folding and Stability Gonzalez-Mondragon, E., Zubillaga, R.A., Saavedra, E., Chanez-Cardenas, M.E., Perez-Montfort, R., Hernandez-Arana, A. Biochemistry, 2004, 43(11), 3255-3263.
	Liver Fatty Acid-Binding Protein Colocalizes with Peroxisome Proliferator Activated Receptor and Enhances Ligand Distribution to Nuclei of Living Cells Huang, H., Starodub, O., McIntosh, A., Atshaves, B.P., Woldegiorgis, G., Kier, A.B., Schroeder, F. Biochemistry, 2004, 43(9), 2484-2500.
	The Biotin Repressor: Modulation of Allostery by Corepressor Analogs Brown, P.H., Cronan, J.E., Grøtli, M., Beckett, D. Journal of Molecular Biology, 2004, 337(4), 857-869.
	Detection of Tryptophan to Tryptophan Energy Transfer in Proteins Moens, P.D.J., Helms, M.K., Jameson, D.M. The Protein Journal, 2004, 23(1), 79-83.
	Cdc42 Regulates the Par-6 PDZ Domain through an Allosteric CRIB-PDZ Transition Peterson, F.C., Penkert, R.R., Volkman, B.F., Prehoda, K.E. Molecular Cell, 2004, 13(5), 665-676.
	Time-resolved Fluorescence Anisotropy Studies Show Domain-specific Interactions of Calmodulin with IQ Target Sequences of Myosin V Bayley P., Martin S., Browne P., Royer C. Eur Biophys J., 2003, 32(2), 122-7.
	The 2'-O- and 3'-O-Cy3-EDA-ATP(ADP) Complexes with Myosin Subfragment-1 are Spectroscopically Distinct Oiwa, K., Jameson, D.M., Croney, J.C., Davis, C.T., Eccleston, J.F., Ansonz, M. Biophys. J., 2003, 84, 634-642.
	Persistent Conformational Heterogeneity of Triosephosphate Isomerase: Separation and Characterization of Conformational Isomers in Solution Moreau, V.H., Rietveld, A.W. M., Ferreira, S.T. Biochemistry, 2003, 42(50), 14831-14837.
	Sterol Carrier Protein-2 Selectively Alters Lipid Composition and Cholesterol Dynamics of Caveolae/Lipid Raft vs Nonraft Domains in L-Cell Fibroblast Plasma Membranes Atshaves, B.P., Gallegos, A.M., McIntosh, A.L., Kier, A.B., Schroeder, F. Biochemistry, 2003, 42(49), 14583-14598.
	Ablation of the Liver Fatty Acid Binding Protein Gene Decreases Fatty Acyl CoA Binding Capacity and Alters Fatty Acyl CoA Pool Distribution in Mouse Liver Martin, G.G., Huang, H., Atshaves, B.P., Binas, B., Schroeder, F. Biochemistry, 2003, 42(39), 11520-11532.
	The Mechanism of Ras GTPase Activation by Neurofibromin Phillips, R.A., Hunter, J.L., Eccleston, J.F., Webb, M.R. Biochemistry, 2003, 42(13), 3956-3965.
	Structural and Biochemical Characterization of a Fluorogenic Rhodamine-Labeled Malarial Protease Substrate Blackman, M.J., Corrie, J.E., Croney, J.C., Kelly, G., Eccleston, J.F., Jameson, D.M. Biochemistry, 2002, 41, 12244-12252.
	Modulation of Pig Kidney Na+/K+-ATPase Activity by Cholesterol: Role of Hydration Sotomayor, C.P., Aguilar, L.F., Cuevas, F.J., Helms, M.K., Jameson, D.M. Biochemistry, 2000, 39, 10928-10935.

High Pressure Cell Measurements

	Determination of the Activation Volume of PLCβ by Gβγ-Subunits through the Use of High Hydrostatic Pressure Scarlata, S. Biophys. J., 2005, 88, 2867-2874.
	Determination of the Volume Changes for Pressure-Induced Transitions of Apomyoglobin between the Native, Molten Globule, and Unfolded States Vidugiris, G.J.A., Royer, C.A. Biophys. J., 1998, 75, 463-470.

Nanomaterials & Nanotechnology

	Size Controlled Nano Meter Phase Structure in Thin Films of Blend Polythiophene Derivatives Cui, H.-N., Teixeira, V., Zhang, J., Lee, H. Thin Solid Films, 2006, 515(1), 301-306.
	Polymer/Gold Nanoparticle Nanocomposite Light-Emitting Diodes: Enhancement of Electroluminescence Stability and Quantum Efficiency of Blue-Light-Emitting Polymers Park, J.H., Lim, Y.T., Park, O.O., Kim, J.K., Yu, J.-W., Kim, Y.C. Chem. Mater., 2004, 16(4), 688-692.
	Probing Single-Stranded DNA Conformational Flexibility Using Fluorescence Spectroscopy Murphy, M.C., Rasnik, I., Cheng, W., Lohman, T.M., Ha, T. Biophys. J., 2004, 86, 2530-2537.
	Effects of Surface Passivation on Silicon Nanoparticle Photoluminescence Harwell, D.E., Croney, J.C., Qin, W., Thornton, J.T., Day, J.H., Hajime, E.K., Jameson, D.M. Chemistry Letters, 2003, 32(12), 1194-1195.

Pharmaceutical Chemistry

	A High-Throughput Resonance Energy Transfer Assay for Staphylococcus aureus DNA Ligase Benson, E.L., Tomich, P.K., Wolfe, M.L., Choi, G.H., Hagadorn, J.C., Mutchler, V.T., Garlick, R.L. Analytical Biochemistry, 2004, 324(2), 298-300.
	Kinase Inhibitors: Not Just for Kinases Anymore McGovern, S.L., Shoichet, B.K. J. Med. Chem., 2003, 46(8), 1478-1483.

Physical Chemistry

	On the Use of Theoretical Tools in the Study of Photophysical Properties of the New Eu(fod)3 Complex with Diphenbipy Dos Santos, E.R., dos Santos, M.A., Freire, R.O., Júnior, S.A., Barreto, L.S., de Mesquita, M.E. Chemical Physics Letters, 2006, 418(4-6), 337-341.
	Spectroscopic Properties of the Eu(fod)3Phen–NO Incorporated Carboxylate Glass Beltrão, M.A., Santos, M.L., Mesquita, M.E., Barreto, L.S., da Costa, Jr., N.B., Freire, R.O., dos Santos, M.A.C. Journal of Luminescence, 2006, 116(1-2), 132-138.
	White Light Emission From a Polymer Bilayer by Incomplete Cascade Energy Transfer Park, J.H., Park, O.O., Kim, J.K., Yu, J.-W., Kim, Y.C. Current Applied Physics, 2006, 6(4), 640-643.
	White Polymer Light-Emitting Devices From Ternary-Polymer Blend with Concentration Gradient Park, J.H., Lee, T.-W., Kim, Y.C., Park, O.O., Kim, J.K. Chemical Physics Letters, 2005, 403(4-6), 293-297.
	α-Crystallin Binding in Vitro to Lipids from Clear Human Lenses Grami, V., Marrero, Y., Huang, L., Tang, D., Yappert, M.C., Borchman, D. Experimental Eye Research, 2005, 81(2), 138-146.
	Remote and Adjacent Excited-State Electron Transfer At TiO2 Interfaces Sensitized to Visible Light with Ru(II) Compounds Liu, F., Meyer, G. J. Inorg. Chem., 2005, 44(25), 9305-93.
	Spectroscopic Studies of the Intermolecular Interactions of Congo Red and Tinopal CBS with Modified Cellulose Fibers Yamaki, S.B., Barros, D.S., Garcia, C.M., Socoloski, P., Oliveira, Jr., O.N., Atvars, Langmuir, T.D.Z. 2005, 21(12), 5414-5420.
	Diffusion of a Single Component in a Binary Polymer Blend Upon Annealing Monitored by Fluorescence Microspectroscopy De Andrade, M.L., Atvars, T.D.Z. Macromolecules, 2004, 37(25), 9626-9630.
	Photophysical Study in Blends of Poly(alkyl methacrylate-Co-styrene)/Polystyrene De Andrade, M.L., Atvars, T.D.Z. Macromolecules, 2004, 37(24), 9096-9108.
	Optoelectronic and Photophysical Properties of Polyfluorene Blends as Side-Chain Length and Shape Byun, H. Y., Chung, I. J., Shim, H.-K., Kim, C. Y. Macromolecules, 2004, 37(18), 6945-6953.
	Hole-Transporting Property of a Chemically Hybridized Poly(vinylcarbazole)-Fullerene Park, J.H., Park, O.O., Kim, J., Yu, J.-W., Kim, J.K., Kim, Y.C. Current Applied Physics, 2004, 4(6), 659-662.
	Surface Treatment to Enhance the Quantum Efficiency of Semiconductor Nanocrystals Jang, E., Jun, S., Chung, Y., Pu, L. J. Phys. Chem. B., 2004, 108(15), 4597-4600.
	Dynamic and Static Fluorescence Spectroscopy Applied to Miscibility of Poly(n-butyl methacrylate-co-styrene) with Polystyrene and Morphological Analysis by Epifluorescence Microscopy De Andrade, M.L., Atvars, T.D.Z. J. Phys. Chem. B., 2004, 108(13), 3975-3984.
	Photo and Electroluminescence Studies of Poly(methyl methacrylate-co-9-anthryl methyl methacrylate) De Deus, J.F., Andrade, M.L., Atvars, T.D.Z., Akcelrud, L. Chemical Physics, 2004, 297(1-3), 177-186.
	The Effects of Alkyl Side-Chain Length and Shape of Polyfluorenes on the Photoluminescence Spectra and the Fluorescence Lifetimes of Polyfluorene Blends with Poly(n-vinylcarbazole) Byun, H.Y., Chung, I.J., Shim, H.-K., Kim, C.Y. Chemical Physics Letters, 2004, 393(1-3), 197-203.
	Photophysical Study of a Conjugated-non-Conjugated PPV-Type Electroluminescent Copolymer Machado, A.M., Da Motta Neto, J.D., Cossiello, R.F., Atvars, T.D.Z., Ding, L., Karasz, F.E., Akcelrud, L. Polymer, 2005, 46(8), 2452-2460.
	Enhanced Light Output in Bilayer Light-Emitting Diodes with Film Thickness Variations Park, J.H., Lee, K.-J., Park, O.O., Yu, J.-W., Kim, Y.C., Kim, J.K. Chemical Physics Letters, 2004, 386 (1-3),101-104.
	Orbital Control of the Color and Excited State Properties of Formylated and Fluorinated Derivatives of Azulene Shevyakov, S.V., Li, H., Muthyala, R., Asato, A.E., Croney, J.C., Jameson, D.M., Liu, R.S.H. J. Phys. Chem. A., 2003, 107(18), 3295-3299.
	Immobilized Particle Arrays: Coalescence of Planar- and Suspension-Array Technologies Stevens, P.W., Wang, C. H. J., Kelso, D.M. Anal. Chem., 2003, 75(5), 1141-1146.

