Publications

Citation

Phaser crystallographic software J Appl Cryst

McCoy AJ, Grosse-Kunstleve RW, Adams PD, Winn MD, Storoni LC, Read RJ

J. Appl. Cryst. (2007). 40, 658-674

Reviews

Using SAD data in Phaser Acta Cryst D

Read RJ, McCoy AJ

Acta Crystallogr D Biol Crystallogr. 2011 Apr;67(Pt 4):338-344

Experimental phasing: best practice and pitfalls Acta Cryst D

McCoy AJ, Read RJ

Acta Cryst. (2010) D66, 458-469.

An introduction to molecular replacement Acta Cryst D

Evans P, McCoy A

Acta Cryst.(2008) D64, 1-10. Epub 2007 Dec 5.

Solving structures of protein complexes by molecular replacement with Phaser Acta Cryst D

McCoy AJ

Acta Cryst. (2007). D63, 32-41

Liking Likelihood Acta Cryst D

McCoy AJ

Acta Cryst. (2004). D60, 2169-2183

Primary Citations

Likelihood-based interactive local docking into cryo-EM maps in ChimeraX Acta Cryst D

Read RJ, Pettersen EF, McCoy AJ, Croll TI, Terwilliger TC, Poon BK, Meng EC, Liebschner D, Adams PD

Acta Cryst. (2024). D80, 588-598

Likelihood-based docking of models into cryo-EM maps Acta Cryst D

Millán C, McCoy AJ, Terwilliger TC, Read RJ

Acta Cryst. (2023). D79, 281-289

Likelihood-based signal and noise analysis for docking of models into cryo-EM maps Acta Cryst D

Read RJ, Millán C, McCoy AJ, Terwilliger TC

Acta Cryst. (2023). D79, 271-280.

Putting AlphaFold models to work with phenix.process_predicted_model and ISOLDE Acta Cryst D

Oeffner RD, Croll TI, Millán C, Poon BK, Schlicksup CJ, Read RJ, Terwilliger TC

Acta Cryst. (2022). D78, 1303-1314

Implications of AlphaFold2 for crystallographic phasing by molecular replacement Acta Cryst D

McCoy AJ, Sammito MD, Read RJ

Acta Cryst. (2022). D78, 1-13

Likelihood-based estimation of substructure content from single-wavelength anomalous diffraction (SAD) intensity data Acta Cryst D

Hatti KS, McCoy AJ, Read RJ

Acta Cryst. (2021). D77, 880-893

Detection of translational noncrystallographic symmetry in Patterson functions Acta Cryst D

Caballero I, Sammito MD, Afonine PV, Usón I, Read RJ, McCoy AJ

Acta Cryst. (2021). D77, 131-141

Phasertng: directed acyclic graphs for crystallographic phasing Acta Cryst D

McCoy AJ, Stockwell DH, Sammito MD, Oeffner RD, Hatti KS, Croll TI, Read RJ

Acta Cryst. (2021). D77, 1-10

Measuring and using information gained by observing diffraction data Acta Cryst D

Read RJ, Oeffner RD, McCoy AJ

Acta Cryst. (2020). D76, 238-247

Factors influencing estimates of coordinate error for molecular replacement Acta Cryst D

Hatti KS, McCoy AJ, Oeffner RD, Sammito MD, Read RJ

Acta Cryst. (2020). D76, 19-27

Coping with strong translational non-crystallographic symmetry and extreme anisotropy in molecular replacement with Phaser: human Rab27a Acta Cryst D

Jamshidiha M, Pérez-Dorado I, Murray JW, Tate EW, Cota E, Read RJ

Acta Cryst. (2019). D75, 342-353

Gyre and gimble: a maximum-likelihood replacement for Patterson correlation refinement Acta Cryst D

McCoy AJ, Oeffner RD, Millán, Sammito M, Usón, Read RJ

Acta Cryst. (2018). D74, 279-289

On the application of the expected log-likelihood gain to decision making in molecular replacement Acta Cryst D

Oeffner RD, Afonine PV, Millán C, Sammito M, Usón I, Read RJ, McCoy AJ

Acta Cryst. (2018). D74, 245-255

Maximum-likelihood determination of anomalous substructures Acta Cryst D

Read RJ and McCoy AJ

Acta Cryst. (2018). D74, 89-105

Ab initio solution of macromolecular crystal structures without direct methods PNAS

McCoy AJ, Oeffner RD, Wrobel AG, Ojala JRM, Tryggvason K, Lohkamp B, Read RJ

Proc. Natl. Acad. Sci. USA (2017). 114, 3637-3641

A log-likelihood-gain intensity target for crystallographic phasing that accounts for experimental error Acta Cryst D

Read RJ, McCoy AJ

Acta Cryst. (2016). D72, 375-387

Phaser.MRage: automated molecular replacement Acta Cryst D

Bunkoczi G, Echols N, McCoy AJ, Oeffner RD, Adams PD, Read RJ

Acta Cryst. (2013). D69, 2276-2286

SCEDS: protein fragments for molecular replacement in Phaser Acta Cryst D

McCoy AJ, Nicholls RA, Schneider TR

Acta Cryst. (2013). D69, 2216-2225

Improved estimates of coordinate error for molecular replacement Acta Cryst D

Oeffner RD, Bunkocz G, McCoy AJ, Read RJ

Acta Cryst. (2013). D69, 2209-2215

Intensity statistics in the presence of translational non-crystallographic symmetry Acta Cryst D

Read RJ, Adams PD, McCoy AJ

Acta Cryst. (2013). D69, 176-183

Improvement of molecular replacement models with Sculptor Acta Cryst D

Bunkoczi G, Read RJ

Acta Cryst. (2011). D67, 303-312

Likelihood-enhanced fast translation functions Acta Cryst D

McCoy AJ, Grosse-Kunstleve RW, Storoni LC, Read RJ

Acta Cryst. (2005). D61, 458-464

Simple algorithm for a maximum-likelihood SAD function Acta Cryst D

McCoy AJ, Storoni LC, Read RJ

Acta Cryst. (2004). D60, 1220-1228

Likelihood-enhanced fast rotation functions Acta Cryst D pdf

Storoni LC, McCoy AJ, Read RJ

Acta Cryst. (2004). D60, 432-438

Pushing the boundaries of molecular replacement with maximum likelihood Acta Cryst D

Read RJ

Acta Cryst. (2001). D57, 1373-1382