A citation-based method for searching scientific literature


List of co-cited articles
596 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy.
Shawn Q Zheng, Eugene Palovcak, Jean-Paul Armache, Kliment A Verba, Yifan Cheng, David A Agard. Nat Methods 2017
65

UCSF Chimera--a visualization system for exploratory research and analysis.
Eric F Pettersen, Thomas D Goddard, Conrad C Huang, Gregory S Couch, Daniel M Greenblatt, Elaine C Meng, Thomas E Ferrin. J Comput Chem 2004
48

New tools for automated high-resolution cryo-EM structure determination in RELION-3.
Jasenko Zivanov, Takanori Nakane, Björn O Forsberg, Dari Kimanius, Wim Jh Hagen, Erik Lindahl, Sjors Hw Scheres. Elife 2018
45



Features and development of Coot.
P Emsley, B Lohkamp, W G Scott, K Cowtan. Acta Crystallogr D Biol Crystallogr 2010
35

cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination.
Ali Punjani, John L Rubinstein, David J Fleet, Marcus A Brubaker. Nat Methods 2017
31

PHENIX: a comprehensive Python-based system for macromolecular structure solution.
Paul D Adams, Pavel V Afonine, Gábor Bunkóczi, Vincent B Chen, Ian W Davis, Nathaniel Echols, Jeffrey J Headd, Li-Wei Hung, Gary J Kapral, Ralf W Grosse-Kunstleve,[...]. Acta Crystallogr D Biol Crystallogr 2010
30


CTFFIND4: Fast and accurate defocus estimation from electron micrographs.
Alexis Rohou, Nikolaus Grigorieff. J Struct Biol 2015
26

Computer visualization of three-dimensional image data using IMOD.
J R Kremer, D N Mastronarde, J R McIntosh. J Struct Biol 1996
26


High-resolution noise substitution to measure overfitting and validate resolution in 3D structure determination by single particle electron cryomicroscopy.
Shaoxia Chen, Greg McMullan, Abdul R Faruqi, Garib N Murshudov, Judith M Short, Sjors H W Scheres, Richard Henderson. Ultramicroscopy 2013
554
24


Electron counting and beam-induced motion correction enable near-atomic-resolution single-particle cryo-EM.
Xueming Li, Paul Mooney, Shawn Zheng, Christopher R Booth, Michael B Braunfeld, Sander Gubbens, David A Agard, Yifan Cheng. Nat Methods 2013
21


Dynamo: a flexible, user-friendly development tool for subtomogram averaging of cryo-EM data in high-performance computing environments.
Daniel Castaño-Díez, Mikhail Kudryashev, Marcel Arheit, Henning Stahlberg. J Struct Biol 2012
192
19

Efficient 3D-CTF correction for cryo-electron tomography using NovaCTF improves subtomogram averaging resolution to 3.4Å.
Beata Turoňová, Florian K M Schur, William Wan, John A G Briggs. J Struct Biol 2017
122
19

Single-particle cryo-EM at atomic resolution.
Takanori Nakane, Abhay Kotecha, Andrija Sente, Greg McMullan, Simonas Masiulis, Patricia M G E Brown, Ioana T Grigoras, Lina Malinauskaite, Tomas Malinauskas, Jonas Miehling,[...]. Nature 2020
274
19

Real-space refinement in PHENIX for cryo-EM and crystallography.
Pavel V Afonine, Billy K Poon, Randy J Read, Oleg V Sobolev, Thomas C Terwilliger, Alexandre Urzhumtsev, Paul D Adams. Acta Crystallogr D Struct Biol 2018
924
16

An atomic model of HIV-1 capsid-SP1 reveals structures regulating assembly and maturation.
Florian K M Schur, Martin Obr, Wim J H Hagen, William Wan, Arjen J Jakobi, Joanna M Kirkpatrick, Carsten Sachse, Hans-Georg Kräusslich, John A G Briggs. Science 2016
238
16

Accelerated cryo-EM structure determination with parallelisation using GPUs in RELION-2.
Dari Kimanius, Björn O Forsberg, Sjors Hw Scheres, Erik Lindahl. Elife 2016
670
15

Atomic-resolution protein structure determination by cryo-EM.
Ka Man Yip, Niels Fischer, Elham Paknia, Ashwin Chari, Holger Stark. Nature 2020
202
15


Beam-induced motion of vitrified specimen on holey carbon film.
Axel F Brilot, James Z Chen, Anchi Cheng, Junhua Pan, Stephen C Harrison, Clinton S Potter, Bridget Carragher, Richard Henderson, Nikolaus Grigorieff. J Struct Biol 2012
241
14

Automated tilt series alignment and tomographic reconstruction in IMOD.
David N Mastronarde, Susannah R Held. J Struct Biol 2017
233
14


