-
1
-
-
84923447206
-
Alignment of direct detection device micrographs using a robust optical flow approach
-
Abrishami, V., Vargas, J., Li, X., Cheng, Y., Marabini, R., Sorzano, C.Ó.S., Carazo, J.M., Alignment of direct detection device micrographs using a robust optical flow approach. J. Struct. Biol. 189 (2015), 163–176, 10.1016/j.jsb.2015.02.001.
-
(2015)
J. Struct. Biol.
, vol.189
, pp. 163-176
-
-
Abrishami, V.1
Vargas, J.2
Li, X.3
Cheng, Y.4
Marabini, R.5
Sorzano, C.Ó.S.6
Carazo, J.M.7
-
2
-
-
84883459241
-
Fourier ring correlation as a resolution criterion for super-resolution microscopy
-
Banterle, N., Bui, K.H., Lemke, E.A., Beck, M., Fourier ring correlation as a resolution criterion for super-resolution microscopy. J. Struct. Biol. 183 (2013), 363–367, 10.1016/j.jsb.2013.05.004.
-
(2013)
J. Struct. Biol.
, vol.183
, pp. 363-367
-
-
Banterle, N.1
Bui, K.H.2
Lemke, E.A.3
Beck, M.4
-
3
-
-
84905974179
-
Structure of β-galactosidase at 3.2-Å resolution obtained by cryo-electron microscopy
-
Bartesaghi, A., Matthies, D., Banerjee, S., Merk, A., Subramaniam, S., Structure of β-galactosidase at 3.2-Å resolution obtained by cryo-electron microscopy. PNAS 111 (2014), 11709–11714, 10.1073/pnas.1402809111.
-
(2014)
PNAS
, vol.111
, pp. 11709-11714
-
-
Bartesaghi, A.1
Matthies, D.2
Banerjee, S.3
Merk, A.4
Subramaniam, S.5
-
4
-
-
84870426502
-
Nanoparticle movement: plasmonic forces and physical constraints
-
Albert Victor Crewe Memorial Issue
-
Batson, P.E., Reyes-Coronado, A., Barrera, R.G., Rivacoba, A., Echenique, P.M., Aizpurua, J., Nanoparticle movement: plasmonic forces and physical constraints. Ultramicroscopy 123 (2012), 50–58, 10.1016/j.ultramic.2012.05.004 Albert Victor Crewe Memorial Issue.
-
(2012)
Ultramicroscopy
, vol.123
, pp. 50-58
-
-
Batson, P.E.1
Reyes-Coronado, A.2
Barrera, R.G.3
Rivacoba, A.4
Echenique, P.M.5
Aizpurua, J.6
-
5
-
-
84862783740
-
Beam-induced motion of vitrified specimen on holey carbon film
-
Brilot, A.F., Chen, J.Z., Cheng, A., Pan, J., Harrison, S.C., Potter, C.S., Carragher, B., Henderson, R., Grigorieff, N., Beam-induced motion of vitrified specimen on holey carbon film. J. Struct. Biol. 177 (2012), 630–637, 10.1016/j.jsb.2012.02.003.
-
(2012)
J. Struct. Biol.
, vol.177
, pp. 630-637
-
-
Brilot, A.F.1
Chen, J.Z.2
Cheng, A.3
Pan, J.4
Harrison, S.C.5
Potter, C.S.6
Carragher, B.7
Henderson, R.8
Grigorieff, N.9
-
6
-
-
84868573207
-
Movies of ice-embedded particles enhance resolution in electron cryo-microscopy
-
Campbell, M.G., Cheng, A., Brilot, A.F., Moeller, A., Lyumkis, D., Veesler, D., Pan, J., Harrison, S.C., Potter, C.S., Carragher, B., Grigorieff, N., Movies of ice-embedded particles enhance resolution in electron cryo-microscopy. Structure 20 (2012), 1823–1828, 10.1016/j.str.2012.08.026.
