Difference between revisions of "Publications"

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(Primary Citations: Add link to tNCS statistics PDF)
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[[Image:PDF_download.png| link=]] PDF downloads available
 
 
==Citation==
 
==Citation==
;Phaser crystallographic software [http://www.phaser.cimr.cam.ac.uk/images/b/b2/He5368.pdf pdf]
+
;Phaser crystallographic software [http://scripts.iucr.org/cgi-bin/paper?he5368 '''J Appl Cryst''']
 
:McCoy AJ, Grosse-Kunstleve RW,  Adams PD, Winn MD, Storoni LC, Read RJ
 
:McCoy AJ, Grosse-Kunstleve RW,  Adams PD, Winn MD, Storoni LC, Read RJ
 
:J. Appl. Cryst. (2007). 40, 658-674
 
:J. Appl. Cryst. (2007). 40, 658-674
  
 
==Reviews==
 
==Reviews==
;Overview of the CCP4 suite and current developments [http://www.phaser.cimr.cam.ac.uk/images/e/e4/Dz5219.pdf '''pdf''']
+
;Using SAD data in Phaser [http://scripts.iucr.org/cgi-bin/paper?ba5159 '''Acta Cryst D''']
:Winn MD, Ballard CC, Cowtan KD, Dodson EJ, Emsley P, Evans PR, Keegan RM, Krissinel EB, Leslie AG, McCoy A, McNicholas SJ, Murshudov GN, Pannu NS, Potterton EA, Powell HR, Read RJ, Vagin A, Wilson KS.
 
:Acta Crystallogr D Biol Crystallogr. 2011 Apr;67(Pt 4):235-242
 
 
 
;Using SAD data in Phaser [http://www.phaser.cimr.cam.ac.uk/images/8/89/Ba5159.pdf '''pdf''']
 
 
:Read RJ, McCoy AJ
 
:Read RJ, McCoy AJ
 
:Acta Crystallogr D Biol Crystallogr. 2011 Apr;67(Pt 4):338-344
 
:Acta Crystallogr D Biol Crystallogr. 2011 Apr;67(Pt 4):338-344
  
;Experimental phasing<nowiki>:</nowiki> best practice and pitfalls [http://www.phaser.cimr.cam.ac.uk/images/d/d3/Ba5142.pdf pdf]
+
;Experimental phasing<nowiki>:</nowiki> best practice and pitfalls [http://scripts.iucr.org/cgi-bin/paper?ba5142 '''Acta Cryst D''']
 
:McCoy AJ, Read RJ
 
:McCoy AJ, Read RJ
 
:Acta Cryst. (2010) D66, 458-469.
 
:Acta Cryst. (2010) D66, 458-469.
  
;An introduction to molecular replacement [http://www.phaser.cimr.cam.ac.uk/images/8/86/Ba5108.pdf pdf]
+
;An introduction to molecular replacement [http://scripts.iucr.org/cgi-bin/paper?ba5108 '''Acta Cryst D''']
 
:Evans P, McCoy A
 
:Evans P, McCoy A
 
:Acta Cryst.(2008) D64, 1-10. Epub 2007 Dec 5.
 
:Acta Cryst.(2008) D64, 1-10. Epub 2007 Dec 5.
  
;Solving structures of protein complexes by molecular replacement with Phaser [http://www.phaser.cimr.cam.ac.uk/images/4/40/Ba5095.pdf pdf]
+
;Solving structures of protein complexes by molecular replacement with Phaser [http://scripts.iucr.org/cgi-bin/paper?ba5095  '''Acta Cryst D''']
 
:McCoy AJ
 
:McCoy AJ
 
:Acta Cryst. (2007). D63, 32-41
 
:Acta Cryst. (2007). D63, 32-41
  
;Liking Likelihood [http://www.phaser.cimr.cam.ac.uk/images/4/46/Ba5064.pdf pdf ]
+
;Liking Likelihood [http://scripts.iucr.org/cgi-bin/paper?ba5064 '''Acta Cryst D''']
 
:McCoy AJ
 
:McCoy AJ
 
:Acta Cryst. (2004). D60, 2169-2183
 
:Acta Cryst. (2004). D60, 2169-2183
Line 32: Line 27:
 