Sensors

	Individual Metal Ligands Play Distinct Functional Roles in the Zinc Sensor Staphylococcus aureus CzrA Pennella, M.A., Arunkumar, A.I., Giedroc, D.P. Journal of Molecular Biology, 2006, 356(5), 1124-1136.
	Structural Insights into Homo- and Heterotropic Allosteric Coupling in the Zinc Sensor S. aureus CzrA from Covalently Fused Dimers Lee, S., Arunkumar, A.I., Chen, X., Giedroc, D.P. J. Am. Chem. Soc., 2006, 128(6), 1937-1947.

Biochemistry

	Applications of Dual-Color Fluorescence Cross-Correlation Spectroscopy in Antibody Binding Studies Ruan, Q., Tetin, S.Y. Anal. Biochem., 2008.
	Fructose-1,6-bisphosphate Acts Both as an Inducer and as a Structural Cofactor of the Central Glycolytic Genes Repressor (CggR) Zorrilla, S., Chaix, D., Ortega, A., Alfonso, C., Doan, T., Margeat, E., Rivas, G., Aymerich, S., Declerck, N., Royer, C.A. Biochemistry, 2007, 46(51), 14996-15008.
	Escherichia coli Ribosomal Protein L20 Binds as a Single Monomer to its Own mRNA Bearing Two Potential Binding Sites Allemand, F., Haentjens, J., Chiaruttini, C., Royer, C., Springer, M. Nucleic Acids Research, 2007, 35(9), 3016-3031.
	Interactions of Two Monoclonal Antibodies with BNP: High Resolution Epitope Mapping Using Fluorescence Correlation Spectroscopy Tetin, S.Y., Ruan, Q., Saldana, S.C., Pope, M.R., Chen, Y., Wu, H., Pinkus, M.S., Jiang, J., Richardson, P.L. Biochemistry, 2006, 45(47), 14155-65.
	Quantitative Detection of the Ligand-dependent Interaction Between the Androgen Receptor and the Co-activator, Tif2, in Live Cells Using Two Color, Two Photon Fluorescence Cross-correlation Spectroscopy Rosales, T., Georget, V., Malide, D., Smirnov, A., Xu, J., Combs C., Knutson, J.R., Nicolas, J.-C., Royer, C.A. Eur. Biophys. J., 2006.
	How the Molecule Number Is Correctly Quantified in Two-Color Fluorescence Cross-Correlation Spectroscopy: Corrections for Cross-Talk and Quenching in Experiments Földes-Papp, Z. Current Pharmaceutical Biotechnology, 2005, 6, 437-444.
	The Nuclear Receptor Coactivator PGC-1α Exhibits Modes of Interaction with the Estrogen Receptor Distinct From those of SRC-1 Bourdoncle, A., Labesse, G., Margueron, R., Castet, A., Cavaillès, V., Royer, C.A. J. Mol. Biol., 2005, 347, 921-934.
	Phosphoinositide Specificity of and Mechanism of Lipid Domain Formation by Annexin A2-p11 Heterotetramer Gokhale, N.A., Abraham, A., Digman, M.A., Gratton, E., Cho, W. J. Biol. Chem., 2005, 280(52), 42831-42840.
	Vesicle Encapsulation Studies Reveal that Single Molecule Ribozyme Heterogeneities Are Intrinsic Okumus, B., Wilson, T.J., Lilley, D.M.J., Ha, T. Biophys. J., 2004, 87, 2798-2806.
	Pleckstrin Homology Domain Diffusion in Dictyostelium Cytoplasm Studied Using Fluorescence Correlation Spectroscopy Ruchira, Hink, M.A., Bosgraaf, L., Van Haastert, P.J.M., Visser, A.J.W.G. The Journal of Biological Chemistry, 2004, 279(11), 10013-10019.
	Polarized Fluorescence Correlation Spectroscopy of DNA-DAPI Complexes Barcellona, M.L., Gammon, S., Hazlett, T., Digman, M.A., Gratton, E. Microscopy Research and Techniques, 2004, 65, 205-217.
	Segregation of Saturated Chain Lipids in Pulmonary Surfactant Films and Bilayers Nag, K., Pao, J.-S., Harbottle, R.R., Possmayer, F., Petersen, N.O., Bagatolli, L.A. Biophys. J., 2002, 82, 2041-2051.
	Molecular Heterogeneity of O-Acetylserine Sulfhydrylase by Two-Photon Excited Fluorescence Fluctuation Spectroscopy Chirico, G., Bettati, S., Mozzarelli, A., Chen, Y., Müller, J.D., Gratton, E. Biophys. J., 2001, 80, 1973-1985.

Diagnostics & Sensing

	Application of Fluorescence Correlation Spectroscopy to Hapten-Antibody Binding Hazlett, T.L., Ruan, Q., Tetin, S.Y. Methods in Molecular Biology, 2005, 305, 415-438.
	Antibodies in Diagnostic Applications Tetin, S.Y., Stroupe, S.D. Current Pharmaceutical Biotechnology, 2004, 5, 9-16.
	Fluorescence Correlation Spectroscopy Assay for Gliadin in Food Varriale, A., Rossi, M., Staiano, M., Terpetschnig, E., Barbieri, B., Rossi, M., D'Auria, S. Anal Chem. 2007, 79(12), 4687-4689.

FLIM, Fluorescence Lifetime Imaging

	Endothelial Adhesion Receptors Are Recruited to Adherent Leukocytes by Inclusion in Preformed Tetraspanin Nanoplatforms Barreiro, O., Zamai, M., Yáñez-Mó, M., Tejera, E., López-Romero, P., Monk, P.N., Gratton, E., Caiolfa, V.R., Sánchez-Madrid, F. J. Cell Biol., 2008, 183(3), 527-542.
	Monomer Dimer Dynamics and Distribution of GPI-Anchored uPAR are Determined by Cell Surface Protein Assemblies Caiolfa, V.R., Zamai1, M., Malengo, G., Andolfo, A., Madsen, C.D., Sutin, J., Digman, M.A., Gratton, E., Blasi1, F., Sidenius, N. J. Cell Biol., 2007, 179, 1067-1082.

General Theory

	Confocal Fluctuation Spectroscopy and Imaging Földes-Papp, Z., Liao, S.-C.J., You, T., Terpetschnig, E., Barbieri, B. Current Pharmaceutical Biotechnology, 2010, 11, 639-653.
	Fluorescence Fluctuation Spectroscopy: Ushering in a New Age of Enlightenment for Cellular Dynamics Jameson, D.M., Ross, J.A., Albanesi, J.P. Biophys. Rev., 2009.

Nanomaterials & Surface Physics

	How to Stabilize Phospholipid Liposomes (Using Nanoparticles) Zhang, L., Granick, S. Nano Lett., 2006(6), 4, 694-698.
	Slaved Diffusion in Phospholipid Bilayers Zhang, L., Granick, S. PNAS, 2005(102), 26, 9118-9121.
	How Confined Lubricants Diffuse During Shear Mukhopadyay, A., Bae, S.C., Zhao, J., Granick, S. Physical Review Letters, 2004, 93, 236105.
	Polymer Lateral Diffusion at the Solid-Liquid Interface Zhao, J., Granick, S. J. Am. Chem. Soc., 2004, 126, 6242-6243.

N&B (Number and Brightness)

	Reconciling Molecular Regulatory Mechanisms with Noise Patterns of Bacterial Metabolic Promoters in Induced and Repressed States Ferguson, M.L., Le Coq, D., Jules, M., Aymerich, S., Ovidiu., R., Declerck, N., Royer, C.A. PNAS, 2012, 109(1), 155-160.
	Absolute Quantification of Gene Expression in Individual Bacterial Cells Using Two-Photon Fluctuation Microscopy Ferguson, M.L., Le Coq, D., Jules, M., Aymerich, S., Declerck, N., Royer, C.A. Anal Biochem., 2011, 419, 250-259.

Particle Tracking

Nanometer-Scale Optical Imaging of Collagen Fibers Using Gold Nanoparticles
Chen, B., Estrada, L.C., Hellriegel, C., Gratton, E.
Biomedical Optics Express, 2011(2), 3, 511-519.

Photon Counting Histogram

	Fluorescence Correlation Spectroscopy and Photon Counting Histogram on Membrane Proteins: Functional Dynamics of the Glycosylphosphatidylinositol-Anchored Urokinase Plasminogen Activator Receptor Malengo, G., Andolfo, A., Sidenius, N., Gratton, E., Zamai, M., Caiolfa, V.R. J. Biomed. Opt., 2008, 13(3), 031215.
	Unraveling Protein-Protein Interactions in Living Cells with Fluorescence Fluctuation Brightness Analysis Chen, Y., Wei, L.-N., Müller, J.D. Biophys. J., 2005, 88, 4366-4377.
	Dual-Color Photon-Counting Histogram Chen, Y., Tekmen, M., Hillesheim, L., Skinner, J., Wu, B., Müller, J.D. Biophys. J., 2005, 88, 2177-2192.

