Advanced Electron Microscopy Techniques and Applications

MemBrain v2: an end-to-end tool for the analysis of membranes in cryo-electron tomography

MemBrain v2 couples a generalist U-Net cryo-ET membrane segmenter, a mesh-based picker reaching 91% F1 for photosystem II from one annotated membrane, and geodesic particle statistics.

AreTomoLive: Automated reconstruction of comprehensively-corrected and denoised cryo-electron tomograms in real-time and at high throughput

AreTomo3 and DenoisET form an automated GPU pipeline that reconstructs cryo-electron tomograms with tile-based contrast transfer function correction, screens their quality, and denoises them during acquisition.

Towards community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii

Automated cryogenic plasma-focused ion beam milling and cryo-electron tomography of Chlamydomonas reinhardtii yield 1,829 annotated cellular tomograms and sub-nanometer in situ structures of six macromolecular complexes.

Charting the molecular landscape of neuronal organisation within the hippocampus using cryo electron tomography

Xenon plasma FIB cryo lift-out from high-pressure-frozen mouse hippocampal slices up to 200 µm thick enables fluorescence-guided cryoET of CA1 synapses and apical dendrite cytoskeleton.

Complex Water Networks Visualized through 2.2-2.3 Angstrom Cryogenic Electron Microscopy of RNA

Two Tetrahymena ribozyme cryo-EM maps (2.2 and 2.3 Å) reveal cross-validated ordered waters and Mg2+ ions, plus reproducible diffuse solvent density resembling molecular dynamics water networks.

Automated model building and protein identification in cryo-EM maps

ModelAngelo combines convolutional and graph neural networks with protein language model embeddings and hidden Markov model searches to automate atomic model building and identify unknown proteins in cryo-EM maps.

Helical reconstruction in RELION

RELION 2.0 adds empirical Bayesian helical reconstruction with orientation priors, filament-level half-sets and local twist/rise optimisation, yielding near-atomic maps for four filament datasets.