Publications

301

Pycro-Manager: open-source software for customized and reproducible microscope control

H. Pinkard, N. Stuurman, I. E. Ivanov, N. M. Anthony, W. Ouyang, B. Li, B. Yang, M. A. Tsuchida, B. Chhun, G. Zhang, R. Mei, M. Anderson, D. P. Shepherd, I. Hunt-Isaak, R. L. Dunn, W. Jahr, S. Kato, L. A. Royer, J. R. Thiagarajah, K. W. Eliceiri, E. Lundberg, S. B. Mehta, L. Waller, Nature Methods, 18, 226-228, (2021).

10.1038/s41592-021-01087-6

302

Determining the three-dimensional atomic structure of an amorphous solid

Y. Yang, J. Zhou, F. Zhu, Y. Yuan, . J. Chang, D. S. Kim, M. Pham, A. Rana, X. Tian, Y. Yao, S. J. Osher, A. K. Schmid, L. Hu, P. Ercius, J. Miao, Nature, 592, 60-64, (2021).

10.1038/s41586-021-03354-0

303

A new metrology technique for defect inspection via coherent Fourier scatterometry using orbital angular momentum beams

B. Wang, M. Tanksalvala, Z. Zhang, Y. Esashi, N. Jenkins, M. Murnane, H. Kapteyn, C. Liao, Metrology, Inspection, and Process Control for Semiconductor Manufacturing XXXV, (2021).

10.1117/12.2584728

304

Space-Charge Aberrations in Single-Shot Time-Resolved Transmission Electron Microscopy

P. P. Denham, P. P. Musumeci, Physical Review Applied, 15, 024050 , (2021).

10.1103/physrevapplied.15.024050

305

Probing electronic structure in berkelium and californium via an electron microscopy nanosampling approach

A. Müller, G. P. Deblonde, P. Ercius, S. E. Zeltmann, R. J. Abergel, A. M. Minor, Nature Communications, 12, 948, (2021).

10.1038/s41467-021-21189-1

306

Multibeam Electron Diffraction

X. Hong, S. E. Zeltmann, B. H. Savitzky, L. Rangel DaCosta, A. Müller, A. M. Minor, K. C. Bustillo, C. Ophus, Microscopy and Microanalysis, 27, 129-139, (2021).

10.1017/s1431927620024770

307

Coherent Fourier scatterometry using orbital angular momentum beams for defect detection

B. Wang, M. Tanksalvala, Z. Zhang, Y. Esashi, N. W. Jenkins, M. M. Murnane, H. C. Kapteyn, C. Liao, Optics Express, 29, 3342-3358, (2021).

10.1364/oe.414584

308

Rapid Detection of Bacteria Using Raman Spectroscopy and Deep Learning

K. Kukula, D. Farmer, J. Duran, N. Majid, C. Chatterley, J. Jessing, Y. Li, 2021 IEEE 11th Annual Computing and Communication Workshop and Conference (CCWC), (2021).

10.1109/ccwc51732.2021.9375955

309

Nondestructive, high-resolution, chemically specific 3D nanostructure characterization using phase-sensitive EUV imaging reflectometry

M. Tanksalvala, C. L. Porter, Y. Esashi, B. Wang, N. W. Jenkins, Z. Zhang, G. P. Miley, J. L. Knobloch, B. McBennett, N. Horiguchi, S. Yazdi, J. Zhou, M. N. Jacobs, C. S. Bevis, R. M. Karl, P. Johnsen, D. Ren, L. Waller, D. E. Adams, S. L. Cousin, C. Liao, J. Miao, M. Gerrity, H. C. Kapteyn, M. M. Murnane, Science Advances, 7, eabd9667, (2021).

10.1126/sciadv.abd9667

310

X-ray linear dichroic ptychography

Y. Lo, J. Zhou, A. Rana, D. Morrill, C. Gentry, B. Enders, Y. Yu, C. Sun, D. A. Shapiro, R. W. Falcone, H. C. Kapteyn, M. M. Murnane, P. A. Gilbert, J. Miao, Proceedings of the National Academy of Sciences, e2019068118, (2021).

10.1073/pnas.2019068118

311

Facile, Electrochemical Chlorination of Graphene from an Aqueous NaCl Solution

W. Li, Y. Li, K. Xu, Nano Letters, 21, 1150-1155, (2021).

10.1021/acs.nanolett.0c04641

312

4D Imaging of ZnO-Coated Nanoporous Al2O3 Aerogels by Chemically Sensitive Ptychographic Tomography: Implications for Designer Catalysts

H. Yuan, H. Yuan, T. Casagrande, D. Shapiro, Y. Yu, B. Enders, J. I. Lee, A. van Buuren, M. M. Biener, S. A. Gammon, T. F. Baumann, A. P. Hitchcock, ACS Applied Nano Materials, 4, 621-632, (2021).

