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Cryo-EM and Single-Particle Analysis with Scipion.
Jiménez-Moreno A, Del Caño L, Martínez M, Ramírez-Aportela E, Cuervo A, Melero R, Sánchez-García R, Strelak D, Fernández-Giménez E, de Isidro-Gómez FP, Herreros D, Conesa P, Fonseca Y, Maluenda D, Jiménez de la Morena J, Macías JR, Losana P, Marabini R, Carazo JM, Sorzano COS. Jiménez-Moreno A, et al. Among authors: del cano l. J Vis Exp. 2021 May 29;(171). doi: 10.3791/62261. J Vis Exp. 2021. PMID: 34125107
Image Processing in Cryo-Electron Microscopy of Single Particles: The Power of Combining Methods.
Sorzano COS, Jiménez-Moreno A, Maluenda D, Ramírez-Aportela E, Martínez M, Cuervo A, Melero R, Conesa JJ, Sánchez-García R, Strelak D, Filipovic J, Fernández-Giménez E, de Isidro-Gómez F, Herreros D, Conesa P, Del Caño L, Fonseca Y, de la Morena JJ, Macías JR, Losana P, Marabini R, Carazo JM. Sorzano COS, et al. Among authors: del cano l. Methods Mol Biol. 2021;2305:257-289. doi: 10.1007/978-1-0716-1406-8_13. Methods Mol Biol. 2021. PMID: 33950394
Using Scipion for stream image processing at Cryo-EM facilities.
Gómez-Blanco J, de la Rosa-Trevín JM, Marabini R, Del Cano L, Jiménez A, Martínez M, Melero R, Majtner T, Maluenda D, Mota J, Rancel Y, Ramírez-Aportela E, Vilas JL, Carroni M, Fleischmann S, Lindahl E, Ashton AW, Basham M, Clare DK, Savage K, Siebert CA, Sharov GG, Sorzano COS, Conesa P, Carazo JM. Gómez-Blanco J, et al. Among authors: del cano l. J Struct Biol. 2018 Dec;204(3):457-463. doi: 10.1016/j.jsb.2018.10.001. Epub 2018 Oct 5. J Struct Biol. 2018. PMID: 30296492 Free PMC article.
Flexible workflows for on-the-fly electron-microscopy single-particle image processing using Scipion.
Maluenda D, Majtner T, Horvath P, Vilas JL, Jiménez-Moreno A, Mota J, Ramírez-Aportela E, Sánchez-García R, Conesa P, Del Caño L, Rancel Y, Fonseca Y, Martínez M, Sharov G, García CA, Strelak D, Melero R, Marabini R, Carazo JM, Sorzano COS. Maluenda D, et al. Among authors: del cano l. Acta Crystallogr D Struct Biol. 2019 Oct 1;75(Pt 10):882-894. doi: 10.1107/S2059798319011860. Epub 2019 Oct 1. Acta Crystallogr D Struct Biol. 2019. PMID: 31588920 Free PMC article.
Integration of Cryo-EM Model Building Software in Scipion.
Martínez M, Jiménez-Moreno A, Maluenda D, Ramírez-Aportela E, Melero R, Cuervo A, Conesa P, Del Caño L, Fonseca YC, Sánchez-García R, Strelak D, Conesa JJ, Fernández-Giménez E, de Isidro F, Sorzano COS, Carazo JM, Marabini R. Martínez M, et al. Among authors: del cano l. J Chem Inf Model. 2020 May 26;60(5):2533-2540. doi: 10.1021/acs.jcim.9b01032. Epub 2020 Feb 11. J Chem Inf Model. 2020. PMID: 31994878 Free article.
On bias, variance, overfitting, gold standard and consensus in single-particle analysis by cryo-electron microscopy.
Sorzano COS, Jiménez-Moreno A, Maluenda D, Martínez M, Ramírez-Aportela E, Krieger J, Melero R, Cuervo A, Conesa J, Filipovic J, Conesa P, Del Caño L, Fonseca YC, Jiménez-de la Morena J, Losana P, Sánchez-García R, Strelak D, Fernández-Giménez E, de Isidro-Gómez FP, Herreros D, Vilas JL, Marabini R, Carazo JM. Sorzano COS, et al. Among authors: del cano l. Acta Crystallogr D Struct Biol. 2022 Apr 1;78(Pt 4):410-423. doi: 10.1107/S2059798322001978. Epub 2022 Mar 16. Acta Crystallogr D Struct Biol. 2022. PMID: 35362465 Free PMC article.
ScipionTomo: Towards cryo-electron tomography software integration, reproducibility, and validation.
Jiménez de la Morena J, Conesa P, Fonseca YC, de Isidro-Gómez FP, Herreros D, Fernández-Giménez E, Strelak D, Moebel E, Buchholz TO, Jug F, Martinez-Sanchez A, Harastani M, Jonic S, Conesa JJ, Cuervo A, Losana P, Sánchez I, Iceta M, Del Cano L, Gragera M, Melero R, Sharov G, Castaño-Díez D, Koster A, Piccirillo JG, Vilas JL, Otón J, Marabini R, Sorzano COS, Carazo JM. Jiménez de la Morena J, et al. Among authors: del cano l. J Struct Biol. 2022 Sep;214(3):107872. doi: 10.1016/j.jsb.2022.107872. Epub 2022 Jun 2. J Struct Biol. 2022. PMID: 35660516 Free PMC article.
Scipion web tools: Easy to use cryo-EM image processing over the web.
Conesa Mingo P, Gutierrez J, Quintana A, de la Rosa Trevín JM, Zaldívar-Peraza A, Cuenca Alba J, Kazemi M, Vargas J, Del Cano L, Segura J, Sorzano COS, Carazo JM. Conesa Mingo P, et al. Among authors: del cano l. Protein Sci. 2018 Jan;27(1):269-275. doi: 10.1002/pro.3315. Epub 2017 Nov 6. Protein Sci. 2018. PMID: 28971542 Free PMC article.
20 results