Single Molecule Studies and Theory

	Fluorescence Molecular Counting for Single-Molecule Studies in Crowded Environment of Living Cells without and with Broken Ergodicity Földes-Papp, Z., Baumann, G. Curr. Pharm. Biotechnol., 2011, 12(5), pp. 824-833.
	Single Actomyosin Motor Interactions in Skeletal Muscle Földes-Papp, Z., Liao, S.-C., Barbieri, B., Gryczynski Jr., K., Luchowski, R., Gryczynski, Z., Gryczynski, I., Borejdo, J., You, T. Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, May 2011, 1813(5), 858-866.
	Meaningful Interpretation of Subdiffusive Measurements in Living Cells (Crowded Environment) by Fluorescence Fluctuation Microscopy Baumann, G., Place, R.F., Földes-Papp, Z. Current Pharmaceutical Biotechnology, 2010, 11, 527-543.
	Anomalous Behavior in Length Distributions of 3D Random Brownian Walks and Measured Photon Count Rates Within Observation Volumes of Single-Molecule Trajectories in Fluorescence Fluctuation Microscopy Baumann, G., Gryczynski, I., Földes-Papp, Z. Optics Express, 2010, 18(17), 17883-17896.
	Getting High on Single Molecule Biophysics Block, S.M. Current Pharmaceutical Biotechnology, 2009, 10(5), 464-466.
	Reducing Background Contributions in Fluorescence Fluctuation Time-Traces for Single-Molecule Measurements in Solution Földes-Papp, Z., Liao, S.-C.J., You, T., Barbieri, B. Current Pharmaceutical Biotechnology, 2009, 10, 532-542.
	Fluorescence Fluctuation Spectroscopic Approaches to the Study of a Single Molecule Diffusing in Solution and a Live Cell without Systemic Drift or Convection: A Theoretical Study Földes-Papp, Z. Current Pharmaceutical Biotechnology, 2007, 8, 261-273.
	Mobility and Distribution of Replication Protein A in Living Cells at Single Molecule Level Braet, C., Stephan, H., Dobbie, I., Togashi, D., Ryder, A.G., Földes-Papp, Z., Lowndes, N., Nasheuer., H.P. Experimental & Molecular Pathology, 2007, 82(2), 156-62.
	"True" Single-Molecule Molecule Observations by Fluorescence Correlation Spectroscopy and Two-Color Fluorescence Cross-correlation Spectroscopy Földes-Papp, Z. Experimental and Molecular Pathology, 2007, 82, 147-155.
	What It Means to Measure a Single Molecule in a Solution by Fluorescence Fluctuation Spectroscopy Földes-Papp, Z. Experimental and Molecular Pathology, 2006, 80, 209-218.
	How the Molecule Number Is Correctly Quantified in Two-Color Fluorescence Cross-Correlation Spectroscopy: Corrections for Cross-Talk and Quenching in Experiments Földes-Papp, Z. Current Pharmaceutical Biotechnology, 2005, 6, 437-444.
	Single-Phase Single-Molecule Fluorescence Correlation Spectroscopy (SPSM-FCS) Földes-Papp, Z., Baumann, G., Kinjo, M., Tamura, M. Encyclopedia of Medical Genomics and Proteomics, 2005, 1-7.

Instrumentation and Methods

	A Brief Review on the History of Human Functional Near-Infrared Spectroscopy (fNIRS) Development and Fields of Application Ferrari, M., and Quaresima, V. NeuroImage, 2012.
	Feasibility of intracranial near-infrared optical scanning. Gratton G, Maier JS, Fabiani M, Mantulin WW, Gratton E. Psychophysiology. 1994 Mar;31(2):211-5. PMID: 8153259
	Quantitative determination of the absorption spectra of chromophores in strongly scattering media: a light-emitting-diode based technique. Fantini, S., Franceschini, M.A., Fishkin, J.B., Barbieri, B., and Gratton, E. Applied Optics 33: 5204-5213, 1994
	Possible Correlation between Blood Glucose Concentration and Reduced Scattering Coefficient of Tissues in the Near-Infrared. Maier JS, Walker SA, Fantini S, Franceschini MA and Gratton E. Opt Lett 19: 2062-2064, 1994
	Semi- Infinite-Geometry Boundary Problem for Light Migration in Highly Scattering Media: a Frequency- Domain Study in the Diffusion Approximation. Fantini S, Franceschini MA, and Gratton E. B11: 2128-2138, 1994
	Frequency-Domain Method for Determining Spectral Properties in Multiply Scattering Media: Methemoglobin Absorption Spectrum in a Tissue-Like Phantom. Fishkin JB, So PTC, Cerussi AE, Fantini S, Franceschini MA, and Gratton E. Appl Opt 34: 1143- 1155, 1995
	Frequency-domain multichannel optical detector for non-invasive tissue spectroscopy and oximetry. Fantini, S., Franceschini, M.A., Maier, J.S., Walker, S.A., Barbieri, B., and Gratton, E. Opt. Eng. 34: 32-42, 1995
	Optical Study of the skeletal muscle during exercise with a second generation frequency-domain tissue oximeter. Franceschini, M. A., Wallace, D., Barbieri, B., Fantini, S., Mantulin, W.W., Pratesi S., Donzelli, G.P., and Gratton, E. Proc. of SPIE, Vol. 2979, (1997), pp. 807-814.
	Quantitative spectroscopic determination of hemoglobin concentration and saturation in a turbid medium: analysis of the effect of water absorption. Franceschini, M. A., Fantini, S., Cerussi, A., Barbieri, B., Chance B., and Gratton, E. J. of Biomed. Opt., Vol. 2, (1997), pp. 147-153.
	Influence of a superficial layer in the quantitative spectroscopic study of strongly scattering media. Franceschini, M.A., Fantini, S., Paunescu, L.A., Maier, J., and Gratton, E. Applied Optics, Vol. 37, No. 1, (1998), pp. 7447-7458.
	Frequency-Domain Optical Measurements in Vitro on Two- and Three-Layered Tissue-Like Phantoms and in Vivo on Infant Heads M. A. Franceschini, A. Paunescu, S. Fantini, S. Pratesi, J. S. Maier, G. P. Donzelli, and E. Gratton. OSA Trends in Optics and Photonics on Advances in Optical Imaging and Photon Migration, J. G. Fujimoto and M. Patterson, eds., (Optical Society of America, Washington, DC 1998), Vol XXI, pp. 232-236.
	New optical probe designs for absolute self calibrating NIR tissue hemoglobin measurements. Hueber, D., Fantini, S., Cerussi, A., and Barbieri, B. Proc. of SPIE, Vol. 3597, (1999), pp. 618-631.
	Near infrared spectroscopy and the tilting table protocol: a novel method to study the blood flow and the oxygen consumption in tissues. Casavola, C., Paunescu, L.A., Franceschini, M.A., Fantini, S., Winter, L., Kim, J., Wood, D., Gratton, E. Proc. Of SPIE, Vol. 3597, (1999), pp. 685-692.
	Near infrared absorption and scattering spectra of tissues in vivo. Franceschini, M.A., Gratton, E., Hueber, D., and Fantini, S. SPIE Proc., Vol. 3597, (1999), pp. 526-531.
	Noninvasive optical method of measuring tissue and arterial saturation: an application to absolute pulse oximetry of the brain. M. A. Franceschini, E. Gratton, and S. Fantini Opt. Lett. 24: 829-83, 1999
	In vitro correlation between reduced scattering coefficient and hemoglobin of human blood determined by near-infrared spectroscopy Paunescu, L.A., A. Michalos, J. H. Choi, U. Wolf, M. Wolf and E. Gratton. SPIE Proc. 4250: 319-326, 2001
	Absolute frequency-domain pulse oximetry of the brain: Methodology and measurements. Wolf, M., M.A. Franceschini, L.A. Paunescu, V. Toronov, A. Michalos, U. Wolf, E. Gratton and S. Fantini. Adv Exp Med Biol 530: 61-73, 2003
	Noninvasive determination of the optical properties of adult brain: Near infrared spectroscopy approach. Jee Hyun Choi, Martin Wolf, Vlad Toronov, Ursula Wolf, Chiara Polzonetti, Dennis Hueber, Larisa P. Safonova, Rajarsi Gupta, Antonios Michalos, William Mantulin, and Enrico Gratton. J Biomed Opt. 9(1): 221-9, 2004
	Optical measurements of absorption changes in two-layered diffusive media F. Fabbri, A. Sassaroli, M. E. Henry, and S. Fantini. Phys. Med. Biol. 49: 1183-1201, 2004
	Multi-source phased-array approach to improve the spatial resolution in frequency-domain diffuse optical imaging Ning Liu Zucker, M. Fantini, S. Lasers and Electro-Optics May 2004 Volume: 2, 3 pp.
	Absolute Near-Infrared Brain Oximeter. Michalos A, Gupta R, Safonova LP, Lera M, Olopade CO, Mantulin WW, Hueber DM, Barbieri B, Picchietti D, Greeley D, Gratton E. 7th Annual NIH SBIR/STTR Conference. July 28-29, 2005
	Modulation of an optical needle's reflectivity alters the average photon path through scattering media Paul Simonson, Enrico D'Amico, and Enrico Gratton J. Biomed. Opt. 11(1): 14023-31, 2006