10.1021/acsanm.0c02924

313

Laplacian smoothing stochastic gradient markov chain monte carlo

B. Wang, D. Zou, Q. Gu, S. J. Osher, SIAM Journal on Scientific Computing, 43, A26-A53, (2021).

10.1137/19m1294356

314

Ab Initio Determination of Peptide Structures by MicroED

C. Zee, A. Saha, M. R. Sawaya, J. A. Rodriguez, cryoEM, 2215, 329-348, (2020).

10.1007/978-1-0716-0966-8_17

315

An ultrahigh-resolution soft x-ray microscope for quantitative analysis of chemically heterogeneous nanomaterials

D. A. Shapiro, S. Babin, R. S. Celestre, W. Chao, R. P. Conley, P. Denes, B. Enders, P. Enfedaque, S. James, J. M. Joseph, H. Krishnan, S. Marchesini, K. Muriki, K. Nowrouzi, S. R. Oh, H. Padmore, T. Warwick, L. Yang, V. V. Yashchuk, Y. Yu, J. Zhao, Science Advances, 6, eabc4904, (2020).

10.1126/sciadv.abc4904

316

Impact of a course transformation on students’ reasoning about measurement uncertainty

B. Pollard, A. Werth, R. Hobbs, H. J. Lewandowski, Physical Review Physics Education Research, 16, 020160, (2020).

10.1103/physrevphyseducres.16.020160

317

Refining a model for understanding and characterizing instructor pedagogy in informal physics learning environments

M. B. Bennett, B. Fiedler, N. D. Finkelstein, Physical Review Physics Education Research, 16, 020137, (2020).

10.1103/physrevphyseducres.16.020137

318

Ptychographic Phase-Sensitive Imaging Reflectometry for Depth-Resolved Nanostructure Characterization using Tabletop EUV Light

N. W. Jenkins, M. Tanksalvala, Y. Esashi, C. L. Porter, B. Wang, N. Horiguchi, M. N. Jacobs, M. Gerrity, H. C. Kapteyn, M. M. Murnane, OSA High-brightness Sources and Light-driven Interactions Congress 2020 (EUVXRAY, HILAS, MICS), (2020).

10.1364/euvxray.2020.ew3a.4

319

Smart Scattering Scanning Near-Field Optical Microscopy

S. Labouesse, S. C. Johnson, H. A. Bechtel, M. B. Raschke, R. Piestun, ACS Photonics, 7, 3346-3352, (2020).

10.1021/acsphotonics.0c00553

320

A review of polarization-based imaging technologies for clinical and preclinical applications

J. Ramella-Roman, I. Saytashev, M. Piccini, Journal of Optics, 22, 123001, (2020).

10.1088/2040-8986/abbf8a

321

Mesophasic organization of GABAA receptors in hippocampal inhibitory synapses

Y. Liu, C. Tao, X. Zhang, W. Xia, D. Shi, L. Qi, C. Xu, R. Sun, X. Li, P. Lau, Z. Hong Zhou, G. Bi, Nature Neuroscience, 1589-1596, (2020).

10.1038/s41593-020-00729-w

322

Generating Relativistic Intensities via Staged Pulse Compression in Dielectric Media

M. M. Stanfield, H. H. Allison, N. F. Beier, S. S. Hakimi, A. E. Hussein, F. F. Dollar, OSA High-brightness Sources and Light-driven Interactions Congress 2020 (EUVXRAY, HILAS, MICS), (2020).

10.1364/euvxray.2020.jm3a.22

323

Ptychographic atomic electron tomography: Towards three-dimensional imaging of individual light atoms in materials

D. J. Chang, D. S. Kim, A. Rana, X. Tian, J. Zhou, P. Ercius, J. Miao, Physical Review B, 102, 174101, (2020).

10.1103/physrevb.102.174101

324

Depth-resolved Mueller matrix polarimetry microscopy of the rat cornea

V. N. Du Le, I. Saytashev, S. Saha, P. F. Lopez, M. Laughrey, J. C. Ramella-Roman, Biomedical Optics Express, 5982, (2020).

