Deep learning in bioinformatics: Introduction, application, and perspective in the big data era

Y Li, C Huang, L Ding, Z Li, Y Pan, X Gao - Methods, 2019 - Elsevier
Deep learning, which is especially formidable in handling big data, has achieved great
success in various fields, including bioinformatics. With the advances of the big data era in …

Challenges and opportunities in cryo-EM single-particle analysis

D Lyumkis - Journal of Biological Chemistry, 2019 - ASBMB
Cryogenic electron microscopy (cryo-EM) enables structure determination of
macromolecular objects and their assemblies. Although the techniques have been …

New tools for automated high-resolution cryo-EM structure determination in RELION-3

J Zivanov, T Nakane, BO Forsberg, D Kimanius… - elife, 2018 - elifesciences.org
Here, we describe the third major release of RELION. CPU-based vector acceleration has
been added in addition to GPU support, which provides flexibility in use of resources and …

MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy

SQ Zheng, E Palovcak, JP Armache, KA Verba… - Nature …, 2017 - nature.com
MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron
microscopy | Nature Methods Skip to main content Thank you for visiting nature.com. You are …

Topaz-Denoise: general deep denoising models for cryoEM and cryoET

T Bepler, K Kelley, AJ Noble, B Berger - Nature communications, 2020 - nature.com
Cryo-electron microscopy (cryoEM) is becoming the preferred method for resolving protein
structures. Low signal-to-noise ratio (SNR) in cryoEM images reduces the confidence and …

[PDF][PDF] New tools for the analysis and validation of cryo-EM maps and atomic models

PV Afonine, BP Klaholz, NW Moriarty… - … Section D: Structural …, 2018 - journals.iucr.org
Recent advances in the field of electron cryomicroscopy (cryo-EM) have resulted in a rapidly
increasing number of atomic models of biomacromolecules that have been solved using this …

Atomic-resolution transmission electron microscopy of electron beam–sensitive crystalline materials

D Zhang, Y Zhu, L Liu, X Ying, CE Hsiung, R Sougrat… - Science, 2018 - science.org
High-resolution imaging of electron beam–sensitive materials is one of the most difficult
applications of transmission electron microscopy (TEM). The challenges are manifold …

Cryo-EM in drug discovery: achievements, limitations and prospects

JP Renaud, A Chari, C Ciferri, W Liu… - Nature reviews Drug …, 2018 - nature.com
Cryo-electron microscopy (cryo-EM) of non-crystalline single particles is a biophysical
technique that can be used to determine the structure of biological macromolecules and …

Understanding the invisible hands of sample preparation for cryo-EM

G Weissenberger, RJM Henderikx, PJ Peters - Nature Methods, 2021 - nature.com
Cryo-electron microscopy (cryo-EM) is rapidly becoming an attractive method in the field of
structural biology. With the exploding popularity of cryo-EM, sample preparation must evolve …

[HTML][HTML] Cryo-electron microscopy for structural analysis of dynamic biological macromolecules

K Murata, M Wolf - Biochimica et Biophysica Acta (BBA)-General Subjects, 2018 - Elsevier
Background Since the introduction of what became today's standard for cryo-embedding of
biological macromolecules at native conditions more than 30 years ago, techniques and …