User profiles for Colin M. Palmer

Colin M Palmer

CCP-EM
Verified email at stfc.ac.uk
Cited by 714

[HTML][HTML] Recent developments in the CCP-EM software suite

T Burnley, CM Palmer, M Winn - Acta Crystallographica Section D …, 2017 - scripts.iucr.org
As part of its remit to provide computational support to the cryo-EM community, the Collaborative
Computational Project for Electron cryo-Microscopy (CCP-EM) has produced a software …

[HTML][HTML] Cryo-EM single-particle structure refinement and map calculation using Servalcat

K Yamashita, CM Palmer, T Burnley… - … Section D: Structural …, 2021 - scripts.iucr.org
In 2020, cryo-EM single-particle analysis achieved true atomic resolution thanks to
technological developments in hardware and software. The number of high-resolution …

[HTML][HTML] Cryo-EM model validation recommendations based on outcomes of the 2019 EMDataResource challenge

…, S Mittal, B Monastyrskyy, M Olek, CM Palmer… - Nature …, 2021 - nature.com
This paper describes outcomes of the 2019 Cryo-EM Model Challenge. The goals were to (1)
assess the quality of models that can be produced from cryogenic electron microscopy (…

[HTML][HTML] Mitigating local over-fitting during single particle reconstruction with SIDESPLITTER

K Ramlaul, CM Palmer, T Nakane… - Journal of structural biology, 2020 - Elsevier
Single particle analysis has become a key structural biology technique. Experimental images
are extremely noisy, and during iterative refinement it is possible to stably incorporate …

[HTML][HTML] A local agreement filtering algorithm for transmission EM reconstructions

K Ramlaul, CM Palmer, CHS Aylett - Journal of structural biology, 2019 - Elsevier
We present LAFTER, an algorithm for de-noising single particle reconstructions from cryo-EM.
Single particle analysis entails the reconstruction of high-resolution volumes from tens of …

[HTML][HTML] A cylindrical specimen holder for electron cryo-tomography

CM Palmer, J Löwe - Ultramicroscopy, 2014 - Elsevier
The use of slab-like flat specimens for electron cryo-tomography restricts the range of
viewing angles that can be used. This leads to the “missing wedge” problem, which causes …

[HTML][HTML] Real space in cryo-EM: the future is local

CM Palmer, CHS Aylett - Acta Crystallographica Section D: Structural …, 2022 - scripts.iucr.org
Cryo-EM images have extremely low signal-to-noise levels because biological macromolecules
are highly radiation-sensitive, requiring low-dose imaging, and because the molecules …

[HTML][HTML] Predicting protein function from structure—the roles of short-chain dehydrogenase/reductase enzymes in Bordetella O-antigen biosynthesis

…, NJ Harmer, A Preston, CM Palmer, M Rejzek… - Journal of molecular …, 2007 - Elsevier
The pathogenic bacteria Bordetella parapertussis and Bordetella bronchiseptica express a
lipopolysaccharide O antigen containing a polymer of 2,3-diacetamido-2,3-dideoxy-l-…

[HTML][HTML] Pi sampling: a methodical and flexible approach to initial macromolecular crystallization screening

F Gorrec, CM Palmer, G Lebon… - … Section D: Biological …, 2011 - scripts.iucr.org
The Pi sampling method is derived from the incomplete factorial approach to macromolecular
crystallization screen design. The resulting `Pi screens' have a modular distribution of a …

Outcomes of the 2019 EMDataResource model challenge: Validation of cryo-EM models at near-atomic resolution

…, S Mittal, B Monastyrskyy, M Olek, CM Palmer… - BioRxiv, 2020 - biorxiv.org
This paper describes outcomes of the 2019 Cryo-EM Map-based Model Metrics Challenge
sponsored by EMDataResource ( www.emdataresource.org ). The goals of this challenge …