-
(2012)
Structure
, vol.20
, pp. 1823-1828
-
-
Campbell, M.G.1
Cheng, A.2
Brilot, A.F.3
Moeller, A.4
Lyumkis, D.5
Veesler, D.6
Pan, J.7
Harrison, S.C.8
Potter, C.S.9
Carragher, B.10
Grigorieff, N.11
-
7
-
-
84942932604
-
Viscosity of deeply supercooled water and its coupling to molecular diffusion
-
Dehaoui, A., Issenmann, B., Caupin, F., Viscosity of deeply supercooled water and its coupling to molecular diffusion. PNAS 112 (2015), 12020–12025, 10.1073/pnas.1508996112.
-
(2015)
PNAS
, vol.112
, pp. 12020-12025
-
-
Dehaoui, A.1
Issenmann, B.2
Caupin, F.3
-
8
-
-
11244269506
-
Experimental characterization and mitigation of specimen charging on thin films with one conducting layer
-
Downing, K.H., McCartney, M.R., Glaeser, R.M., Experimental characterization and mitigation of specimen charging on thin films with one conducting layer. Microsc. Microanal. 10 (2004), 783–789, 10.1017/S143192760404067X.
-
(2004)
Microsc. Microanal.
, vol.10
, pp. 783-789
-
-
Downing, K.H.1
McCartney, M.R.2
Glaeser, R.M.3
-
9
-
-
0024007766
-
Cryo-electron microscopy of vitrified specimens
-
Dubochet, J., Adrian, M., Chang, J.-J., Homo, J.-C., Lepault, J., McDowall, A.W., Schultz, P., Cryo-electron microscopy of vitrified specimens. Q. Rev. Biophys. 21 (1988), 129–228, 10.1017/S0033583500004297.
-
(1988)
Q. Rev. Biophys.
, vol.21
, pp. 129-228
-
-
Dubochet, J.1
Adrian, M.2
Chang, J.-J.3
Homo, J.-C.4
Lepault, J.5
McDowall, A.W.6
Schultz, P.7
-
10
-
-
0021609521
-
Noise power spectrum, MTF, and DQE of photoelectric radiographic systems
-
Society of Photo-Optical Instrumentation Engineers San Diego, CA
-
Fu, T., Roehrig, H., Noise power spectrum, MTF, and DQE of photoelectric radiographic systems. Presented at the Applications of Optical Instrumentation in Medicine XII, 1984, Society of Photo-Optical Instrumentation Engineers, San Diego, CA, 377–386.
-
(1984)
Presented at the Applications of Optical Instrumentation in Medicine XII
, pp. 377-386
-
-
Fu, T.1
Roehrig, H.2
-
11
-
-
1442263375
-
Specimen charging on thin films with one conducting layer: discussion of physical principles
-
Glaeser, R.M., Downing, K.H., Specimen charging on thin films with one conducting layer: discussion of physical principles. Microsc. Microanal. 10 (2004), 790–796, 10.1017/S1431927604040668.
-
(2004)
Microsc. Microanal.
, vol.10
, pp. 790-796
-
-
Glaeser, R.M.1
Downing, K.H.2
-
12
-
-
84930634509
-
Measuring the optimal exposure for single particle cryo-EM using a 2.6 Å reconstruction of rotavirus VP6
-
Grant, T., Grigorieff, N., Measuring the optimal exposure for single particle cryo-EM using a 2.6 Å reconstruction of rotavirus VP6. eLife Sci., 4, 2015, e06980, 10.7554/eLife.06980.
-
(2015)
eLife Sci.
, vol.4
, pp. e06980
-
-
Grant, T.1
Grigorieff, N.2
-
13
-
-
0033777020
-
Resolution measurement in structures derived from single particles
-
Grigorieff, N., Resolution measurement in structures derived from single particles. Acta Crystallogr. D Biol. Crystallogr. 56 (2000), 1270–1277.
-
(2000)
Acta Crystallogr. D Biol. Crystallogr.
, vol.56
, pp. 1270-1277
-
-
Grigorieff, N.1
-
14
-
-
40149088424
-
Efficient subpixel image registration algorithms
-
Guizar-Sicairos, M., Thurman, S.T., Fienup, J.R., Efficient subpixel image registration algorithms. Opt. Lett., 33, 2008, 156, 10.1364/OL.33.000156.
-
(2008)
Opt. Lett.
