[3dem] Image process supports for emergency COVID-19 Cryo-ET 3D reconstruction

[gren at lbl.gov]

Dear cryo-EM community

 

The Molecular Foundry is offering free support (human and computing power) for emergency COVID-19 research via processing users’ cryo-electron tomography (cryo-ET) data for 3D reconstruction at a single-molecule level (no averaging from different molecule, at a low to intermediate 3D resolution). Our specialized support includes low-contrast image enhancement, individual-particle 3D reconstruction and missing-wedge correction by in-house software that was developed for handling the floppy macromolecules with structural heterogeneity or variety including viral infection of a cell. Combined with our experience molecular structural modeling and molecular dynamics simulations, we may help illuminate the molecular mechanism. 

 

All work will take place remotely. Molecular Foundry staff will process cryo-ET data from users remotely and discuss through video conferencing. All results will belong to users.

 

References

*	 <https://www.ncbi.nlm.nih.gov/pubmed/30420636> An Algorithm for Enhancing the Image Contrast of Electron Tomography,  H. Wu, et. al., Scientific Reports., (2018), 8(1):16711, PMID: 30420636
*	 <https://www.ncbi.nlm.nih.gov/pubmed/30557627> Single-Molecule 3D Imaging of Human Plasma Intermediate-Density Lipoproteins Reveals a Polyhedral Structure, D. Lei, et. al., BBA Molecular and Cell Biology of Lipids , (2019), 1864(3):260-270
*	 <http://www.nature.com/articles/s41467-018-03018-0> 3D Structural Dynamics of DNA Origami Mechanisms and Machines Using Individual-Particle Electron Tomography, D. Lei, et. al., Nature Communications, (2018), 9:592, DOI: 10.1038/s41467-018-03018-0
*	 <http://www.ncbi.nlm.nih.gov/pubmed/27143480> Insights into the Tunnel Mechanism of Cholesteryl Ester Transfer using All-atom Molecular Dynamics Simulations, D. Lei, et. al.,, Journal of Biological Chemistry, (2016), 291(27):14034-44, doi: 10.1074

 

Best regards

Gary

 

Gang (Gary) Ren, Staff Scientist, P.I.

Lawrence Berkeley National Laboratory

Molecular Foundry, Room: 2220

1 Cyclotron Road, MS 67R2206

Berkeley CA 94720-8197

Phone: (510) 495-2375; Fax: (510) 486-7268

Email:  <mailto:gren at lbl.gov> gren at lbl.gov;  <https://rengroup.lbl.gov/> https://rengroup.lbl.gov/

 

 

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