==Primary Citations==
 
==Primary Citations==
  
;Intensity statistics in the presence of translational non-crystallographic symmetry [http://www.phaser.cimr.cam.ac.uk/images/c/cf/Dz5268.pdf pdf]
+
;A log-likelihood-gain intensity target for crystallographic phasing that accounts for experimental error [http://scripts.iucr.org/cgi-bin/paper?dz5382 '''Acta Cryst D''']
 +
:Read RJ, McCoy AJ
 +
:Acta Cryst. (2016). D72, 375-387
 +
 
 +
;Phaser.MRage&#58; automated molecular replacement [http://scripts.iucr.org/cgi-bin/paper?ba5210 '''Acta Cryst D''']
 +
:Bunkoczi G, Echols N, McCoy AJ, Oeffner RD, Adams PD, Read RJ
 +
:Acta Cryst. (2013). D69, 2276-2286
 +
 
 +
;SCEDS&#58; protein fragments for molecular replacement in Phaser [http://scripts.iucr.org/cgi-bin/paper?ba5209 '''Acta Cryst D''']
 +
:McCoy AJ, Nicholls RA, Schneider TR
 +
:Acta Cryst. (2013). D69, 2216-2225
 +
 
 +
;Improved estimates of coordinate error for molecular replacement [http://scripts.iucr.org/cgi-bin/paper?ba5212 '''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 [http://scripts.iucr.org/cgi-bin/paper?dz5268 '''Acta Cryst D''']
 
:Read RJ, Adams PD, McCoy AJ
 
:Read RJ, Adams PD, McCoy AJ
 
:Acta Cryst. (2013). D69, 176-183
 
:Acta Cryst. (2013). D69, 176-183
  
;Improvement of molecular replacement models with ''Sculptor'' [http://www.phaser.cimr.cam.ac.uk/images/3/35/Ba5163.pdf pdf]
+
;Improvement of molecular replacement models with ''Sculptor'' [http://scripts.iucr.org/cgi-bin/paper?ba5163 '''Acta Cryst D''']
 
:Bunkoczi G, Read RJ
 
:Bunkoczi G, Read RJ
 
:Acta Cryst. (2011). D67, 303-312
 
:Acta Cryst. (2011). D67, 303-312
  
;Likelihood-enhanced fast translation functions [http://www.phaser.cimr.cam.ac.uk/images/6/63/Gx5042.pdf pdf]
+
;Likelihood-enhanced fast translation functions [http://scripts.iucr.org/cgi-bin/paper?gx5042 '''Acta Cryst D''']
 
:McCoy AJ, Grosse-Kunstleve RW, Storoni LC, Read RJ
 
:McCoy AJ, Grosse-Kunstleve RW, Storoni LC, Read RJ
 
:Acta Cryst. (2005). D61, 458-464
 
:Acta Cryst. (2005). D61, 458-464
  
;Simple algorithm for a maximum-likelihood SAD function [http://www.phaser.cimr.cam.ac.uk/images/c/c3/Ea5015.pdf pdf]
+
;Simple algorithm for a maximum-likelihood SAD function [http://scripts.iucr.org/cgi-bin/paper?ea5015 '''Acta Cryst D''']
 
:McCoy AJ, Storoni LC,  Read RJ
 
:McCoy AJ, Storoni LC,  Read RJ
 
:Acta Cryst. (2004). D60, 1220-1228
 
:Acta Cryst. (2004). D60, 1220-1228
  
;Likelihood-enhanced fast rotation functions [http://www.phaser.cimr.cam.ac.uk/images/3/3a/Ad5007.pdf pdf]
+
;Likelihood-enhanced fast rotation functions [http://scripts.iucr.org/cgi-bin/paper?ad5007 '''Acta Cryst D'''] [http://www-structmed.cimr.cam.ac.uk/Personal/randy/pubs/ad5007.pdf '''pdf''']
 +
:Storoni LC, McCoy AJ, Read RJ
 
:Acta Cryst. (2004). D60, 432-438
 
:Acta Cryst. (2004). D60, 432-438
: Storoni LC, McCoy AJ, Read RJ
 
  
;Pushing the boundaries of molecular replacement with maximum likelihood [http://www.phaser.cimr.cam.ac.uk/images/a/a6/Ba5014r.pdf pdf]
+
;Pushing the boundaries of molecular replacement with maximum likelihood [http://scripts.iucr.org/cgi-bin/paper?ba5014 '''Acta Cryst D''']
 
:Read RJ
 
:Read RJ
 
:Acta Cryst. (2001). D57, 1373-1382
 
:Acta Cryst. (2001). D57, 1373-1382

Revision as of 13:29, 25 April 2016

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

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