, vol.33
, pp. 156
-
-
Guizar-Sicairos, M.1
Thurman, S.T.2
Fienup, J.R.3
-
15
-
-
1942521362
-
Improved specimen preparation for cryo-electron microscopy using a symmetric carbon sandwich technique
-
Gyobu, N., Tani, K., Hiroaki, Y., Kamegawa, A., Mitsuoka, K., Fujiyoshi, Y., Improved specimen preparation for cryo-electron microscopy using a symmetric carbon sandwich technique. J. Struct. Biol. 146 (2004), 325–333, 10.1016/j.jsb.2004.01.012.
-
(2004)
J. Struct. Biol.
, vol.146
, pp. 325-333
-
-
Gyobu, N.1
Tani, K.2
Hiroaki, Y.3
Kamegawa, A.4
Mitsuoka, K.5
Fujiyoshi, Y.6
-
16
-
-
41449118167
-
Mean free path of inelastic electron scattering in elemental solids and oxides using transmission electron microscopy: atomic number dependent oscillatory behavior
-
Iakoubovskii, K., Mitsuishi, K., Nakayama, Y., Furuya, K., Mean free path of inelastic electron scattering in elemental solids and oxides using transmission electron microscopy: atomic number dependent oscillatory behavior. Phys. Rev. B, 77, 2008, 104102, 10.1103/PhysRevB.77.104102.
-
(2008)
Phys. Rev. B
, vol.77
, pp. 104102
-
-
Iakoubovskii, K.1
Mitsuishi, K.2
Nakayama, Y.3
Furuya, K.4
-
17
-
-
0004171561
-
Brownian Motion and Stochastic Calculus
-
2nd ed. Springer
-
Karatzas, I., Shreve, S.E., Brownian Motion and Stochastic Calculus. 2nd ed., 1991, Springer.
-
(1991)
-
-
Karatzas, I.1
Shreve, S.E.2
-
18
-
-
0002029353
-
The phase correlation image alignment method
-
In: Society, pp.
-
Kuglin, C.D., Hines, D.C., 1975. The phase correlation image alignment method. In: Proceedings, IEEE International Conference on Cybernetics and Society, pp. 163–165.
-
(1975)
Proceedings, IEEE International Conference on Cybernetics an
, pp. 163-165
-
-
Kuglin, C.D.1
Hines, D.C.2
-
19
-
-
0002925011
-
Fast normalized cross-correlation
-
Lewis, J.P., Fast normalized cross-correlation. Vision Interface 10 (1995), 120–123.
-
(1995)
Vision Interface
, vol.10
, pp. 120-123
-
-
Lewis, J.P.1
-
20
-
-
84880848354
-
Electron counting and beam-induced motion correction enable near-atomic-resolution single-particle cryo-EM
-
Li, X., Mooney, P., Zheng, S., Booth, C.R., Braunfeld, M.B., Gubbens, S., Agard, D.A., Cheng, Y., Electron counting and beam-induced motion correction enable near-atomic-resolution single-particle cryo-EM. Nat. Methods 10 (2013), 584–590, 10.1038/nmeth.2472.
-
(2013)
Nat. Methods
, vol.10
, pp. 584-590
-
-
Li, X.1
Mooney, P.2
Zheng, S.3
Booth, C.R.4
Braunfeld, M.B.5
Gubbens, S.6
Agard, D.A.7
Cheng, Y.8
-
21
-
-
84887252893
-
Influence of electron dose rate on electron counting images recorded with the K2 camera
-
Li, X., Zheng, S.Q., Egami, K., Agard, D.A., Cheng, Y., Influence of electron dose rate on electron counting images recorded with the K2 camera. J. Struct. Biol. 184 (2013), 251–260, 10.1016/j.jsb.2013.08.005.
-
(2013)
J. Struct. Biol.
, vol.184
, pp. 251-260
-
-
Li, X.1
Zheng, S.Q.2
Egami, K.3
Agard, D.A.4
Cheng, Y.5
-
22
-
-
0026244960
-
Optimum focus for taking electron holograms
-
Lichte, H., Optimum focus for taking electron holograms. Ultramicroscopy 38 (1991), 13–22, 10.1016/0304-3991(91)90105-F.