Muscle Oxygenation and Hemodynamics

Muscle Studies
	Cerebral and muscle oxygen saturation measurement by a frequency-domain near-infrared spectroscopic technique. Ferrari, M., De Blasi, R.A., Fantini, S., Franceschini, M.A., Barbieri, B., Quaresima, V., and Gratton, E. Proc. of SPIE, Vol. 2389, (1995), pp. 868-874.
	Cerebral and muscle oxygen saturation measurement by frequency-domain near-infrared spectrometer. De Blasi, R.A., Fantini, S., Franceschini, M.A., Ferrari, M., and Gratton, E. Med Biol Eng Comput 33: 228-230,1995
	In vivo study of human tissues with a portable near-infrared tissue spectrometer. Maier, J.S., Barbieri, B., Chervu, A., Chervu, I., Fantini, S., Franceschini, M.A., Levi, M., Mantulin, W.W., Rosenberg, A., Walker, S.A., and Gratton, E. Proc. of SPIE, Vol. 2387, (1995), pp. 240-248.
	Quadriceps oxygenation changes during walking and running on a treadmill. Quaresima, V., Pizzi, A., De Blasi, R., Ferrari, A., and Ferrari, M. Proc. of SPIE, Vol. 2387, (1995), pp. 249-256.
	O2 consumption-O2 delivery relationship and arteriolar resistance in the forearm of critically ill patients measured by near infrared spectroscopy. De Blasi RA, Ferrari M, Antonelli M, Conti G, Almenrader N, Gasparetto A. Shock. 1996 Nov;6(5):319-25. PMID: 8946645
	Oxidative metabolism in muscle. M. Ferrari, T. Binzoni, V. Quaresima, Philosophical Transactions of the Royal Society B: Biological Sciences. 352(1354): 677 - 683, 1997
	Difference in leg muscles oxygenation during treadmill exercise by a new near infrared frequency domain oximeter. Quaresima, V., Franceschini, M.A., Fantini, S., Gratton, E., and Ferrari, M. Proc. SPIE, Vol. 3194, (1998), pp. 116-120.
	Comparison between near-infrared oximetry and 99mTc-HMPAO uptake in the resting peripheral muscle under normobaric normoxia and hypobaric hypoxia Marco Pagani, Ralf Ansjon, Folke Lind, Cathrine Jonsson, Johan Uusijarvi, Gamze Sumen, Hans Jacobsson, Stig A. Larsson. Proceedings of SPIE. 3194: 151-158, 1998
	Calf muscle blood flow and oxygen consumption measured with near infrared spectroscopy during venous occlusion. Paunescu, L.A., Casavola, C., Franceschini, M.A., Fantini, S., Winter, L., Kim, J., Wood, D., Gratton, E. SPIE Proc., Vol. 3597, (1999), pp. 317-323.
	Scattering coefficient-hemoglobin concentration relation determined by frequency-domain spectroscopy during venous occlusion. Paunescu, L.A., U. Wolf, M. Wolf, A. Michalos and E. Gratton. Optical Society of America Biomedical Topics: TuD2, 363-365, 2000
	Mapping of oxy-hemoglobin and deoxy-hemoglobin changes of the human calf during venous occlusion. Wolf, U., M. Wolf, J.H. Choi, L.A. Paunescu, A. Michalos, V. Toronov and E. Gratton. Proc. 28th Ann Mtg International Society on Oxygen Transport to Tissue (ISOTT), Ed. B. Oeseburg, Pabst Sci Pub; p:5, 2000
	Mapping of hemodynamics on the human calf with near infrared spectroscopy and the influence of the adipose tissue thickness. Wolf, U., M. Wolf, J.H. Choi, L.A. Paunescu, L.P. Safonova, A. Michalos and E. Gratton. Adv Exp Med Biol 510: 225-230, 2003
	Spatial distribution of vastus lateralis blood flow and oxyhemoglobin saturation measured at the end of isometric quadriceps contraction by multi-channel near-infrared spectroscopy. Quaresima V, Ferrari M, Franceschini MA, Hoimes ML, Fantini S. J Biomed. Optics 9(2): 413-20, 2004
	Microvascular dysfunction and skeletal muscle oxygenation assessed by phase-modulation near-infrared spectroscopy in patients with septic shock. De Blasi RA, Palmisani S, Alampi D, Mercieri M, Romano R, Collini S, Pinto G. Intensive Care Med. 2005 Dec;31(12):1661-8. Epub 2005 Oct 5. PMID: 16205889
	Effects of fibre orientation, myoglobin redox form, and postmortem storage on NIR tissue oximeter mearuments of beef longissimus muscle Mohan, A., Hunt, M.C., Barstow, T.J., Houser, T.A., Bopp, C., Hueber, D.M Meat Science 84 (2010) 79-85

Peripheral Vascular Disease (PVD)
	Quantitative near infrared spectroscopy on patients with peripheral vascular disease. Franceschini, M. et. al. Proc. of SPIE, Vol. 3194, (1998), pp. 112-115.
	Near infrared spectroscopy in the evaluation of lower limb ischemia in hemodialysis patients. Choudhury, D., Michener, B., Fennelly, P., and Levi, M. Journal of Vascular Technol. 23: 21-23, 1999
	Near infrared spectroscopy in the early detection of peripheral vascular disease. Choudhury, D., Michener, B., Fennelly, P., and Levi, M. Journal of Vascular Technol. 23: 109-113, 1999
	Summary of the results of a 95 subject human clinical trial for the diagnosis of peripheral vascular disease using a near infrared frequency domain hemoglobin spectrometer. Wallace, D., Michener, B., Choudhury, D., Levi, M., Fennelly, P., Hueber, D., and Barbieri, B. Proc. of SPIE, Vol. 3597, (1999), pp. 300-316.
	Localized irregularities in hemoglobin flow and oxygenation in the calf muscle in patients with peripheral vascular disease detected by near-infrared spectrophotometry. Wolf, U., M. Wolf, J. H. Choi, M. Levi, D. Choudhury, S. Hull, D. Coussirat, L.A. Paunescu, L.P. Safonova, A. Michalos, W.W. Mantulin and E. Gratton. J Vasc Surg 37(5): 1017-1026, 2003

Sport Medicine
	The endurance training effect on the oxygenation status of an isometrically contracted forearm muscle Anton Usaj Pflügers Archiv European Journal of Physiology 442 (7): r155-r156, 2001
	Differences in the oxygenation of the forearm muscle during isometric contraction in trained and untrained subjects. Usaj A. Cell Mol Biol Lett. 7(2):375-7, 2002
	The Influence of Adipose Tissue Thickness on Near-Infrared Spectrometry during Intra-contraction Knee Extension Exercise Townsend, Dana; Ferreira, Leonardo; Lutjemeier, Barbara; Barstow, Thomas Medicine & Science in Sports & Exercise. 36(5) Supplement May 2004 p S23
	Muscle Oxygenation during Incremental Exercise and Recovery: Implications of Assuming Constant Scattering Ferreira, Leonardo Franklin; Hueber, Dennis M.; Lutjemeier, Barbara J.; Townsend, Dana K.; Barstow, Thomas Medicine & Science in Sports & Exercise. 37(5) Supplement May 2005 p S361
	Muscle capillary blood flow kinetics estimated from pulmonary O2 uptake and near-infrared spectroscopy. Ferreira LF, Townsend DK, Lutjemeier BJ, Barstow TJ. J Appl Physiol. 2005 May;98(5):1820-8. Epub 2005 Jan 7. PMID: 15640391
	Muscle contraction-blood flow interactions during upright knee extension exercise in humans. Lutjemeier BJ, Miura A, Scheuermann BW, Koga S, Townsend DK, Barstow TJ. J Appl Physiol. 2005 Apr;98(4):1575-83. Epub 2004 Nov 19. PMID: 15557016
	Dynamics of skeletal muscle oxygenation during sequential bouts of moderate exercise. Ferreira LF, Lutjemeier BJ, Townsend DK, Barstow TJ. Exp Physiol. 2005 May;90(3):393-401. Epub 2005 Feb 11. PMID: 15708875
	Kinetics of estimated human muscle capillary blood flow during recovery from exercise. Ferreira LF, Harper AJ, Townsend DK, Lutjemeier BJ, Barstow TJ. Exp Physiol. 2005 Sep;90(5):715-26. Epub 2005 May 20. PMID: 15908509
	Kinetics of restoration of arteriolar tone after exercise. Barstow TJ, Lutjemeier BJ, Ferreira LF. J Appl Physiol. 2005 Aug;99(2):775. No abstract available. PMID: 16020445
	Effects of pedal frequency on estimated muscle microvascular O2 extraction. Ferreira LF, Lutjemeier BJ, Townsend DK, Barstow TJ. Eur J Appl Physiol. 2006 Mar;96(5):558-63. Epub 2005 Dec 21. PMID: 16369819
	Human femoral artery and estimated muscle capillary blood flow kinetics following the onset of exercise. Harper AJ, Ferreira LF, Lutjemeier BJ, Townsend DK, Barstow TJ. Exp Physiol. 2006 Jul;91(4):661-71. Epub 2006 Mar 23. PMID: 16556660
	Frequency Analysis of Muscle Contraction and NIRS Variables: Implications for Tissue Gas Exchange Lutjemeier, Barbara J.; Ferreira, Leonardo F.; Townsend, Dana K.; Barstow, Thomas J. Medicine & Science in Sports & Exercise. 38(5) Supplement: S248, 2006
	Muscle microvascular hemoglobin concentration and oxygenation within the contraction-relaxation cycle Lutjemeier, B.J., Ferreira, L.F., Poole, D.C., Townsend, D., Barstow, T.J Respiratory Physiology & Neurobiology 160 (2008) 131-138
	Pattern of deoxy{Hb + Mb} during ramp cycle exercise: Influence of aerobic fitness status. Boone, J, Koppo, K, Barstow, T, Bouckaert, J. Eur. J. Appl. Physiol. 105(6): 851-859, 2009

Tissue Oxygenation and Hemodynamics

Animal Studies
	Non-Invasive Optical Monitoring of the Newborn Piglet Brain Using Continuous-Wave and Frequency-Domain Methods S. Fantini, D. Hueber, M. A. Franceschini, E. Gratton, W. Rosenfeld, P. G. Stubblefield, D. Maulik, and M. R. Stankovic. Phys. Med. Biol. 44:1543-1563, 1999
	Non-invasive optical mapping of the piglet brain in real time. S. Fantini, M.A. Franceschini, E. Gratton, D. Hueber, W. Rosenfeld, D. Maulik, P. Stubblefield, M.R. Stankovic; Optics Express. 4(8), 308-314, 1999.
	Role of frequency domain optical spectroscopy in the detection of neonatal brain hemorrhage - A newborn piglet study. Stankovic, MR., Maulik D., Rosenfeld, W., Stubblefield, PG., Kofinas, AD., Gratton, E., Franceschini, MA., Fantini, S., and Hueber, D. J Matern. Fetal Med. 9: 2-149, 2000.
	Lagged covariance structure models for studying functional connectivity in the brain E. Rykhlevskaia, M. Fabiani, and G. Gratton NeuroImage, 30, 1203-1218 (2006).
	Hemodynamic evaluation of the female sexual arousal response in an animal model. Min K, Munarriz R, Berman J, Kim NN, Goldstein I, Traish AM, Stankovic MR. J Sex Marital Ther. 2001 Oct-Dec;27(5):557-65. PMID: 11554219
	Near-Infrared Spiroximetry: Non-Invasive Measurement of Venous Saturation in Piglets and Human Subjects. M. A. Franceschini, D. A. Boas, A. Zourabian, S. G. Diamond, S. Nadgir, D. W. Lin, J. B. Moore, and S. Fantini, J. Appl. Physiol. 92: 2-384, 2002.
	Human arginase II: crystal structure and physiological role in male and female sexual arousal. Cama E, Colleluori DM, Emig FA, Shin H, Kim SW, Kim NN, Traish AM, Ash DE, Christianson DW. Biochemistry. 2003 Jul 22;42(28):8445-51. PMID: 12859189
	Near-infrared frequency-domain optical spectrometry (NIRS) and magnetic resonance imaging (MRI): a combined approach to studying cerebral maturation of neonatal rabbits. D'Arceuil HE, Hotakainen MP, Liu C, Themelis G, deCrespigny AJ, Franceschini MA. Journal of Biomedical Optics 10(1): 011011. 2005.