Addressing preferred specimen orientation in single-particle cryo-EM through tilting.
Yong Zi Tan, Philip R Baldwin, Joseph H Davis, James R Williamson, Clinton S Potter, Bridget Carragher, Dmitry Lyumkis. Nat Methods 2017
365
13

Quantifying the local resolution of cryo-EM density maps.
Alp Kucukelbir, Fred J Sigworth, Hemant D Tagare. Nat Methods 2014
12

Biochemistry. The resolution revolution.
Werner Kühlbrandt. Science 2014
601
12

cisTEM, user-friendly software for single-particle image processing.
Timothy Grant, Alexis Rohou, Nikolaus Grigorieff. Elife 2018
453
12

Real-time cryo-electron microscopy data preprocessing with Warp.
Dimitry Tegunov, Patrick Cramer. Nat Methods 2019
329
12

Multi-particle cryo-EM refinement with M visualizes ribosome-antibiotic complex at 3.5 Å in cells.
Dimitry Tegunov, Liang Xue, Christian Dienemann, Patrick Cramer, Julia Mahamid. Nat Methods 2021
87
12

Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix.
Dorothee Liebschner, Pavel V Afonine, Matthew L Baker, Gábor Bunkóczi, Vincent B Chen, Tristan I Croll, Bradley Hintze, Li Wei Hung, Swati Jain, Airlie J McCoy,[...]. Acta Crystallogr D Struct Biol 2019
10

A Bayesian approach to beam-induced motion correction in cryo-EM single-particle analysis.
Jasenko Zivanov, Takanori Nakane, Sjors H W Scheres. IUCrJ 2019
336
10

Cryo-electron microscopy of vitrified specimens.
J Dubochet, M Adrian, J J Chang, J C Homo, J Lepault, A W McDowall, P Schultz. Q Rev Biophys 1988
10

The energy dependence of contrast and damage in electron cryomicroscopy of biological molecules.
Mathew J Peet, Richard Henderson, Christopher J Russo. Ultramicroscopy 2019
49
20

Structure and architecture of immature and mature murine leukemia virus capsids.
Kun Qu, Bärbel Glass, Michal Doležal, Florian K M Schur, Brice Murciano, Alan Rein, Michaela Rumlová, Tomáš Ruml, Hans-Georg Kräusslich, John A G Briggs. Proc Natl Acad Sci U S A 2018
48
20

UCSF ChimeraX: Meeting modern challenges in visualization and analysis.
Thomas D Goddard, Conrad C Huang, Elaine C Meng, Eric F Pettersen, Gregory S Couch, John H Morris, Thomas E Ferrin. Protein Sci 2018
10

Highly accurate protein structure prediction with AlphaFold.
John Jumper, Richard Evans, Alexander Pritzel, Tim Green, Michael Figurnov, Olaf Ronneberger, Kathryn Tunyasuvunakool, Russ Bates, Augustin Žídek, Anna Potapenko,[...]. Nature 2021
10


Structure and assembly of the Ebola virus nucleocapsid.
William Wan, Larissa Kolesnikova, Mairi Clarke, Alexander Koehler, Takeshi Noda, Stephan Becker, John A G Briggs. Nature 2017
106
9

Accurate determination of local defocus and specimen tilt in electron microscopy.
Joseph A Mindell, Nikolaus Grigorieff. J Struct Biol 2003
9

MolProbity: all-atom structure validation for macromolecular crystallography.
Vincent B Chen, W Bryan Arendall, Jeffrey J Headd, Daniel A Keedy, Robert M Immormino, Gary J Kapral, Laura W Murray, Jane S Richardson, David C Richardson. Acta Crystallogr D Biol Crystallogr 2010
9

Coot: model-building tools for molecular graphics.
Paul Emsley, Kevin Cowtan. Acta Crystallogr D Biol Crystallogr 2004
9

High resolution single particle cryo-electron microscopy using beam-image shift.
Anchi Cheng, Edward T Eng, Lambertus Alink, William J Rice, Kelsey D Jordan, Laura Y Kim, Clinton S Potter, Bridget Carragher. J Struct Biol 2018
59
15

A complete data processing workflow for cryo-ET and subtomogram averaging.
Muyuan Chen, James M Bell, Xiaodong Shi, Stella Y Sun, Zhao Wang, Steven J Ludtke. Nat Methods 2019
66
13

Cryo-EM with sub-1 Å specimen movement.
Katerina Naydenova, Peipei Jia, Christopher J Russo. Science 2020
45
20


Single particle electron cryomicroscopy: trends, issues and future perspective.
Kutti R Vinothkumar, Richard Henderson. Q Rev Biophys 2016
107
8


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.