-
(1991)
Ultramicroscopy
, vol.38
, pp. 13-22
-
-
Lichte, H.1
-
23
-
-
0033377664
-
EMAN: semiautomated software for high-resolution single-particle reconstructions
-
Ludtke, S.J., Baldwin, P.R., Chiu, W., EMAN: semiautomated software for high-resolution single-particle reconstructions. J. Struct. Biol. 128 (1999), 82–97, 10.1006/jsbi.1999.4174.
-
(1999)
J. Struct. Biol.
, vol.128
, pp. 82-97
-
-
Ludtke, S.J.1
Baldwin, P.R.2
Chiu, W.3
-
24
-
-
84897937344
-
Phase measurement error in summation of electron holography series
-
McLeod, R.A., Bergen, M., Malac, M., Phase measurement error in summation of electron holography series. Ultramicroscopy 141 (2014), 38–50, 10.1016/j.ultramic.2014.03.001.
-
(2014)
Ultramicroscopy
, vol.141
, pp. 38-50
-
-
McLeod, R.A.1
Bergen, M.2
Malac, M.3
-
25
-
-
84908056429
-
Comparison of optimal performance at 300 keV of three direct electron detectors for use in low dose electron microscopy
-
McMullan, G., Faruqi, A.R., Clare, D., Henderson, R., Comparison of optimal performance at 300 keV of three direct electron detectors for use in low dose electron microscopy. Ultramicroscopy 147 (2014), 156–163, 10.1016/j.ultramic.2014.08.002.
-
(2014)
Ultramicroscopy
, vol.147
, pp. 156-163
-
-
McMullan, G.1
Faruqi, A.R.2
Clare, D.3
Henderson, R.4
-
26
-
-
84934905971
-
Thon rings from amorphous ice and implications of beam-induced Brownian motion in single particle electron cryo-microscopy
-
McMullan, G., Vinothkumar, K.R., Henderson, R., Thon rings from amorphous ice and implications of beam-induced Brownian motion in single particle electron cryo-microscopy. Ultramicroscopy 158 (2015), 26–32, 10.1016/j.ultramic.2015.05.017.
-
(2015)
Ultramicroscopy
, vol.158
, pp. 26-32
-
-
McMullan, G.1
Vinothkumar, K.R.2
Henderson, R.3
-
27
-
-
84922384982
-
Nanoscale temperature mapping in operating microelectronic devices
-
Mecklenburg, M., Hubbard, W.A., White, E.R., Dhall, R., Cronin, S.B., Aloni, S., Regan, B.C., Nanoscale temperature mapping in operating microelectronic devices. Science 347 (2015), 629–632, 10.1126/science.aaa2433.
-
(2015)
Science
, vol.347
, pp. 629-632
-
-
Mecklenburg, M.1
Hubbard, W.A.2
White, E.R.3
Dhall, R.4
Cronin, S.B.5
Aloni, S.6
Regan, B.C.7
-
28
-
-
0004255908
-
Machine Learning
-
1st ed. McGraw-Hill Education
-
Mitchell, T.M., Machine Learning. 1st ed., 1997, McGraw-Hill Education http://www.cs.cmu.edu/~tom/mlbook.html.
-
(1997)
-
-
Mitchell, T.M.1
-
29
-
-
0038441501
-
Accurate determination of local defocus and specimen tilt in electron microscopy
-
Mindell, J.A., Grigorieff, N., Accurate determination of local defocus and specimen tilt in electron microscopy. J. Struct. Biol. 142 (2003), 334–347, 10.1016/S1047-8477(03)00069-8.
-
(2003)
J. Struct. Biol.
, vol.142
, pp. 334-347
-
-
Mindell, J.A.1
Grigorieff, N.2
-
30
-
-
33847192758
-
Optimization of image collection for cellular electron microscopy
-
Academic Press
-
Mooney, P., McIntosh, J.R., Optimization of image collection for cellular electron microscopy. Methods Cell Biol, 2007, 661–719 Academic Press.
-
(2007)
Methods Cell Biol
, pp. 661-719
-
-
Mooney, P.1
McIntosh, J.R.2
-
31
-
-
84886635386
-
Performance evaluation metrics and statistics for positional tracker evaluation
-
J.L. Crowley J.H. Piater M. Vincze L. Paletta Springer Berlin Heidelberg
-
Needham, C.J., Boyle, R.D., Performance evaluation metrics and statistics for positional tracker evaluation. Crowley, J.L., Piater, J.H., Vincze, M., Paletta, L., (eds.) Computer Vision Systems Lecture Notes in Computer Science, 2003, Springer, Berlin Heidelberg, 278–289.