Human Brain Studies and Applications in Medicine and Surgery
	Cerebral and muscle oxygen saturation measurement by a frequency-domain near-infrared spectroscopic technique. Ferrari, M., De Blasi, R.A., Fantini, S., Franceschini, M.A., Barbieri, B., Quaresima, V., and Gratton, E. Proc. of SPIE, Vol. 2389, (1995), pp. 868-874.
	Cerebral and muscle oxygen saturation measurement by frequency-domain near-infrared spectrometer. De Blasi, R.A., Fantini, S., Franceschini, M.A., Ferrari, M., and Gratton, E. Med Biol Eng Comput 33, 228-230 (1995).
	Brain oxygenation monitoring during cardiopulmonary bypass by near infrared spectroscopy. De Blasi RA, Almenrader N, Ferrari M. Adv Exp Med Biol. 1997;413:97-104 PMID: 9238490
	Measurements of Scattering and Absorption Changes in Muscle and Brain. E. Gratton, S. Fantini, M. A. Franceschini, G. Gratton, and M. Fabiani. Phil. Trans. R. Soc. of Lond. B 35 727-735, 1997.
	Near infrared spectroscopy and transcranial Doppler in monohemispheric stroke. Vernieri F, Rosato N, Pauri F, Tibuzzi F, Passarelli F, Rossini PM. Eur Neurol. 1999;41(3):159-62. PMID: 10202248
	Evaluation of Vascular Steal with Near Infrared Spectroscopy. Choudhury D, Levi M, Fennelly P. J Am Soc Nephrol, A1028, 1999
	Maps of cerebral hemoglobin concentration changes obtained by near-infrared spectroscopy. Characterization of phase shifts among locations Wolf, M., V. Toronov, U. Wolf, L.A. Paunescu, A. Michalos and E. Gratton. Optical Society of America Biomedical Topics: TuF6, 416-418, 2000
	Near-infrared study of fluctuations in cerebral hemodynamics during rest and motor stimulation: temporal analysis and spatial mapping. Toronov, V., M.A. Franceschini, M. Filiaci, S. Fantini, M. Wolf, A. Michalos and E. Gratton. Med. Phys. 27(4): 801-815, 2000
	Correlation between oxy-hemoglobin and deoxy-hemoglobin concentration changes in the visual and motor cortex during stimulation and a review of fast functional changes: A near-infrared spectroscopy study. Wolf, M., U. Wolf, V. Toronov, A. Michalos, L.A. Paunescu, J.H. Choi and E. Gratton. Proc. 28th Ann Mtg International Society on Oxygen Transport to Tissue (ISOTT), Ed. B. Oeseburg, Pabst Sci Pub; p:1, 2000
	Cerebral Hemodynamics Measured by Near-Infrared Spectroscopy at Rest and During Motor Activation M. A. Franceschini, S. Fantini, V. Toronov, M. E. Filiaci, E. Gratton OSA In Vivo Optical Imaging Workshop, A. Gandjbakhche ed., (Optical Society of America, Washington, DC 2000), 73-80, 2000.
	Monitoring Brain Activity Using Near-Infrared Light S. Fantini, P. Aggarwal, K. Chen, and M. A. Franceschini American Laboratory 33(20):15-17, 2001
	Study of local cerebral hemodynamics by frequency-domain near-infrared spectroscopy and correlation with simultaneously acquired functional magnetic resonance imaging. Vladislav Toronov, Andrew Webb, Jee Hyun Choi, Martin Wolf, Larisa Safonova, Ursula Wolf, and Enrico Gratton Optics Express 9(8): 417-427, 2001
	Investigation of human brain hemodynamics by simultaneous near-infrared spectroscopy and functional magnetic resonance imaging. Toronov, V., A .Webb, J.H. Choi, M. Wolf, A. Michalos, E. Gratton and D. Hueber. Med Phys; 28(4): 521-7, 2001
	Non-invasive and quantitative near-infrared hemoglobin spectrometry in the piglet brain during hypoxic stress, using a frequency-domain multi-distance instrument. D. M. Hueber; M A. Franceschini; H. Y. Ma; Q. Zhang; J. R. Ballesteros; S. Fantini; D. Wallace; Ntziachristos; B. Chance. Phys. Med. Biol. 4:, 41-42, 2001.
	Non-invasive determination of optical properties of adult brain with frequency domain near-infrared spectroscopy. Choi, J.H, M. Wolf, U. Wolf, C. Polzonetti, L.P. Safonova, R. Gupta, A. Michalos, W.W. Mantulin, V. Toronov, D.M. Hueber and E. Gratton. Optical Society of America Biomedical Topics: SuD33, 144-147, 2002
	Bilateral near-infrared monitoring of the cerebral concentration and oxygen-saturation of hemoglobin during right unilateral electro-convulsive therapy. F. Fabbri, M. E. Henry, P. F. Renshaw, S. Nadgir, B. L. Ehrenberg, M. A. Franceschini, and S. Fantini. Brain Research 99: 193-204, 2003
	Transcranial Doppler and Near-Infrared Spectroscopy Can Evaluate the Hemodynamic Effect of Carotid Artery Occlusion Vernieri F, Tibuzzi F, Pasqualetti P, Rosato N, Passarelli F, Rossini PM, Silvestrini M. Stroke. 2004 Jan;35(1):64-70. Epub 2003 Dec 18 PMID: 14684777
	Noninvasive monitoring of red blood cell transfusion in very low birthweight infants using diffuse optical spectroscopy. Cerussi A, Van Woerkom R, Waffarn F, Tromberg B. J Biomed Opt. 2005 Sep-Oct;10(5):051401. PMID: 16292938
	Do women see things differently than men do? Jausovec, N., Jausovec, K. NeuroImage (2008), doi:10.1016/j.neuroimage.2008.11.013

Obstructive Sleep Apnea Syndrome
	Assessment of cerebral oxygenation and hemodynamics in obstructive sleep apnea syndrome. Michalos, A., L.A. Paunescu, M. Wolf, U. Wolf, V. Toronov, M.A. Franceschini, S. Fantini and E. Gratton. Optical Society of America Biomedical Topics: SuH16, 163-165, 2000
	Age correlated changes in cerebral hemodynamics assessed by near-infrared spectroscopy. Safonova, L.P., A. Michalos, D.M. Hueber, U. Wolf, M. Wolf, Jee H. Choi, R. Gupta, C. Polzonetti, B. Barbieri, W.W. Mantulin and E. Gratton. Optical Society of America Biomedical Topics: SuD35, 149-151, 2002
	Reduced cerebral hemodynamic response in sleep disorders: A NIRS frequency domain study. Michalos, A., L.P. Safonova, D.M. Hueber, U. Wolf, M. Wolf, J.H. Choi, R. Gupta, C. Polzonetti, B. Barbieri, W.W. Mantulin and E. Gratton. Optical Society of America. Biomedical Topics: MA1, 248-250, 2002
	Evaluation of brain oxygenation and hemodynamics by near-infrared spectroscopy. Michalos, A., L.P. Safonova, U. Wolf, M. Wolf, J.H. Choi, R. Gupta, W.W. Mantulin, D.M. Hueber, B. Barbieri and E. Gratton. Obstructive Sleep Apnea: SLEEP 25(suppl): 547.R, A390-391, 2002
	Near-infrared spectroscopy for diagnosis and screening of cerebrovascular morbidity in obstructive sleep apnea syndrome. Michalos, A., L.P. Safonova, J.H. Choi, R. Gupta, C. Polzonetti, M. Calderon and E. Gratton. Proceedings, II International Symposium : "Shedding New Light on Disease: Optical Diagnostics for the New Millennium." p. 16, June 23-27, 2002, Reims, France
	Near-infrared spectroscopy and polysomnography during aal-night sleep in human subjects S. Fantini, P. Aggarwal, K. Chen, M. A. Franceschini, and B. L. Ehrenberg Proc. SPIE 5068: 155-162, 2003.
	Near-infrared brain oximetry in obstructive sleep apnea syndrome. Michalos, A., L.P Safonova, J.H. Choi, B. Barbieri, E. Gratton. Sleep Medicine 4(suppl. 1): S31-S32, 2003
	Near-infrared spectroscopy for the assessment of vascular responsiveness of the brain: A screening method for cerebrovascular morbidity in obstructive sleep apnea. Michalos, A., L.P Safonova, C.S. Olopade, J.H. Choi, W.W. Mantulin, D.M. Hueber, B. Barbieri, E Gratton. SLEEP 26(suppl): 0983.R, A390-391, 2003
	Age-correlated changes in cerebral hemodynamics assessed by near-infrared spectroscopy. Safonova, L.P., A. Michalos, U. Wolf, M. Wolf, D.M. Hueber, J.H. Choi, R. Gupta, C. Polzonetti, W.W. Mantulin and E. Gratton. Archives of Gerontology and Geriatrics 39(3): 207-225, 2004
	Effect of OSA on Cerebral Blood Flow Using Near-Infrared Spectroscopy. C.O. Olopade, MD, A. Michalos, MD, R. Gupta, BA, E. Mensah, PhD, N. Fossland, BA, D. Picchietti, MD, D. Greeley, MD, S. Manchanda, MD, E. Gratton, PhD. Proceedings of the American Thoracic Society 2: A527, 2005
	Pattern Analysis of Cerebral Hemodynamics Measured by Near-Infrared Spectroscopy in OSA. CO Olopade, MD, A Michalos, MD, R Gupta, BA, M Lera, PhD, WW Mantulin, PhD, E Gratton, PhD. Proceedings of the American Thoracic Society 3: A705, 2006

