A citation-based method for searching scientific literature

Ka Man Yip, Niels Fischer, Elham Paknia, Ashwin Chari, Holger Stark. Nature 2020
Times Cited: 202







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



Times Cited
  Times     Co-cited
Similarity


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
72

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
30

cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination.
Ali Punjani, John L Rubinstein, David J Fleet, Marcus A Brubaker. Nat Methods 2017
27

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
26

Biochemistry. The resolution revolution.
Werner Kühlbrandt. Science 2014
601
24

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
24



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
17

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
17

UCSF ChimeraX: Structure visualization for researchers, educators, and developers.
Eric F Pettersen, Thomas D Goddard, Conrad C Huang, Elaine C Meng, Gregory S Couch, Tristan I Croll, John H Morris, Thomas E Ferrin. Protein Sci 2021
16

Accurate prediction of protein structures and interactions using a three-track neural network.
Minkyung Baek, Frank DiMaio, Ivan Anishchenko, Justas Dauparas, Sergey Ovchinnikov, Gyu Rie Lee, Jue Wang, Qian Cong, Lisa N Kinch, R Dustin Schaeffer,[...]. Science 2021
772
16


Resolving individual atoms of protein complex by cryo-electron microscopy.
Kaiming Zhang, Grigore D Pintilie, Shanshan Li, Michael F Schmid, Wah Chiu. Cell Res 2020
31
48

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
15

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
16


CryoDRGN: reconstruction of heterogeneous cryo-EM structures using neural networks.
Ellen D Zhong, Tristan Bepler, Bonnie Berger, Joseph H Davis. Nat Methods 2021
91
15

Features and development of Coot.
P Emsley, B Lohkamp, W G Scott, K Cowtan. Acta Crystallogr D Biol Crystallogr 2010
14

Cryo-EM with sub-1 Å specimen movement.
Katerina Naydenova, Peipei Jia, Christopher J Russo. Science 2020
45
28

CTFFIND4: Fast and accurate defocus estimation from electron micrographs.
Alexis Rohou, Nikolaus Grigorieff. J Struct Biol 2015
13

Structure of the TRPV1 ion channel determined by electron cryo-microscopy.
Maofu Liao, Erhu Cao, David Julius, Yifan Cheng. Nature 2013
12


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
12


Real-time cryo-electron microscopy data preprocessing with Warp.
Dimitry Tegunov, Patrick Cramer. Nat Methods 2019
329
11

MolProbity: More and better reference data for improved all-atom structure validation.
Christopher J Williams, Jeffrey J Headd, Nigel W Moriarty, Michael G Prisant, Lizbeth L Videau, Lindsay N Deis, Vishal Verma, Daniel A Keedy, Bradley J Hintze, Vincent B Chen,[...]. Protein Sci 2018
11

Quantifying the local resolution of cryo-EM density maps.
Alp Kucukelbir, Fred J Sigworth, Hemant D Tagare. Nat Methods 2014
11

Characterisation of molecular motions in cryo-EM single-particle data by multi-body refinement in RELION.
Takanori Nakane, Dari Kimanius, Erik Lindahl, Sjors Hw Scheres. Elife 2018
246
10

Reducing effects of particle adsorption to the air-water interface in cryo-EM.
Alex J Noble, Hui Wei, Venkata P Dandey, Zhening Zhang, Yong Zi Tan, Clinton S Potter, Bridget Carragher. Nat Methods 2018
92
10

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

Cryo-Electron Microscopy Methodology: Current Aspects and Future Directions.
Radostin Danev, Haruaki Yanagisawa, Masahide Kikkawa. Trends Biochem Sci 2019
93
9

Cryo-EM structures from sub-nl volumes using pin-printing and jet vitrification.
Raimond B G Ravelli, Frank J T Nijpels, Rene J M Henderikx, Giulia Weissenberger, Sanne Thewessem, Abril Gijsbers, Bart W A M M Beulen, Carmen López-Iglesias, Peter J Peters. Nat Commun 2020
52
17

Protein denaturation at the air-water interface and how to prevent it.
Edoardo D'Imprima, Davide Floris, Mirko Joppe, Ricardo Sánchez, Martin Grininger, Werner Kühlbrandt. Elife 2019
115
9

Specimen Preparation for High-Resolution Cryo-EM.
L A Passmore, C J Russo. Methods Enzymol 2016
80
11

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
9

Sub-2 Angstrom resolution structure determination using single-particle cryo-EM at 200 keV.
Mengyu Wu, Gabriel C Lander, Mark A Herzik. J Struct Biol X 2020
29
31

EMAN2: an extensible image processing suite for electron microscopy.
Guang Tang, Liwei Peng, Philip R Baldwin, Deepinder S Mann, Wen Jiang, Ian Rees, Steven J Ludtke. J Struct Biol 2007
9

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
9



The promise and the challenges of cryo-electron tomography.
Martin Turk, Wolfgang Baumeister. FEBS Lett 2020
73
12

Cryo-EM model validation recommendations based on outcomes of the 2019 EMDataResource challenge.
Catherine L Lawson, Andriy Kryshtafovych, Paul D Adams, Pavel V Afonine, Matthew L Baker, Benjamin A Barad, Paul Bond, Tom Burnley, Renzhi Cao, Jianlin Cheng,[...]. Nat Methods 2021
31
29


Trends in the Electron Microscopy Data Bank (EMDB).
Ardan Patwardhan. Acta Crystallogr D Struct Biol 2017
51
17

How cryo-EM is revolutionizing structural biology.
Xiao-chen Bai, Greg McMullan, Sjors H W Scheres. Trends Biochem Sci 2015
435
9

SPHIRE-crYOLO is a fast and accurate fully automated particle picker for cryo-EM.
Thorsten Wagner, Felipe Merino, Markus Stabrin, Toshio Moriya, Claudia Antoni, Amir Apelbaum, Philine Hagel, Oleg Sitsel, Tobias Raisch, Daniel Prumbaum,[...]. Commun Biol 2019
402
8

Need for Speed: Examining Protein Behavior during CryoEM Grid Preparation at Different Timescales.
David P Klebl, Molly S C Gravett, Dimitrios Kontziampasis, David J Wright, Robin S Bon, Diana C F Monteiro, Martin Trebbin, Frank Sobott, Howard D White, Michele C Darrow,[...]. Structure 2020
34
23

The Protein Data Bank.
H M Berman, J Westbrook, Z Feng, G Gilliland, T N Bhat, H Weissig, I N Shindyalov, P E Bourne. Nucleic Acids Res 2000
8

Multifunctional graphene supports for electron cryomicroscopy.
Katerina Naydenova, Mathew J Peet, Christopher J Russo. Proc Natl Acad Sci U S A 2019
56
14


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.