Image Processing in Cryo-Electron Microscopy of Single
Particles: The Power of Combining Methods

C 2021

Image Processing in Cryo-Electron Microscopy of Single Particles: The Power of Combining Methods

S. SORZANO, Carlos Oscar, Amaya JIMÉNEZ-MORENO, David MALUENDA, Erney RAMÍREZ-APORTELA, Marta MARTÍNEZ et. al.

Základní údaje

Originální název

Image Processing in Cryo-Electron Microscopy of Single Particles: The Power of Combining Methods

Autoři

S. SORZANO, Carlos Oscar, Amaya JIMÉNEZ-MORENO, David MALUENDA, Erney RAMÍREZ-APORTELA, Marta MARTÍNEZ, Ana CUERVO, Roberto MELERO, Jose Javier CONESA, Ruben SÁNCHEZ-GARCÍA, David STŘELÁK (203 Česká republika, domácí), Jiří FILIPOVIČ (203 Česká republika, garant, domácí), Estrella FERNÁNDEZ-GIMÉNEZ, Federico DE ISIDRO-GÓMEZ, David HERREROS, Pablo CONESA, Laura DEL CAÑO, Yunior FONSECA, Jorge JIMÉNEZ DE LA MORENA, Jose Ramon MACÍAS, Patricia LOSANA, Roberto MARABINI a Jose-Maria CARAZO

Vydání

Clifton, N.J. Structural Proteomics, od s. 257-289, 33 s. Methods in Molecular Biology, 2021

Nakladatel

Springer US

Další údaje

Jazyk

angličtina

Typ výsledku

Kapitola resp. kapitoly v odborné knize

Obor

10201 Computer sciences, information science, bioinformatics

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Forma vydání

tištěná verze "print"

Kód RIV

RIV/00216224:14330/21:00122290

Organizační jednotka

Fakulta informatiky

ISBN

978-1-0716-1405-1

DOI

http://dx.doi.org/10.1007/978-1-0716-1406-8_13

UT WoS

000691017300014

Klíčová slova anglicky

Cryo-electron microscopy; Image processing; Scipion; Single particle

Štítky

topvydavatel

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 23. 5. 2022 14:58, RNDr. Pavel Šmerk, Ph.D.

Anotace

V originále

Cryo-electron microscopy has established as a mature structural biology technique to elucidate the three-dimensional structure of biological macromolecules. The Coulomb potential of the sample is imaged by an electron beam, and fast semi-conductor detectors produce movies of the sample under study. These movies have to be further processed by a whole pipeline of image-processing algorithms that produce the final structure of the macromolecule. In this chapter, we illustrate this whole processing pipeline putting in value the strength of "meta algorithms," which are the combination of several algorithms, each one with different mathematical rationale, in order to distinguish correctly from incorrectly estimated parameters. We show how this strategy leads to superior performance of the whole pipeline as well as more confident assessments about the reconstructed structures. The "meta algorithms" strategy is common to many fields and, in particular, it has provided excellent results in bioinformatics. We illustrate this combination using the workflow engine, Scipion.

Návaznosti

EF16_013/0001802, projekt VaV

Název: CERIT Scientific Cloud

MUNI/A/1411/2019, interní kód MU

Název: Aplikovaný výzkum: softwarové architektury kritických infrastruktur, bezpečnost počítačových systémů, zpracování přirozeného jazyka a jazykové inženýrství, vizualizaci velkých dat a rozšířená realita.

Investor: Masarykova univerzita, Aplikovaný výzkum: softwarové architektury kritických infrastruktur, bezpečnost počítačových systémů, zpracování přirozeného jazyka a jazykové inženýrství, vizualizaci velkých dat a rozšířená realita., DO R. 2020_Kategorie A - Specifický výzkum - Studentské výzkumné projekty

Citovat

S. SORZANO, Carlos Oscar, Amaya JIMÉNEZ-MORENO, David MALUENDA, Erney RAMÍREZ-APORTELA, Marta MARTÍNEZ, Ana CUERVO, Roberto MELERO, Jose Javier CONESA, Ruben SÁNCHEZ-GARCÍA, David STŘELÁK, Jiří FILIPOVIČ, Estrella FERNÁNDEZ-GIMÉNEZ, Federico DE ISIDRO-GÓMEZ, David HERREROS, Pablo CONESA, Laura DEL CAÑO, Yunior FONSECA, Jorge JIMÉNEZ DE LA MORENA, Jose Ramon MACÍAS, Patricia LOSANA, Roberto MARABINI a Jose-Maria CARAZO. Image Processing in Cryo-Electron Microscopy of Single Particles: The Power of Combining Methods. In Structural Proteomics. Clifton, N.J.: Springer US, 2021, s. 257-289. Methods in Molecular Biology. ISBN 978-1-0716-1405-1. Dostupné z: https://dx.doi.org/10.1007/978-1-0716-1406-8_13.