Brain Vascular Surgery - Anesthesiology
	Changes in oxygenation and hemodynamics in the human head assessed by frequency-domain multi-distance NIRS. Michalos, A., M. Calderon, L. P. Safonova, R. Gupta, W. W. Mantulin, E. Gratton. Optical Society of America Biomedical Topics: FE7, 17-19, 2004
	Bedside Evaluation of Cerebral Autoregulation Using Frequency Domain Near-Infrared Spectroscopy. Mateo Calderon-Arnulphi, MD; Ali M. Alaraj, MD; Rodolfo G. Gatto, MD; Hrachya Nersesyan, MD; William Mantulin, PhD; Antonios Michalos, MD; Enrico Gratton, PhD; Fady T. Charbel, MD. 55th annual meeting. Congress of Neurological Surgeons October8-13, 2005
	Prediction of Cerebral Ischemia in Neurovascular Surgery. Mateo Calderon-Arnulphi, MD; Gatto Rodolfo, MD; Ali Alaraj, MD; Hrachya Nersesyan, MD; William Mantulin, PhD; Antonios Michalos, MD; Enrico Gratton , PhD; Fady T. Charbel, MD. 55th annual meeting. Congress of Neurological Surgeons October8-13, 2005
	Is Outcome in Neurosurgery Related to Brain Hypoxia? Verna L. Baughman, M.D., Onn Paisansathan, M.D., William E. Hoffman, Ph.D., Rodolfo Gatto, M.D., Fady Charbel, M.D. Proceedings of American Society of Anesthesiology: A55: October 14-18, 2006
	Quantitative Evaluation of Dexmedetomidine Effects on Regional Brain Tissue Oxygenation Rodolfo G. Gatto, M.D., William Hoffman, Ph.D., Verna Baughman, M.D., Fady T. Charbel, M.D. Proceedings of American Society of Anesthesiology: A198: October 14-18, 2006
	Brain Oxyhemoglobin Stimulation during Intubation William E. Hoffman, Ph.D., Rodolfo Gatto, M.D., Verna L. Baughman, M.D., Fady Charbel, M.D Proceedings of American Society of Anesthesiology: A1034: October 14-18, 2006
	Frequency domain near-infrared spectroscopy technique in the assessment of brain oxygenation: A validation study in live subjects and cadavers. Gatto R, Hoffman W, Mueller M, Flores A, Valyi-Nagy T, Charbel FT. J Neurosci Methods. 2006 May 23; [Epub ahead of print]
	Detection of cerebral ischemia in neurovascular surgery using quantitative frequency-domain near-infrared spectroscopy Mateo Calderon-Arnulphi, MD; Ali Alaraj, MD; sepideh amin-hanjani, MD; william w. mantulin, Ph.d.,2 chiara m. polzonetti, MS; Enrico Gratton, PhD; Fady t. Charbel, MD; J Neurosurg 106:283-290, 2007

Neonatal Applications
	Noninvasivasive monitoring of hemodynamic stress using quantitative near-infrared frequency-domain photon migration spectroscopy. Tuan H. Pham, R. Horniung, H. P. Ha, T. Burney, D. Serna, L. Powell, M. Brenner and B. Tromberg. J. Biomed. Optics: 7(1), 34-44, 2002
	Noninvasivasive monitoring of red blood cell transfusion in very low birthweight infants using diffuse optical spectroscopy. A. Cerussi, R. Van Woerkom, F. Waffarn and B. Tromberg. J. Biomed. Optics: 10(5), 2005

Brain Imaging (slow signals) on humans
	Feasability of intracranial near infrared optical scanning. Gratton, G., Maier, J., Fabiani, M., Mantulin, W., and Gratton, E. Psychophysiology, Vol. 31, (1994), pp. 211-215.
	Shades of grey matter: non invasive optical images of human brain responses during visual stimulation. Gratton, G., Corballis, P., Cho, E., Fabiani, M., and Hood, D. Psychophysiology, Vol. 32, (1995), pp. 505-509.
	Rapid Changes of Optical Parameters in the Human Brain during a Tapping Task. Gratton G, Fabiani M, Friedman D, Franceschini MA, Fantini S, Corballis PM, and Gratton E. J. Cogn Neuroscience 7: 446-456,1995
	Non invasive near infrared optical imaging of human brain function with subsecond temporal resolution. Fabiani, M., Gratton, G., and Corballis, P. Journal of Biomedical Optics, Vol. 1 No. 4, (1996.), pp. 387-398
	Can we measure correlates of neuronal activity with non-invasive optical methods? Gratton G, Fabiani M, Corballis PM. Adv Exp Med Biol. 1997;413:53-62. Review. PMID: 9238485
	Noninvasive detection of fast signals from the cortex using frequency-domain optical methods. Gratton G, Fabiani M, Corballis PM, Gratton E. Ann N Y Acad Sci. 1997 May 30;820:286-98; discussion 298-9. Review.. PMID: 9237461
	Real time optical imaging and spectroscopy of brain ischemia and hemorrhage in neonatal piglets. Stankovic, M., Maulik, D., Rosenfeld, W., Stubblefield, P., Kofinas, A., Drexler, S., Nair, R., Franceschini, M., Hueber, D., Gratton, E., and Fantini, S. J. Perinat. Med., 27: 279-286, 1999
	Real time optical imaging and spectroscopy of brain ischemia and hemorrhage. Stankovic, M., Maulik, D., Stubblefield, P., Rosenfeld, W., Gratton, E., Franceschini, M., and Fantini, S. Proc. of SPIE , Vol. 3597, (1999), pp. 676-684.
	Scalp-recorded optical signals make sound processing in the auditory cortex visible? Rinne T, Gratton G, Fabiani M, Cowan N, Maclin E, Stinard A, Sinkkonen J, Alho K, Naatanen R. Neuroimage. 1999 Nov;10(5):620-4. No abstract available. PMID: 10547339
	Different time evolution of oxy-hemoglobin and deoxy-hemoglobin correlation changes in the visual and motor cortices during functional stimulation: A near-infrared spectroscopy study. Wolf, M., U. Wolf, V. Toronov, A. Michalos, L. A. Paunescu, J.H. Choi and E. Gratton. Neuroimage 16: 704-712, 2002
	Functional frequency domain near-infrared spectroscopy detects fast neuronal signal in the motor cortex. Wolf, M., U. Wolf, J.H. Choi, R. Gupta, L.P. Safonova, L. A. Paunescu, A. Michalos and E. Gratton. Neuroimage 17: 1868-1875, 2002

Coupled oxygenation oscillation measured by NIRS and intermittent cerebral activation on EEG in premature infants
N. Roche-Labarbe, F. Wallois, E. Ponchel, G. Kongolo, R. Grebe
NeuroImage 36(3) 718-727 (2007).

Applications to Working Memory in Aging

	Multiple Electrophysiological Indices of Distinctiveness Fabiani, M. in "Distinctiveness and Memory", R.R. Hunt and J.B. Worthen, eds., Cambridge, MA; Oxford University Press (in press).
	Electrophysiological and Optical Measures of Cognitive Aging Fabiani, M., & Gratton, G. in Cognitive Neuroscience of Aging: Linking Cognitive and Cerebral Aging, R. Cabeza, L. Nyberg, and D. Park, eds.; Oxford University Press (2005).
	Reduced suppression or labile memory? Mechanisms of inefficient filtering of irrelevant information in older adults Fabiani, M., Low, K. A., Wee, E., Sable, J. J., & Gratton, G. Journal of Cognitive Neuroscience, 18(4), 1-14 (2006).
	Contributions of cognitive neuroscience to the understanding of behavior and aging Kramer, A. F., Fabiani, M., & Colcombe, S. In J. E. Birren & K. W. Schaie (Eds.) Handbook of the Psychology of Aging, Sixth Edition (pp. 57-83). New York, NY: Academic Press (2006).
	Sensory Brain Responses Predict Individual Differences in Working Memory Span and Fluid Intelligence Brumback, C.R., Low, K.A., Gratton, G. and Fabiani, M. NeuroReport, 15/2, pp. 373-376 (2004).

Auditory Cortex

	On the Functional Role of Temporal and Frontal Cortex Activation in Passive Detection of Auditory Deviance Tse, C.-Y., & Penney, T. B. (in press) NeuroImage.
	Optical Imaging of Perceptual Grouping in Human Auditory Cortex Sable, J. J., Low, K. A., Whalen, C. J., Maclin, E. L., Fabiani, M., & Gratton, G. (2007) European Journal of Neuroscience. 25, 298-306.
	Latent Inhibition Mediates N1 Attenuation to Repeating Sounds Sable, J.J., Low, K.A., Maclin, E.L., Fabiani, M., and Gratton, G. Psychophysiology (in press).
	Preattentive Change Detection Using the Event-related Optical Signal Tse, C.-Y., & Penney, T. B. (2007) Engineering in Medicine and Biology Magazine, IEEE, 26(4), 52-58
	Event-related Optical Imaging Reveals the Temporal Dynamics of Right Temporal and Frontal Cortex Activation in Pre-attentive Change Detection Tse, C.-Y., Tien, K.-R., & Penney, T. B. (2006) NeuroImage, 29(1), 314-320.
	Scalp-Recorded Optical Signals Make Sound Processing in the Auditory Cortex Visible Rinne T., G. Gratton, M. Fabiani, N. Cowan, E. Maclin, A. Stinard, J. Sinkkonen, K. Alho, and Risto Näätänen NeuroImage 10, 620-624 (1999).