10.1364/boe.402201

325

Structures from the Mesophase: MicroED Targets Crystals Extracted from LCP

M. Gallagher-Jones, J. A. Rodriguez, Structure, 28, 1084-1086, (2020).

10.1016/j.str.2020.09.005

326

Spectral DiffuserCam: lensless snapshot hyperspectral imaging with a spectral filter array

K. Monakhova, K. Yanny, N. Aggarwal, L. Waller, Optica, 7, 1298-1307, (2020).

10.1364/optica.397214

327

A Calcium Sensor Discovered in Bluetongue Virus Nonstructural Protein 2 Is Critical for Virus Replication

S. Rahman, A. Kerviel, B. Mohl, Y. He, Z. Hong Zhou, P. Roy, Journal of Virology, (2020).

10.1128/jvi.01099-20

328

Memory-Efficient Learning for Large-Scale Computational Imaging

M. Kellman, K. Zhang, E. Markley, J. Tamir, E. Bostan, M. Lustig, L. Waller, IEEE Transactions on Computational Imaging, 6, 1403-1414, (2020).

10.1109/tci.2020.3025735

329

Categorical framework for mathematical sense making in physics

J. D. Gifford, N. D. Finkelstein, Physical Review Physics Education Research, 16, 020121, (2020).

10.1103/physrevphyseducres.16.020121

330

An ultra-compact x-ray free-electron laser

J. Rosenzweig, N. Majernik, R. Robles, G. Andonian, O. Camacho, A. Fukasawa, A. Kogar, G. Lawler, J. Miao, P. Musumeci, B. Naranjo, Y. Sakai, R. Candler, B. Pound, C. Pellegrini, C. Emma, A. Halavanau, J. Hastings, Z. Li, M. Nasr, S. Tantawi, P. P. Anisimov, B. Carlsten, F. Krawczyk, E. Simakov, L. Faillace, M. Ferrario, B. Spataro, S. Karkare, J. Maxson, Y. Ma, J. Wurtele, A. Murokh, A. Zholents, A. Cianchi, D. Cocco, S. van der Geer, New Journal of Physics, 093067, (2020).

10.1088/1367-2630/abb16c

331

Tilted fluctuation electron microscopy

E. Kennedy, N. Reynolds, L. Rangel DaCosta, F. Hellman, C. Ophus, M. C. Scott, Applied Physics Letters, 117, 091903, (2020).

10.1063/5.0015532

332

Process of transforming of an introductory mechanics lab course at Fort Lewis College

A. Werth, H. J. Lewandowski, 2020 Physics Education Research Conference Proceedings, (2020).

10.1119/perc.2020.pr.werth

333

Charging-driven coarsening and melting of a colloidal nanoparticle monolayer at an ionic liquid-vacuum interface

C. G. Bischak, J. G. Raybin, J. W. Kruppe, N. S. Ginsberg, Soft Matter, 9578-9589, (2020).

10.1039/d0sm01395a

334

Design and testing of ultrafast plasmonic lens nanoemitters

D. B. Durham, S. Rotta Loria, F. Riminucci, K. Kanellopulos, X. Shen, F. Ciabattini, A. Mostacci, P. Musumeci, A. M. Minor, S. Cabrini, D. Filippetto, Plasmonics: Design, Materials, Fabrication, Characterization, and Applications XVIII, (2020).

10.1117/12.2567540

335

Ultrafast structural dynamics of materials captured by relativistic electron bunches

K. Siddiqui, D. B. Durham, F. Cropp, A. Schmid, P. Musumeci, A. M. Minor, R. A. Kaindl, D. Filippetto, Ultrafast Nonlinear Imaging and Spectroscopy VIII, (2020).

10.1117/12.2568320

336

Potential of Attosecond Coherent Diffractive Imaging

A. Rana, J. Zhang, M. Pham, A. Yuan, Y. Lo, H. Jiang, S. J. Osher, J. Miao, Physical Review Letters, 125, 086101, (2020).

10.1103/physrevlett.125.086101

337

Engineering Mesoporous Silica Nanoparticles for Targeted Alpha Therapy against Breast Cancer

R. M. Pallares, P. Agbo, X. Liu, D. D. An, S. S. Gauny, S. E. Zeltmann, A. M. Minor, R. J. Abergel, ACS Applied Materials & Interfaces, 12, 40078-40084, (2020).

10.1021/acsami.0c11051

338

Structural basis for STAT2 suppression by flavivirus NS5

B. Wang, S. Thurmond, K. Zhou, M. T. Sánchez-Aparicio, J. Fang, J. Lu, L. Gao, W. Ren, Y. Cui, E. C. Veit, H. Hong, M. J. Evans, S. E. O’Leary, A. García-Sastre, Z. Hong Zhou, R. Hai, J. Song, Nature Structural & Molecular Biology, (2020).