-
(2003)
Computer Vision Systems, Lecture Notes in Computer Science
, pp. 278-289
-
-
Needham, C.J.1
Boyle, R.D.2
-
32
-
-
84880765999
-
Measuring image resolution in optical nanoscopy
-
Nieuwenhuizen, R.P.J., Lidke, K.A., Bates, M., Puig, D.L., Grünwald, D., Stallinga, S., Rieger, B., Measuring image resolution in optical nanoscopy. Nat. Methods 10 (2013), 557–562, 10.1038/nmeth.2448.
-
(2013)
Nat. Methods
, vol.10
, pp. 557-562
-
-
Nieuwenhuizen, R.P.J.1
Lidke, K.A.2
Bates, M.3
Puig, D.L.4
Grünwald, D.5
Stallinga, S.6
Rieger, B.7
-
33
-
-
84860145732
-
Masked object registration in the Fourier domain
-
Padfield, D., Masked object registration in the Fourier domain. IEEE Trans. Image Process. 21 (2012), 2706–2718, 10.1109/TIP.2011.2181402.
-
(2012)
IEEE Trans. Image Process.
, vol.21
, pp. 2706-2718
-
-
Padfield, D.1
-
34
-
-
84946488108
-
CTFFIND4: fast and accurate defocus estimation from electron micrographs
-
Rohou, A., Grigorieff, N., CTFFIND4: fast and accurate defocus estimation from electron micrographs. J. Struct. Biol. Recent Adv. Detector Technol. Appl. Mol. TEM 192 (2015), 216–221, 10.1016/j.jsb.2015.08.008.
-
(2015)
J. Struct. Biol. Recent Adv. Detector Technol. Appl. Mol. TEM
, vol.192
, pp. 216-221
-
-
Rohou, A.1
Grigorieff, N.2
-
35
-
-
0037375602
-
Particle finding in electron micrographs using a fast local correlation algorithm
-
Roseman, A.M., Particle finding in electron micrographs using a fast local correlation algorithm. Ultramicroscopy 94 (2003), 225–236, 10.1016/S0304-3991(02)00333-9.
-
(2003)
Ultramicroscopy
, vol.94
, pp. 225-236
-
-
Roseman, A.M.1
-
36
-
-
84928390823
-
Alignment of cryo-EM movies of individual particles by optimization of image translations
-
arXiv:1409.6789 [physics, q-bio].
-
Rubinstein, J.L., Brubaker, M.A., 2014. Alignment of cryo-EM movies of individual particles by optimization of image translations. arXiv:1409.6789 [physics, q-bio].
-
(2014)
-
-
Rubinstein, J.L.1
Brubaker, M.A.2
-
37
-
-
84888064039
-
Quantitative characterization of electron detectors for transmission electron microscopy
-
Ruskin, R.S., Yu, Z., Grigorieff, N., Quantitative characterization of electron detectors for transmission electron microscopy. J. Struct. Biol. 184 (2013), 385–393, 10.1016/j.jsb.2013.10.016.
-
(2013)
J. Struct. Biol.
, vol.184
, pp. 385-393
-
-
Ruskin, R.S.1
Yu, Z.2
Grigorieff, N.3
-
38
-
-
0019987933
-
The correlation averaging of a regularly arranged bacterial cell envelope protein
-
Saxton, W.O., Baumeister, W., The correlation averaging of a regularly arranged bacterial cell envelope protein. J. Microsc. 127 (1982), 127–138, 10.1111/j.1365-2818.1982.tb00405.x.
-
(1982)
J. Microsc.
, vol.127
, pp. 127-138
-
-
Saxton, W.O.1
Baumeister, W.2
-
39
-
-
84866078359
-
Prevention of overfitting in cryo-EM structure determination
-
Scheres, S.H.W., Chen, S., Prevention of overfitting in cryo-EM structure determination. Nat. Methods 9 (2012), 853–854, 10.1038/nmeth.2115.