Cognitive Neuroscience

	Time course of executive processes: Data from the event-related optical signal (EROS). Gratton, G., Low, K. A., & Fabiani, M. In S. A. Bunge & J. D. Wallis (Eds.), Perspectives on Rule-Guided Behavior. (pp. 197-223) New York, NY: Oxford University Press (2008).
	Optical imaging of cortical activity elicited by unattended temporal deviants C.Y. Tse and T.B. Penney IEEE Engineering in Medicine and Biology Magazine, 26, 52-58 (2007).
	Sensory modality and time perception in children and adult S. Droit-Volet, T.B. Penney and W.H. Meck Behavioral Processes., 74, 244-250 (2007).
	Synchronization between background activity and visually evoked potential is not mirrored by focal hyperoxygenation: Implications for the interpretation of vascular brain imaging S.P. Koch, J. Steinbrink, A. Villringer and H. Obrig Journal of Neuroscience 26(18): 4940-4948 (2006).
	Fast optical imaging of frontal cortex during active and passive oddball tasks Low, K. A., Leaver, E., Kramer, A. F., Fabiani, M., & Gratton, G. Psychophysiology, 43, 127-136 (2006).
	Multiple levels of stimulus representation in visual working memory E. Shin, M. Fabiani and G. Gratton Journal of Cognitive Neuroscience, 18 (5), 844-858 (2006).
	Task and sex modulate the brain response to emotional incongruity in Asian listeners A. Schirmer, M. Lui, B. Maess, N. Eiscoffier, M. Chan and T.B. Penney Emotion, 6, 406-417 (2006).
	Pre-attentive timing of empty intervals is from marker offset to onset C.Y. Tse and T.B. Penney Psychophysiology, 43, 172-179 (2006).
	Event-related optical imaging reveals the temporal dynamics of right temporal and frontal cortex activation in pre-attentive change detection C.Y. Tse, K.R. Tien and T.B. Penney NeuroImage, 29, 314-320 (2006).
	Perceptual fluency, semantic familiarity, and recognition-related familiarity: An electrophysiological exploration D. Nessler, A. Mecklinger and T.B. Penney Cognitive Brain Research, 22, 265-288 (2005).
	Auditory/visual duration bisection in patients with left or right medial temporal lobe resection M. Melgire, R. Ragot, S. Samson, T.B. Penney, W.H. Meck, and V. Pouthas Brain and Cognition, 58, 119-124 (2005).
	Les effets de la modalite sensorielle sur la perception du temps T. B. Penney and S. Tourret Psychologie Française, 50, 131-143 (2005).
	Attention mediated interval timing deficits in individuals at high risk for schizophrenia T.B. Penney, W.H. Meck, S.A. Roberts, J. Gibbon and L. Erlenmeyer-Kimling Brain and Cognition, 58, 109-118 (2005).
	The use of near infrared brain imaging methods to monitor cognitive states Fabiani, M., Gratton, G., & Kramer, A. F. Proceedings of the HCI International 2005 Conference (Volume 5 - Emergent Application Domains in HCI), Mahwah, NJ: Lawrence Erlbaum Associates (2005).
	Multiple visual memory phenomena in a memory search task Fabiani, M., Ho, J., Stinard, A., & Gratton, G. Psychophysiology, 40, 472-485 (2003).
	Memory-driven processing in human medial occipital cortex: An event-related optical signal (EROS) study Gratton, G., Fabiani, M., Goodman-Wood, M. R., & DeSoto, M. C. Psychophysiology, 35, 348-351 (1998).
	Decoding subjective preference from single-trial near-infrared spectroscopy signals Sheena Luu, Tom Chau 2009 J. Neural Eng. 6 016003 (8pp)

Comparison of Imagent and fMRI

	A spatial and temporal comparison of hemodynamic signals measured using optical and functional magnetic resonance imaging during activation in the human primary visual cortex V. Toronov, X. Zhang, and A.G. Webb NeuroImage 34 (2007) 1136-1148 (2006).
	Integrated measurement system for simultaneous functional magnetic resonance imaging and diffuse optical tomography in human brain mapping Xiaofeng Zhang, V.Y. Toronov, and A.G. Webb Review of Scientif. Instruments 77, 114301 (2006).
	Simultaneous integrated diffuse optical tomography and functional magnetic resonance imaging of the human brain Xiaofeng Zhang, V.Y. Toronov, and A.G. Webb Optics Express 13 (14) 5513 (2005).
	The study of cerebral hemodynamic and neuronal response to visual stimulation using simultaneous NIR optical tomography and BOLD fMRI in humans Zhang, X., Toronov V.Y., Fabiani, M., Gratton, G. & Webb, A.G. Proc. SPIE Vol. 5686, 566-572 (2005).
	Simultaneous Near-Infrared Spectroscopy and Magnetic Resonance Imaging of Functional Activity in the Human Brain V. Toronov, E. Gratton, and A. Webb in "Res. Adv. in Medical Physics", R.M. Mohan ed., 1, 1-15, Global Research Network (2003).
	The Roles of Changes in Deoxyhemoglobin Concentration and Blood Volume in the fMRI BOLD Signal V. Toronov, S. Walker, R. Gupta, J.H. Choi, E. Gratton, D. Hueber and A. Webb NeuroImage, 19, 1521-1531 (2003).
	Investigation of human brain hemodynamics by simultaneous near-infrared spectroscopy and functional magnetic resonance imaging V. Toronov, A. Webb, J. H. Choi, M. Wolf, A. Michalos, E. Gratton and D. Hueber Medical Physics 28(4), 521-527 (2001).
	Simultaneous functional magnetic resonance and near-infrared imaging of adult human brain V. Toronov, A. Webb, J. H. Choi, M. Wolf, E. Gratton and D. Hueber Proc. SPIE Vol. 4250, 380-382 (2001).
	Study of Local Cerebral Hemodynamic Fluctuations by Simultaneous Frequency-Domain near-infrared spectroscopy and fMRI V. Toronov, A. Webb, J. H. Choi, M. Wolf, L. Safonova, U. Wolf, and E. Gratton Optics Express 9(8), 417-427 (2001).

Fast Signals (EROS: Event Related Optical Signals)

	Event-Related Brain Potentials: Methods, Theory, and Applications M. Fabiani, G. Gratton, and K. Federmeier In J. Cacioppo, L. Tassinary,& G. Berntson (Eds.), Handbook of Psychophysiology (pp. 85-119). New York, NY: Cambridge University Press (2007).
	Time course of executive processes: Data from the event-related optical signal (EROS) G. Gratton, K.A. Low, and M. Fabiani In S. A. Bunge & J. D. Wallis (Eds.), Perspectives on Rule-Guided Behavior. New York, NY: Oxford University Press (2007).
	Time course of activation of human occipital cortex measured with the event-related optical signal (EROS) G. Gratton, K.A. Low, E.L. Maclin, C.R. Brumback, B. Gordon, and M. Fabiani in Biomedical Optics 2006 Technical Digest (Optical Society of America, Washington D.C., (2006).
	Fast optical imaging of frontal cortex during active and passive oddball tasks K.A. Low, E. Leaver, A.F. Kramer, M. Fabiani, and G. Gratton Psychophysiology. 43, 127-136 (2006).
	Non-invasive Fast Optical Imaging in Humans G. Gratton, and M. Fabiani in Scattered Light Imaging of Brain Function for the Contemporary Clinical Neuroscience Series, D.M. Rector and J.S. George, eds., Totowa, NJ: Humana Press (in press).
	The Event Related Optical Signal (EROS) to Electrical Stimulation of the Median Nerve E.L. Maclin, K.A. Low, J.J. Sable, M. Fabiani, and G. Gratton NeuroImage (in press).
	Toward non-invasive 3-D imaging of the time course of cortical activity: investigation of the depth of the event-related optical signal G. Gratton, A. Sarno, E. Maclin, P. M. Corballis, and M. Fabiani NeuroImage 11, 491-504 (2000).
	Dynamic brain imaging: Event-related optical signal (EROS) measures of the time course and localization of cognitive-related activity G. Gratton and M. Fabiani Psychosonomic Bulletin & Review 5, 535-563 (1998).
	Memory-driven processing in human medial occipital cortex: An event-related optical signal (EROS) study G. Gratton, M. Fabiani, M.R. Goodman-Wood, and M.C. DeSoto Psychophysiology 35, 348-351 (1998).
	Fast optical signals: Principles, methods, and experimental results Gratton, G. & Fabiani, M. In R. Frostig (Ed.), In Vivo Optical imaging of brain function (pp. 223-247), CRC Press (2002).

Image Reconstruction Algorithms and Technique Development

	Spatio-spectral analysis of brain signals Ombao, H., Shao, X., Rykhlevskaia, E., Fabiani, M., & Gratton, G. Statistica Sinica (in press).
	Validation of a method for coregistering scalp recording locations with 3D structural MR images Whalen, C., Maclin, E. L., Fabiani, M., & Gratton, G. (in press) Human Brain Mapping (in press).
	Improving the signal-to-noise ratio of Event Related Optical Signals (EROS) by manipulating wavelength and modulation frequency Maclin, E.L., Low, K.A., Fabiani, M., & Gratton, G. Special issue of IEEE EMBM, 26(4), 47-51 (2007).
	Effects of measurement method, wavelength, and source-detector distance on the fast optical signal Gratton, G., Brumback, C. R., Gordon, B.A., Pearson, M.A., Low, K. A. & Fabiani, M. NeuroImage, 32, 1576-1590 (2006).
	Lagged covariance structure models for studying functional connectivity in the brain Rykhlevskaia, E., Fabiani, M., Gratton, G. NeuroImage, 30(4), 1203-1218 (2006).
	Level-set algorithm for the reconstruction of functional activation in near-infrared spectroscopic imaging M. Jacob, Y. Bresler, V. Toronov, X. Zhang and A. Webb J. of Biomedical Optics 11 (6), 064029 (2006).
	Signal and image processing techniques for functional near-infrared imaging of the human brain Toronov V. Y., Zhang, X., Fabiani, M., Gratton, G. & Webb, A. G. Proc. SPIE Vol. 5696, (2005).
	Optimization of the frequency-domain instrument for the near-infrared spectro-imaging of the human brain V. Toronov, E. D'Amico, D.M. Hueber, E. Gratton, A. Webb, and B. Barbieri Proc. SPIE, Vol. 5312, 378-383 (2004).
	Optimization of the signal-to-noise ratio of frequency-domain instrumentation for nearinfrared spectro-imaging of the human brain V. Toronov, E. D'Amico, D. Hueber, E. Gratton, B. Barbieri, and A. Webb Opt. Express 11, 2717-2729 (2003).
	Optimum Filtering for EROS Measurements Maclin, E., Gratton, G., & Fabiani, M. Psychophysiology, 40(4), 542-547 (2003).
	The event-related optical signal (EROS) in visual cortex: Replicability, consistency, localization and resolution Gratton, G., & Fabiani, M. Psychophysiology, 40(4), 561-571 (2003).
	Toward non-invasive 3-D imaging of the time course of cortical activity: Investigation of the depth of the event-related optical signal (EROS) Gratton, G., Sarno, A. J., Maclin, E., Corballis, P. M., & Fabiani, M. NeuroImage, 11, 491-504 (2000).
	Bootstrap assessment of the reliability of maxima in surface maps of brain activity of individual subjects derived with electrophysiological and optical methods Fabiani, M., Gratton, G., Corballis, P., Cheng, J., & Friedman, D. Behavioral Research Methods, Instruments, & Computers, 30, 78-86 (1998).
	Feasibility of intracranial near-infrared optical scanning Gratton, G., Maier, J. S., Fabiani, M., Mantulin, W., & Gratton, E. Psychophysiology, 31, 211-215 (1994).