@inbook{1790524,
   author = {S. Sorzano, Carlos Oscar and JiménezandMoreno, Amaya and Maluenda, David and RamírezandAportela, Erney and Martínez, Marta and Cuervo, Ana and Melero, Roberto and Conesa, Jose Javier and SánchezandGarcía, Ruben and Střelák, David and Filipovič, Jiří and FernándezandGiménez, Estrella and de IsidroandGómez, Federico and Herreros, David and Conesa, Pablo and del Caño, Laura and Fonseca, Yunior and Jiménez de la Morena, Jorge and Macías, Jose Ramon and Losana, Patricia and Marabini, Roberto and Carazo, JoseandMaria},
   address = {Clifton, N.J.},
   booktitle = {Structural Proteomics},
   doi = {http://dx.doi.org/10.1007/978-1-0716-1406-8_13},
   keywords = {Cryo-electron microscopy; Image processing; Scipion; Single particle},
   howpublished = {tištěná verze "print"},
   language = {eng},
   location = {Clifton, N.J.},
   isbn = {978-1-0716-1405-1},
   pages = {257-289},
   publisher = {Springer US},
   title = {Image Processing in Cryo-Electron Microscopy of Single Particles: The Power of Combining Methods},
   year = {2021}
}

TY  - CHAP
ID  - 1790524
AU  - S. Sorzano, Carlos Oscar - Jiménez-Moreno, Amaya - Maluenda, David - Ramírez-Aportela, Erney - Martínez, Marta - Cuervo, Ana - Melero, Roberto - Conesa, Jose Javier - Sánchez-García, Ruben - Střelák, David - Filipovič, Jiří - Fernández-Giménez, Estrella - de Isidro-Gómez, Federico - Herreros, David - Conesa, Pablo - del Caño, Laura - Fonseca, Yunior - Jiménez de la Morena, Jorge - Macías, Jose Ramon - Losana, Patricia - Marabini, Roberto - Carazo, Jose-Maria
PY  - 2021
TI  - Image Processing in Cryo-Electron Microscopy of Single Particles: The Power of Combining Methods
VL  - Methods in Molecular Biology
PB  - Springer US
CY  - Clifton, N.J.
SN  - 9781071614051
KW  - Cryo-electron microscopy
KW  - Image processing
KW  - Scipion
KW  - Single particle
N2  - Cryo-electron microscopy has established as a mature structural biology technique to elucidate the three-dimensional structure of biological macromolecules. The Coulomb potential of the sample is imaged by an electron beam, and fast semi-conductor detectors produce movies of the sample under study. These movies have to be further processed by a whole pipeline of image-processing algorithms that produce the final structure of the macromolecule. In this chapter, we illustrate this whole processing pipeline putting in value the strength of "meta algorithms," which are the combination of several algorithms, each one with different mathematical rationale, in order to distinguish correctly from incorrectly estimated parameters. We show how this strategy leads to superior performance of the whole pipeline as well as more confident assessments about the reconstructed structures. The "meta algorithms" strategy is common to many fields and, in particular, it has provided excellent results in bioinformatics. We illustrate this combination using the workflow engine, Scipion.
ER  -

S. SORZANO, Carlos Oscar, Amaya JIMÉNEZ-MORENO, David MALUENDA, Erney RAMÍREZ-APORTELA, Marta MARTÍNEZ, Ana CUERVO, Roberto MELERO, Jose Javier CONESA, Ruben SÁNCHEZ-GARCÍA, David STŘELÁK, Jiří FILIPOVIČ, Estrella FERNÁNDEZ-GIMÉNEZ, Federico DE ISIDRO-GÓMEZ, David HERREROS, Pablo CONESA, Laura DEL CAÑO, Yunior FONSECA, Jorge JIMÉNEZ DE LA MORENA, Jose Ramon MACÍAS, Patricia LOSANA, Roberto MARABINI a Jose-Maria CARAZO. Image Processing in Cryo-Electron Microscopy of Single Particles: The Power of Combining Methods. In \textit{Structural Proteomics}. Clifton, N.J.: Springer US, 2021, s.~257-289. Methods in Molecular Biology. ISBN~978-1-0716-1405-1. Dostupné z: https://dx.doi.org/10.1007/978-1-0716-1406-8\_{}13.

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