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