Language Centers

	Near-infrared spectroscopy as an alternative to the WADA test for language mapping in children, adults and special populations Gallagher, A., Theriault, M., Maclin, E., Low, K., Gratton, G., Fabiani, F., et al. Epileptic Disorders, 9(3), 241-255 (2007).
	Imaging the Cortical Dynamics of Language Processing with the Event-related Optical Signal Tse, C.-Y., Lee, C.-L., Sullivan, J., Garnsey, S., Dell, G. S., Fabiani, M., & Gratton, G. Proceedings of the National Academy of Sciences, USA, 104(43), 17157-17162 (2007).
	Poor readers of Chinese respond slower than good readers in phonological, rapid naming, and interval timing tasks Penney, T.B., Leung, K.M, Chan, P.C., Meng, X., & McBride-Chang, C.A. Annals of Dyslexia, 55, 9-27 (2005).
	Speeded naming and dyslexia Penney, T.B., Wong, S., Ng, K.K., McBride-Chang, C.A. in T. Sakamoto (Ed.), Communicating Skills of Intention (pp. 75-90). Tokyo, Japan: Hituzi Shobo (2007).
	Morphological Structure Awareness, Vocabulary, and Reading McBride-Chang, C, Hua, S., Ng, J.Y.L., Meng, X., & Penney, T.B. in Wagner, R.K., Muse, A., & Tannenbaum, K. (Eds.), Vocabulary Acquisition: Implications for Reading Comprehension (pp. 104-122.). New York, NY: Guilford Press (2006).
	Brain responses to segmentally and tonally induced semantic violations in Cantonese Schirmer, A., Tang, S.L., Penney, T.B., Gunter, C.T., & Chen, H.C. Journal of Cognitive Neuroscience, 17, 1-12 (2005).

Motor Cortex

	When in doubt, do it both ways: Brain evidence of the simultaneous activation of conflicting responses in a spatial Stroop task DeSoto, M. C., Fabiani, M., Geary, D. C., & Gratton, G. (2001) Journal of Cognitive Neuroscience, 13(4), 523-536.
	Rapid changes of optical parameters in the human brain during a tapping task Gratton, G., Fabiani, M., Friedman, D., Franceschini, M. A., Fantini, S., & Gratton, E. (1995) Journal of Cognitive Neuroscience, 7(4), 446-456.
	Rapid Changes of Optical Parameters in the Human Brain During a Tapping Task G. Gratton, M. Fabiani, D. Friedman, M. A. Franceschini, S. Fantini, P. M. Corballis, and E. Gratton J. Cognitive Neuroscience 7, 446-456 (1995).

Review of Brain Optical Imaging Studies

	A Brief Review on the History of Human Functional Near-Infrared Spectroscopy (fNIRS) Development and Fields of Application Ferrari, M., and Quaresima, V. NeuroImage, 2012.
	Optical Imaging G. Gratton and M. Fabiani In R. Parasuraman & M. Rizzo (Eds.) Neuroergonomics: The Brain at Work (pp. 65-81). Cambridge, MA: Oxford University Press (2007).
	Biosignal processing G. Gratton In J. Cacioppo, L. Tassinary, & G. Berntson (Eds.), Handbook of Psychophysiology, 3rd Edition (pp. 834-858), New York, NY: Cambridge University Press (2007).
	Optical imaging of the intact human brain M. Fabiani, D.D. Schmorrow, and G. Gratton IEEE Engineering in Medicine and Biology Magazine. 26, 14-16 (2007).
	Lagged covariance structure models for studying functional connectivity in the brain E. Rykhlevskaia, M. Fabiani, and G. Gratton NeuroImage, 30, 1203-1218 (2006).
	Measurement of brain activity by near-infrared light E. Gratton, V. Toronov, U. Wolf, M. Wolf, and A. Webb J. Biomed. Opt. 10, 011008 (2005).
	Noninvasive determination of the optical properties of adult brain: Near infrared spectroscopy approach Jee Hyun Choi, M. Wolf, V. Toronov, U. Wolf, C. Polzonetti, D. Hueber, L.P. Safonova, R. Gupta, A. Michalos, W. Mantulin, and E. Gratton J Biomed Opt. 9(1): 221-9 (2004).
	Seeing right through you: Applications of optical imaging to the study of the human brain Gratton, G., Fabiani M., Elbert, T., & Rockstroh, B. Psychophysiology, 40(4), 487-491 (2003).
	Fast cerebral functional signal in the 100ms range detected in the visual cortex by frequency-domain near-infrared spectroscopy M. Wolf, U. Wolf, J.H. Choi, V. Toronov, L.A. Paunescu, A. Michalos, E. Gratton Psychophysiology, 40, 521-528 (2003).
	Absolute frequency-domain pulse oximetry of the brain: Methodology and measurements. M. Wolf, M. A. Franceschini, L.A. Paunescu, V. Toronov, A. Michalos, U. Wolf, E. Gratton, and S. Fantini Adv. Exp. Med. Biol. 530, 61-73 (2003).
	Fast optical signals: Principles, methods, and experimental results Gratton, G. & Fabiani, M. In R. Frostig (Ed.), In Vivo Optical imaging of brain function (pp. 223-247), CRC Press (2002).
	Different Time Evolution of Oxyhemoglobin and Deoxyhemoglobin Concentration Changes in the Visual and Motor Cortex during Functional Stimulation: A near Infrared Spectroscopy Study M. Wolf, U. Wolf, V. Toronov, A. Michalos, L.A. Paunescu, J.H. Choi, and E. Gratton NeuroImage, 16, 704-712 (2002).
	Shedding light on brain function: The event-related optical signal Gratton, G. & Fabiani, M. Trends in Cognitive Science, 5(8), 357-363 (2001).
	The event-related optical signal: A new tool for studying brain function Gratton, G., & Fabiani, M. International Journal of Psychophysiology, 42, 109-121 (2001).
	On-line optical imaging of the human brain with 160-ms temporal resolution M.A. Franceschini, V. Toronov, M. Filiaci, E. Gratton and S. Fantini Optics Express 6, 49-57 (2000).
	Near-infrared study of fluctuations in cerebral hemodynamics during rest and motor stimulation: Temporal analysis and spatial mapping Toronov, V., M. A. Franceschini, M. Filiaci, S. Fantini, M. Wolf, A. Michalos, and E. Gratton Med. Phys. 27(4), 801-815 (2000).
	On-line optical imaging of the human brain with 160-ms temporal resolution Franceschini, M. A., V. Toronov, M. Filiaci, E. Gratton, and S. Fantini Optics Express 6(3), 49-57 (2000).
	Real-time video of cerebral hemodynamics in the human brain using non-invasive optical imaging Franceschini, M.A., V. Toronov, M. E. Filiaci, M. Wolf, A. Michalos, E. Gratton, and S. Fantini NeuroImage 11(5) S454 (2000).
	Fast cerebral functional signals in the 100 ms range detected by frequency-domain near-infrared spectroscopy Wolf, M., U. Wolf, V. Toronov, L. A. Paunescu , A. Michalos, M. A. Franceschini, S. Fantini, and E. Gratton NeuroImage 11(5) S515 (2000).
	Cerebral hemodynamics measured by near-infrared spectroscopy at rest and during motor activation M.A. Franceschini, S. Fantini, V. Toronov, M. E. Filiaci, and E. Gratton In Proc. Inter-Institute Workshop on In Vivo Optical Imaging at the NIH, A. Ganjbakhche ed.,(Optical society of America, Washington DC) pp. 73-80 (1999).
	Shades of gray matter: non-invasive optical images of human brain responses during visual stimulation G. Gratton, P. M. Corballis, E. Cho, M. Fabiani, and D. C. Hood Psychophysiology 32, 505-509 (1995).

Somatosensory Cortex

The Event Related Optical Signal (EROS) to electrical stimulation of the median nerve
Maclin, E. L., Low, K. A., Sable, J. J., Fabiani M, & Gratton, G. (2004)
NeuroImage, 21(4),1798-1804.

Visual Cortex

	Time course of activation of human occipital cortex measured with the event-related optical signal (EROS) Gratton, G., Low, K. A., Maclin, E. L., Brumback, C. R., Gordon, B. A., & M. Fabiani (2006) Biomedical Optics 2006 Technical Digest (Optical Society of America, Washington, DC, 2006), MD4.
	Comparison of neuronal and hemodynamic measures of the brain response to visual stimulation: an optical imaging study Gratton, G., Goodman-Wood, M. R., & Fabiani, M. (2001) Human Brain Mapping, 13(1), 13-25.
	Shades of gray matter: Noninvasive optical images of human brain responses during visual stimulation Gratton, G., Corballis, P. M., Cho, E., Fabiani, M., & Hood, D. (1995) Psychophysiology, 32, 505-509.

Publications

Muscle Studies

Peripheral Vascular Disease (PVD)

Sport Medicine

Animal Studies

Human Brain Studies and Applications in Medicine and Surgery

Obstructive Sleep Apnea Syndrome

Brain Vascular Surgery - Anesthesiology

Neonatal Applications

Brain Imaging (slow signals) on humans

Additional Resources: