Cheng, Yifan

EMRinger: side chain–directed model and map validation for 3D cryo-electron microscopy

Barad, B. A., Echols, N., Wang, R. Y.-R., Cheng, Y., DiMaio, F., Adams, P. D., & Fraser, J. S. (2015) · Nature Methods

Advanced Electron Microscopy Techniques and ApplicationsEnzyme Structure and Function

Cited by 886

Structure of the human transferrin receptor-transferrin complex

Cheng, Y., Zak, O., Aisen, P., Harrison, S. C., & Walz, T. (2004) · Cell

Iron Metabolism and DisordersAdvanced Electron Microscopy Techniques and Applications

Cited by 571

Molecular model for a complete clathrin lattice from electron cryomicroscopy

Fotin, A., Cheng, Y., Sliz, P., Grigorieff, N., Harrison, S. C., Kirchhausen, T., & Walz, T. (2004) · Nature

Cellular transport and secretionAdvanced Electron Microscopy Techniques and Applications

Cited by 541

Docking of the Proteasomal ATPases' Carboxyl Termini in the 20S Proteasome's α Ring Opens the Gate for Substrate Entry

Smith, D. M., Chang, S.-C., Park, S., Finley, D., Cheng, Y., & Goldberg, A. L. (2007) · Molecular Cell

Ubiquitin and proteasome pathwaysHeat shock proteins research

Cited by 521

Automated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta

Wang, R. Y.-R., Song, Y., Barad, B. A., Cheng, Y., Fraser, J. S., & DiMaio, F. (2016) · eLife

Advanced Electron Microscopy Techniques and ApplicationsProtein Structure and Dynamics

Cited by 457

Structure of hepcidin-bound ferroportin reveals iron homeostatic mechanisms

Billesbølle, C. B., Azumaya, C. M., Kretsch, R. C., Powers, A. S., Gonen, S., Schneider, S., Arvedson, T., Dror, R. O., Cheng, Y., & Manglik, A. (2020) · Nature

Iron Metabolism and DisordersFerroptosis and cancer prognosis

Cited by 344

Cryo-EM structures of the TMEM16A calcium-activated chloride channel

Dang, S., Feng, S., Tien, J., Peters, C. J., Bulkley, D., Lolicato, M., Zhao, J., Zuberbühler, K., Ye, W., Qi, L., et al. (2017) · Nature

Ion channel regulation and functionIon Transport and Channel Regulation

Cited by 333

Acetylation-Mediated Proteasomal Degradation of Core Histones during DNA Repair and Spermatogenesis

Qian, M.-X., Pang, Y., Liu, C. H., Haratake, K., Du, B.-Y., Ji, D.-Y., Wang, G.-F., Zhu, Q.-Q., Song, W., Yu, Y., et al. (2013) · Cell

Ubiquitin and proteasome pathwaysGenomics and Chromatin Dynamics

Cited by 330

Structural Basis for Cholesterol Transport-like Activity of the Hedgehog Receptor Patched

Zhang, Y., Bulkley, D. P., Xin, Y., Roberts, K. J., Asarnow, D. E., Sharma, A., Myers, B. R., Cho, W., Cheng, Y., & Beachy, P. A. (2018) · Cell

Hedgehog Signaling Pathway StudiesReceptor Mechanisms and Signaling

Cited by 239

Substrates Control Multimerization and Activation of the Multi-Domain ATPase Motor of Type VII Secretion

Rosenberg, O. S., Dovala, D., Li, X., Connolly, L., Bendebury, A., Finer-Moore, J., Holton, J., Cheng, Y., Stroud, R. M., & Cox, J. S. (2015) · Cell

Tuberculosis Research and EpidemiologyBacterial Genetics and Biotechnology

Cited by 134

Integrin αvβ8–expressing tumor cells evade host immunity by regulating TGF-β activation in immune cells

Takasaka, N., Seed, R. I., Cormier, A., Bondesson, A. J., Lou, J., Elattma, A., Ito, S., Yanagisawa, H., Hashimoto, M., Ma, R., et al. (2018) · JCI Insight

TGF-β signaling in diseasesCancer Immunotherapy and Biomarkers

Cited by 119

Fusion protein strategies for cryo-EM study of G protein-coupled receptors

Zhang, K., Wu, H., Hoppe, N., Manglik, A., & Cheng, Y. (2022) · Nature Communications

Receptor Mechanisms and SignalingAdvanced Electron Microscopy Techniques and Applications

Cited by 91

Fusion protein strategies for cryo-EM study of G protein-coupled receptors

Zhang, K., Wu, H., Hoppe, N., Manglik, A., & Cheng, Y. (2021) · Nature Communications

Receptor Mechanisms and SignalingAdvanced Electron Microscopy Techniques and Applications

Cited by 91

Selective Targeting of TGF-β Activation to Treat Fibroinflammatory Airway Disease

Minagawa, S., Lou, J., Seed, R. I., Cormier, A., Wu, S., Cheng, Y., Murray, L., Tsui, P., Connor, J., Herbst, R., et al. (2014) · Science Translational Medicine

Cell Adhesion Molecules ResearchChronic Obstructive Pulmonary Disease (COPD) Research

Cited by 90

CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes

Gupta, M., Azumaya, C. M., Moritz, M., Pourmal, S., Diallo, A., Merz, G. E., Jang, G., Bouhaddou, M., Fossati, A., Brilot, A. F., et al. (2021) · bioRxiv (Cold Spring Harbor Laboratory)

SARS-CoV-2 and COVID-19 ResearchAdvanced Electron Microscopy Techniques and Applications

Cited by 89

GPU-enabled FREALIGN: Accelerating single particle 3D reconstruction and refinement in Fourier space on graphics processors

Li, X., Grigorieff, N., & Cheng, Y. (2010) · Journal of Structural Biology

Advanced Electron Microscopy Techniques and ApplicationsParallel Computing and Optimization Techniques

Cited by 45

The ΦPA3 Phage Nucleus is Enclosed by a Self-Assembling, 2D Crystalline Lattice

Nieweglowska, E., Brilot, A., Méndez-Moran, M., Baek, M., Li, J., Kokontis, C., Cheng, Y., Baker, D., Bondy-Denomy, J., & Agard, D. (2022) · Nature Communications

Bacteriophages and microbial interactionsAdvanced Electron Microscopy Techniques and Applications

Cited by 45

A distributed multi-GPU system for high speed electron microscopic tomographic reconstruction

Zheng, S. Q., Branlund, E., Kesthelyi, B., Braunfeld, M. B., Cheng, Y., Sedat, J. W., & Agard, D. A. (2011) · Ultramicroscopy

Advanced Electron Microscopy Techniques and ApplicationsParallel Computing and Optimization Techniques

Cited by 13

Latent-TGF-β has a domain swapped architecture

Jin, M., Seed, R. I., Shing, T., Wang, L., Li, J., Cheng, Y., & Nishimura, S. L. (2025) · Nature Communications

TGF-β signaling in diseasesProtease and Inhibitor Mechanisms

Cited by 3