-
(2012)
Nat. Methods
, vol.9
, pp. 853-854
-
-
Scheres, S.H.W.1
Chen, S.2
-
40
-
-
84920942671
-
Beam-induced motion correction for sub-megadalton cryo-EM particles
-
Scheres, S.H., Beam-induced motion correction for sub-megadalton cryo-EM particles. eLife, 3, 2014, 03665, 10.7554/eLife.03665.
-
(2014)
eLife
, vol.3
, pp. 03665
-
-
Scheres, S.H.1
-
41
-
-
0001262105
-
A note on the heavy-atom method
-
Sim, G.A., A note on the heavy-atom method. Acta Crystallogr. A, 13, 1960, 511.
-
(1960)
Acta Crystallogr. A
, vol.13
, pp. 511
-
-
Sim, G.A.1
-
42
-
-
84939269598
-
3D reconstruction of two-dimensional crystals
-
Stahlberg, H., Biyani, N., Engel, A., 3D reconstruction of two-dimensional crystals. Arch. Biochem. Biophys. Electron Microsc. Struct. Biol. 581 (2015), 68–77, 10.1016/j.abb.2015.06.006.
-
(2015)
Arch. Biochem. Biophys. Electron Microsc. Struct. Biol.
, vol.581
, pp. 68-77
-
-
Stahlberg, H.1
Biyani, N.2
Engel, A.3
-
43
-
-
8844219659
-
Noise bias in the refinement of structures derived from single particles
-
Stewart, A., Grigorieff, N., Noise bias in the refinement of structures derived from single particles. Ultramicroscopy 102 (2004), 67–84, 10.1016/j.ultramic.2004.08.008.
-
(2004)
Ultramicroscopy
, vol.102
, pp. 67-84
-
-
Stewart, A.1
Grigorieff, N.2
-
44
-
-
0002573122
-
Anthropod hemocyanin structures studied by image analysis
-
In: The Structure and Function of Invertebrate Respiratory Proteins. Presented at the EMBO Workshop, Leeds.
-
van Heel, M., Keegstra, W., Schutter, W., van Bruggen, E.F.J., 1982. Anthropod hemocyanin structures studied by image analysis. In: The Structure and Function of Invertebrate Respiratory Proteins. Presented at the EMBO Workshop, Leeds.
-
(1982)
-
-
van Heel, M.1
Keegstra, W.2
Schutter, W.3
van Bruggen, E.F.J.4
-
45
-
-
25144494651
-
Fourier shell correlation threshold criteria
-
van Heel, M., Schatz, M., Fourier shell correlation threshold criteria. J. Struct. Biol. 151 (2005), 250–262, 10.1016/j.jsb.2005.05.009.
-
(2005)
J. Struct. Biol.
, vol.151
, pp. 250-262
-
-
van Heel, M.1
Schatz, M.2
-
46
-
-
0000560869
-
Global optimization by basin-hopping and the lowest energy structures of Lennard-Jones clusters containing up to 110 atoms
-
Wales, D.J., Doye, J.P.K., Global optimization by basin-hopping and the lowest energy structures of Lennard-Jones clusters containing up to 110 atoms. J. Phys. Chem. A 101 (1997), 5111–5116, 10.1021/jp970984n.
-
(1997)
J. Phys. Chem. A
, vol.101
, pp. 5111-5116
-
-
Wales, D.J.1
Doye, J.P.K.2
-
47
-
-
84955216953
-
Gctf: real-time CTF determination and correction
-
Zhang, K., Gctf: real-time CTF determination and correction. J. Struct. Biol. 193 (2016), 1–12, 10.1016/j.jsb.2015.11.003.
-
(2016)
J. Struct. Biol.
, vol.193
, pp. 1-12
-
-
Zhang, K.1
-
48
-
-
0031345518
-
Algorithm 778: L-BFGS-B: Fortran subroutines for large-scale bound-constrained optimization
-
Zhu, C., Byrd, R.H., Lu, P., Nocedal, J., Algorithm 778: L-BFGS-B: Fortran subroutines for large-scale bound-constrained optimization. ACM Trans. Math. Softw. 23 (1997), 550–560, 10.1145/279232.279236.
-
(1997)
ACM Trans. Math. Softw.
, vol.23
, pp. 550-560
-
-
Zhu, C.1
Byrd, R.H.2
Lu, P.3
Nocedal, J.4
|