{"id":104,"date":"2020-04-28T10:55:24","date_gmt":"2020-04-28T10:55:24","guid":{"rendered":"http:\/\/www.ebi.ac.uk\/training\/online\/courses\/structural-volume-data\/references\/"},"modified":"2022-09-12T12:21:20","modified_gmt":"2022-09-12T12:21:20","slug":"references","status":"publish","type":"page","link":"https:\/\/www.ebi.ac.uk\/training\/online\/courses\/structural-volume-data\/references\/","title":{"rendered":"References"},"content":{"rendered":"\n

1. Lagerstedt I., Moore W.J., Patwardhan A., Sanz-Garcia E., Best C., Swedlow J.R. and Kleywegt G.J. “Web-based visualisation and analysis of 3D electron-microscopy data from EMDB and PDB<\/a>” J. Struct. Biol.<\/em> 184<\/strong>, 173-181 (2013)<\/p>\n\n\n\n

2. Pettersen EF, Goddard TD, Huang CC, Couch GS, Greenblatt DM, Meng EC and Ferrin TE. (2004) \u201cUCSF Chimera – a visualization system for exploratory research and analysis<\/a>\u201d J. Comput. Chem<\/em>.  25<\/strong>(13):1605-12<\/p>\n\n\n\n

3. Kawabata T (2008) \u201cMultiple Subunit Fitting into a Low-Resolution Density Map of a Macromolecular Complex Using a Gaussian Mixture Model<\/a>\u201d Biophys J.<\/em>, 95<\/strong>(10): 4643\u20134658.<\/p>\n\n\n\n

4. Farabella I et al. (2015). \u201cTempy: A python library for assessment of 3D electron microscopy density fits<\/a>\u201d, J. Appl. Cryst.<\/em> 48<\/strong>, 1314-1323<\/p>\n\n\n\n

5. Roseman, A. M. (2000) “Docking structures of domains into maps from cryo-electron microscopy using local correlation<\/a>” Acta Cryst.<\/em> D 56<\/strong>, 1332\u20131340<\/p>\n\n\n\n

6. Vasishtan D., and Topf, M. (2011) “Scoring functions for cryoEM density fitting<\/a>” J. Struct. Biol.<\/em> 174<\/strong>, 333-343<\/p>\n\n\n\n

7. Chac\u00f3n P., Wriggers W. (2002) “Multi-resolution contour-based fitting of macromolecular structures<\/a>” J. Mol. Bio.<\/em> 317<\/strong>(3): 375-384<\/p>\n\n\n\n

8. Wu X, Milne JL, Borgnia MJ, Rostapshov AV, Subramaniam S, Brooks BR. (2003)  “A core-weighted fitting method for docking atomic structures into low-resolution maps: application to cryo-electron microscopy<\/a>” J. Struct. Biol. <\/em>141<\/strong>(1):63-76<\/p>\n\n\n\n

9. Shatsky M, Hall RJ, Brenner SE, Glaeser RM. “A method for the alignment of heterogeneous macromolecules from electron microscopy<\/a>” (2009) J. Struct. Biol. <\/em> 166<\/strong>(1):67-78<\/p>\n\n\n\n

10. Ceulemans H, Russell RB. “Fast fitting of atomic structures to low-resolution electron density maps by surface overlap maximization<\/a>” (2004) J. Struct. Biol. <\/em>338<\/strong>(4):783-793<\/p>\n\n\n\n

11. Knossow, D., Ronfard, R. & Horaud, R. (2008) “Human motion tracking with a kinematic parameterization of extremal contours<\/a>” Int. J. Comput. Vis.<\/em>79,<\/strong> 247\u2013269<\/p>\n","protected":false},"excerpt":{"rendered":"

1. Lagerstedt I., Moore W.J., Patwardhan A., Sanz-Garcia E., Best C., Swedlow J.R. and Kleywegt G.J. “Web-based visualisation and analysis of 3D electron-microscopy data from EMDB and PDB” J. Struct. Biol. 184, 173-181 (2013) 2. Pettersen EF, Goddard TD, Huang CC, Couch GS, Greenblatt DM, Meng EC and Ferrin TE. (2004) \u201cUCSF Chimera – a visualization system…<\/p>\n","protected":false},"author":30,"featured_media":0,"parent":0,"menu_order":10,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-104","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/www.ebi.ac.uk\/training\/online\/courses\/structural-volume-data\/wp-json\/wp\/v2\/pages\/104","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.ebi.ac.uk\/training\/online\/courses\/structural-volume-data\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.ebi.ac.uk\/training\/online\/courses\/structural-volume-data\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.ebi.ac.uk\/training\/online\/courses\/structural-volume-data\/wp-json\/wp\/v2\/users\/30"}],"replies":[{"embeddable":true,"href":"https:\/\/www.ebi.ac.uk\/training\/online\/courses\/structural-volume-data\/wp-json\/wp\/v2\/comments?post=104"}],"version-history":[{"count":2,"href":"https:\/\/www.ebi.ac.uk\/training\/online\/courses\/structural-volume-data\/wp-json\/wp\/v2\/pages\/104\/revisions"}],"predecessor-version":[{"id":247,"href":"https:\/\/www.ebi.ac.uk\/training\/online\/courses\/structural-volume-data\/wp-json\/wp\/v2\/pages\/104\/revisions\/247"}],"wp:attachment":[{"href":"https:\/\/www.ebi.ac.uk\/training\/online\/courses\/structural-volume-data\/wp-json\/wp\/v2\/media?parent=104"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}