Cryo-EM Journal Club Spring quater, 2023 Date Reporter Paper Notes May 11 张起 Single-particle based helical reconstruction——how to make the most of real and Fourier space May 11 樊箫 Consistency Models May 25 郑棣瀚 Understanding GPT model through Compression (Talk) May 25 党一鸣 CryoRes: Local Resolution Estimation of Cryo-EM Density Maps by Deep Learning Jun 8 曾祉竣 CryoFormer: Continuous Reconstruction of 3D Structures from Cryo-EM Data using Transformer-based Neural Representations Jun 8 张慧 A method for restoring signals and revealing individual macromolecule states in cryo-ET, REST June 29 张起 Efficient 3D-CTF correction for cryo-electron tomography using NovaCTF improves subtomogram averaging resolution to 3.4A June 29 樊箫 Physics-informed neural networks: A deep learning framework for solving forward and inverse problems involving nonlinear partial differential equations July 13 郑棣瀚 NeRF: Neural Radiance Fields July 13 党一鸣 MonoRes: Automatic and Accurate Estimation of Local Resolution for Electron Microscopy Maps July 27 曾祉竣 Model Reduction and Trajectory Inference Spring quater, 2024 Date Reporter Paper Notes May 9 郑棣瀚 Generalized biomolecular modeling and design with RoseTTAFold All-Atom May 9 张起 Confronting heterogeneity in cryogenic electron microscopy data: Innovative strategies and future perspectives with data-driven methods May 23 党一鸣 DeepQs: Local quality assessment of cryo-EM density map by deep learning map-model fit score May 23 徐煜 Beam-Induced Motion Mechanism and Correction for Improved Cryo-Electron Microscopy and Cryo-Electron Tomography June 6 樊箫 Latent Space Diffusion Models of Cryo-EM Structures June 6 陈昱廷 Addressing preferred orientation in single-particle cryo-EM through AI-generated auxiliary particles Autumn quater, 2024 Date Reporter Paper Notes Sep 12 汪泓宇 NVAE: A Deep Hierarchical Variational Autoencoder Sep 12 祝健颖 CryoMAE: Few-Shot Cryo-EM Particle Picking with Masked Autoencoders Sep 26 廖俊文 Revealing biomolecular structure and motion with neural ab initio cryo-EM reconstruction Oct 24 张慧 VirtualIce: Half-synthetic CryoEM Micrograph Generator Oct 24 张起 Characterisation of molecular motions in cryo-EM single-particle data by multi-body refinement in RELION Dec 5 党一鸣 DiffModeler: large macromolecular structure modeling for cryo-EM maps using a diffusion model Dec 5 祝健颖 Determining structures in a native environment using single-particle cryoelectron microscopy images