10.1038/s41594-020-0472-y

339

Attosecond light science and its application for probing quantum materials

X. Shi, C. Liao, Z. Tao, E. Cating-Subramanian, M. Murnane, C. Hernández-García, H. Kapteyn, Journal of Physics B: Atomic, Molecular and Optical Physics, 53, 184008, (2020).

10.1088/1361-6455/aba2fb

340

Liquid-like Interfaces Mediate Structural Phase Transitions in Lead Halide Perovskites

C. G. Bischak, M. Lai, Z. Fan, D. Lu, P. David, D. Dong, H. Chen, A. S. Etman, T. Lei, J. Sun, M. Grünwald, D. T. Limmer, P. Yang, N. S. Ginsberg, Matter, 3, 534-545, (2020).

10.1016/j.matt.2020.07.015

341

Electron-Transparent Thermoelectric Coolers Demonstrated with Nanoparticle and Condensation Thermometry

W. A. Hubbard, M. Mecklenburg, J. J. Lodico, Y. Chen, X. Ling, R. Patil, W. ew Kessel, G. K. Flatt, H. Chan, B. Vareskic, G. Bal, B. Zutter, B. C. Regan, ACS Nano, 11510-11517, (2020).

10.1021/acsnano.0c03958

342

Atomic Structures of Anthrax Prechannel Bound with Full-Length Lethal and Edema Factors

K. Zhou, S. Liu, N. J. Hardenbrook, Y. Cui, B. A. Krantz, Z. Hong Zhou, Structure, 28, 879-887.e3, (2020).

10.1016/j.str.2020.05.009

343

Fragment-based determination of a proteinase K structure from MicroED data using ARCIMBOLDO_SHREDDER

L. S. Richards, C. Millán, J. Miao, M. W. Martynowycz, M. R. Sawaya, T. Gonen, R. J. Borges, I. Usón, J. A. Rodriguez, Acta Crystallographica Section D Structural Biology, 76, 703-712, (2020).

10.1107/s2059798320008049

344

Synchrotron infrared nano-spectroscopy and -imaging

H. A. Bechtel, S. C. Johnson, O. Khatib, E. A. Muller, M. B. Raschke, Surface Science Reports, 75, 100493, (2020).

10.1016/j.surfrep.2020.100493

345

Fingerprinting the Phases of Thin Film Ge2Sb2Te5 with EELS

H. Chan, M. Mecklenburg, W. Hubbard, J. Lodico, B. Zutter, B. C. Regan, Microscopy and Microanalysis, 26, 904-905, (2020).

10.1017/s1431927620016268

346

STEM EBIC Thermometry Calibration with PEET on Al Nanoparticles

W. Hubbard, M. Mecklenburg, B. C. Regan, Microscopy and Microanalysis, 26, 3124-3125, (2020).

10.1017/s1431927620023880

347

Capturing the Atomic Coordinates of Surface and Subsurface Structure in 4D with Atomic Electron Tomography

J. Zhou, Y. Yang, Y. Yang, C. Ophus, F. Sun, A. Schmid, H. Zeng, P. Ercius, J. Miao, Microscopy and Microanalysis, 26, 1794-1796, (2020).

10.1017/s1431927620019364

348

Atomic Electron Tomography: Past, Present and Future

J. Miao, X. Tian, D. Kim, J. Zhou, Y. Yang, Y. Yang, Y. Yuan, C. Ophus, A. Schmid, S. Yang, F. Sun, C. Ciccarino, B. Duschatko, J. Idrobo, P. Narang, H. Zeng, P. Ercius, Microscopy and Microanalysis, 652-654, (2020).

10.1017/s143192762001541x

349

Correlation of Joule Heating and Electromigration-induced Mass Transport within Nanoscale Co Interconnects by In Situ STEM

B. Zutter, M. Mecklenburg, H. Chan, B. C. Regan, Microscopy and Microanalysis, 26, 152-154, (2020).

10.1017/s1431927620013604

350

Electrical Isolation Preserved by Plasma Focused Ion Beam TEM Sample Preparation and Verified with STEM SEEBIC Imaging

M. Mecklenburg, F. Shaapur, W. Hubbard, B. Zutter, B. C. Regan, Microscopy and Microanalysis, 194-195, (2020).

10.1017/s1431927620013756

STROBE Publications

2021