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Conference Paper
Isborn CM, Goetz AW, Clark M, Martínez TJ, Walker RC.  2012.  Ab initio QM/MM molecular dynamics using TeraChem and AMBER: Exploring environmental effects on the absorption spectrum of photoactive yellow protein. ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY. 244
DeCamp MF, Reis DA, Bucksbaum PH, Adams B, Dufresne EM, Clarke R.  2002.  Acoustic phonon dispersion measured with time-resolved X-ray diffraction. Lasers and Electro-Optics, 2002. CLEO'02. Technical Digest. Summaries of Papers Presented at the. :298–vol.
Kronast F, Keiser A, Wiemann C, Ovsyannikov R, Locatelli A, Buergler D, Schreiber R, Yang S-H, Duerr H, Schneider C et al..  2008.  Adding depth sensitivity to photoelectron microscopy using the standing wave/wedge method. APS Meeting Abstracts. 1:32007.
Sheu Y-M, Chien YJ, Uher C, Fahy S, Reis DA.  2009.  Ambipolar diffusion and recombination of photoexcited carriers in bismuth films. APS Meeting Abstracts. 1:23003.
McFarland B, Farrell J, Bucksbaum PH, Guehr M.  2009.  Angular and Intensity Dependent Spectral Modulations in High Harmonics from N2. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts. 1:1032.
Cryan JP, Glownia J, Bucksbaum PH, Coffee RN.  2010.  Angular Dependance of Auger Decay of Double Core Vacancies in N2. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts. 1:5009.
Cryan JP, Glownia J, Cherepkov NA, Bucksbaum PH, Coffee RN.  2011.  Angular Dependance of Auger electrons from N2. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts. 1:L1144.
Jiang M, Giraldo P, Fisher I, Reis DA.  2013.  Anomalous Coherent Oscillations in PbTe from Ultrafast Optical Pump-Probe Measurements. APS Meeting Abstracts. 1:12009.
Doumy G, Roedig C, DiMauro L, Cavalieri A, Grguras I, Meyer M, Costello J, Helml W, Maier A, Kienberger R et al..  2015.  Applications of laser streaking at X-ray free electron lasers. APS March Meeting Abstracts. 1:1054.
Miyabe S, C McCurdy W, Rescigno TN.  2009.  Asymmetric Molecular-Frame Photoelectron Angular Distribution for K-shell Photoemission from CO2: a Theoretical Study. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts. 1:L5006.
Stoica VA, Sheu Y-M, Reis DA, Clarke R.  2008.  Asynchronous optical probing of coherent magnetic excitations from picoseconds to nanoseconds. Quantum Electronics and Laser Science Conference. :QThF7.
Rohringer N, Purvis M, Ryan D, Weninger C, Kimberg V, London RA, Graf A, Brown G, Rocca J, Bostedt C et al..  2012.  Atomic and Molecular Inner-Shell X-Ray Lasers. Laser Science. :LW2H–2.
Rohringer N, Weninger C, Purvis M, Ryan D, Brown G, Albert F, Dunn J, Graf A, Hau-Riege S, Bozek JD et al..  2013.  Atomic Inner-Shell X-Ray Lasers pumped by XFEL sources. CLEO: Science and Innovations. :CTh1H–1.
Krässig B, Kanter EP, March AM, Li Y, Pratt ST, Santra R, Southworth SH, Young L, Rohringer N, Berrah N et al..  2010.  The atomic response to 10\^{} 18 W/cm\^{} 2 x-rays from the LCLS. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts. 1:1103.
Ho P, Knight C, Young L, Tegze M, Faigel G.  2016.  Atomistic Simulations of High-intensity XFEL Pulses on Diffractive Imaging of Nano-sized Systems. APS March Meeting Abstracts.
Ho P, Knight C, Bostedt C, Young L, Tegze M, Faigel G.  2016.  Atomistic Simulations of High-intensity XFEL Pulses on Diffractive Imaging of Nano-sized System Dynamics. APS Division of Atomic, Molecular and Optical Physics Meeting Abstracts.
Savoini M, Reid AH, Wang T, Graves CE, Hoffmann MC, Liu T-M, Tsukamoto A, Stöhr J, Dürr HA, Kirilyuk A et al..  2014.  Attempting nanolocalization of all-optical switching through nano-holes in an Al-mask. SPIE NanoScience+ Engineering. :91672C–91672C.
Journal Article
Abu-samha M, Adachi J-i, Ahmad F, Aita O, Akaike K, Albuquerque MLS, Allen JW, Allongue P, Almazo MM, Alvarez F et al..  2007.  Aarik, J. xlix, lxxix, 150, 303 Abbate, M. xli, xcviii, 111 Abe, H. xxix Abreu, GJP xlix, xcviii Abrikosov, IA xxxix, lii. Journal of Electron Spectroscopy and Related Phenomena. 156:486–491.
Slavíček P, Martínez TJ.  2010.  Ab initio floating occupation molecular orbital-complete active space configuration interaction: An efficient approximation to CASSCF. The Journal of chemical physics. 132:234102.
Hudock HR, Levine BG, Thompson AL, Satzger H, Townsend D, Gador N, Ullrich S, Stolow A, Martínez TJ.  2007.  Ab initio molecular dynamics and time-resolved photoelectron spectroscopy of electronically excited uracil and thymine. The Journal of Physical Chemistry A. 111:8500–8508.
Coe JD, Levine BG, Martínez TJ.  2007.  Ab initio molecular dynamics of excited-state intramolecular proton transfer using multireference perturbation theory. The Journal of Physical Chemistry A. 111:11302–11310.
Makhov DV, Glover WJ, Martínez TJ, Shalashilin DV.  2014.  Ab initio multiple cloning algorithm for quantum nonadiabatic molecular dynamics. The Journal of chemical physics. 141:054110.
Levine BG, Martínez TJ.  2009.  Ab initio multiple spawning dynamics of excited butadiene: role of charge transfer. The Journal of Physical Chemistry A. 113:12815–12824.
Tao H, Levine BG, Martínez TJ.  2009.  Ab initio multiple spawning dynamics using multi-state second-order perturbation theory. The Journal of Physical Chemistry A. 113:13656–13662.
Sisto A, Glowacki DR, Martínez TJ.  2014.  Ab Initio Nonadiabatic Dynamics of Multichromophore Complexes: A Scalable Graphical-Processing-Unit-Accelerated Exciton Framework. Accounts of chemical research.

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