Publications

An atomic model of brome mosaic virus using direct electron detection and real-space optimization

Nature Communications 5: 4808 (2014)
Wang Z, Hryc CF, Bammes B, Afonine PV, Jakana J, Chen DH, Liu X, Baker ML, Kao C, Ludtke SJ, Schmid MF, Adams PD, Chiu W
A rigorously-validated atomic model of brome mosaic virus (BMV) from single-particle cryo-EM using a DDD an damage compensation.

Crystal structure of a nematode-infecting virus

Proceedings of the National Academy of Sciences 111: 12781 - 12786 (2014)
Guo YR, Hryc CF, Jakana J, Jiang H, Wang D, Chiu W, Zhong W, Tao YJ
The crystal structure and cryo-EM 3D reconstruction of an Orsay virus-like particle assembled from recombinant capsid protein (CP).

Improving signal to noise in labeled biological specimens using energy-filtered TEM of sections with a drift correction strategy and a direct detection device

Topics: Biological TEM
Microscopy & Microanalysis 20: 706-714 (2013)
Ramachandra R, Bouwer JC, Mackey MR, Bushong E, Peltier ST, Xuong NH, Ellisman MH
EFTEM imaging using a DDD with motion correction has a 3× improvement in signal compared to a similarly-formatted CCD.

Structure of the AcrAB-TolC multidrug efflux pump

Nature 509: 512-515 (2014)
Du D, Wang Z, James NR, Voss JE, Klimont E, Ohene-Agyei T, Venter H, Chiu W, Luisi BF
The pseudo-atomic structure of a complete multidrug efflux pump in complex with a modulatory protein partner from E. coli.

Visualization of electrode-electrolyte interfaces in LiPF6/EC/DEC electrolyte for lithium ion batteries via in situ TEM

Topics: In situ TEM
Nano Letters 14: 1745-1750 (2014)
Zeng Z, Liang WI, Liao HG, Xin HL, Chu YH, Zheng H
The first published in situ TEM study with a DDD, showing direct visualization of electrochemical lithiation and delithiation of Au anodes.

Quantitative characterization of electron detectors for transmission electron microscopy

Journal of Structural Biology 184: 385-393 (2013)
Ruskin RS, Yu Z, Grigorieff N
A simple software tool for measuring MTF and DQE of electron detectors using a beam stop. DQE curves of various cameras are shown.

Allosteric regulation of DNA cleavage and sequence-specificity through run-on oligomerization

Structure 21: 1848-1858 (2013)
Lyumkis D, Talley H, Stewart A, Shah S, Park CK, Tama F, Potter CS, Carragher B, Horton NC
3D reconstructions of distinct populations of SgrAI oligomers, showing repeating helical structures in the presence of activating DNA.

Noise models and cryo-EM drift correction with a direct-electron camera

Ultramicroscopy 131: 61-69 (2013)
Shigematsu H, Sigworth FJ
A filter that includes a model of noise from “hot” pixels is derived. This optimizes DDD motion correction by cross-correlation.

In silico, in vitro, and in vivo studies indicate the potential use of bolaamphiphiles for therapeutic siRNAs delivery

Molecular Therapy Nucleic Acids 2: e80 (2013)
Kim T, Afonin KA, Viard M, Koyfman AY, Sparks S, Heldman E, Grinberg S, Linder C, Blumenthal RP, Shapiro BA
Two different bolaamphiphiles are compared for their abilities to complex with siRNAs and deliver them into cells inducing gene silencing.

Movies of ice-embedded particles enhance resolution in electron cryo-microscopy

Structure 20: 1823-1828 (2012)
Campbell MG, Cheng A, Brilot AF, Moeller A, Lyumkis D, Veesler D, Pan J, Harrison SC, Potter CS, Carragher B, Grigorieff N
The first high-resolution cryo-EM reconstruction from a DDD, demonstrating the improvement in data quality from motion correction.