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 …

Brief update on endocytosis of nanomedicines

S Patel, J Kim, M Herrera, A Mukherjee… - Advanced drug delivery …, 2019 - Elsevier
The complexity of nanoscale interactions between biomaterials and cells has limited the
realization of the ultimate vision of nanotechnology in diagnostics and therapeutics. As such …

New tools for automated cryo-EM single-particle analysis in RELION-4.0

D Kimanius, L Dong, G Sharov, T Nakane… - Biochemical …, 2021 - portlandpress.com
We describe new tools for the processing of electron cryo-microscopy (cryo-EM) images in
the fourth major release of the RELION software. In particular, we introduce VDAM, a …

Automated model building and protein identification in cryo-EM maps

K Jamali, L Käll, R Zhang, A Brown, D Kimanius… - Nature, 2024 - nature.com
Interpreting electron cryo-microscopy (cryo-EM) maps with atomic models requires high
levels of expertise and labour-intensive manual intervention in three-dimensional computer …

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 …

nextPYP: a comprehensive and scalable platform for characterizing protein variability in situ using single-particle cryo-electron tomography

HF Liu, Y Zhou, Q Huang, J Piland, W Jin, J Mandel… - Nature …, 2023 - nature.com
Single-particle cryo-electron tomography is an emerging technique capable of determining
the structure of proteins imaged within the native context of cells at molecular resolution …

Real-time cryo-electron microscopy data preprocessing with Warp

D Tegunov, P Cramer - Nature methods, 2019 - nature.com
The acquisition of cryo-electron microscopy (cryo-EM) data from biological specimens must
be tightly coupled to data preprocessing to ensure the best data quality and microscope …

Positive-unlabeled convolutional neural networks for particle picking in cryo-electron micrographs

T Bepler, A Morin, M Rapp, J Brasch, L Shapiro… - Nature …, 2019 - nature.com
Cryo-electron microscopy is a popular method for the determination of protein structures;
however, identifying a sufficient number of particles for analysis can take months of manual …

Cryo-EM structure of alpha-synuclein fibrils

R Guerrero-Ferreira, NMI Taylor, D Mona, P Ringler… - elife, 2018 - elifesciences.org
Parkinson's disease is a progressive neuropathological disorder that belongs to the class of
synucleinopathies, in which the protein alpha-synuclein is found at abnormally high …

[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 …