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Carazo García, José María Author

Parameter optimization in 3D reconstruction on a large scale grid

  • Bilbao-Castro J.
  • Merino A.
  • García I.
  • Carazo J.
  • Fernández J.

Parallel Computing - 1/05/2007

10.1016/j.parco.2007.02.002

Cite count: 7 (Scopus)
  • SJR Quartile: Q2
  • CiteScore: 3.1 (2020)
  • SJR: 0.599 (2007
  • SNIP: 1.599 (2007
  • SJR Categories: Artificial Intelligence (Q2); Computer Graphics and Computer-Aided Design (Q2); Computer Networks and Communications (Q2); Hardware and Architecture (Q2); Software (Q2); Theoretical Computer Science (Q2)
Open Access

Particle alignment reliability in single particle electron cryomicroscopy: a general approach.

  • Vargas, J.
  • Oton, J.
  • Marabini, R.
  • Carazo, J. M.
  • Sorzano, C. O. S.

Scientific Reports - 22/02/2016

10.1038/srep21626 View source

Cite count: 20 (Web of Science) 15 (Scopus)
  • JCR Quartile: Q2 (2016)
  • SJR Quartile: Q1
  • JCR Impact Factor: 4.259 (2022)
  • Category normalized Impact: 0.712 (2016)
  • CiteScore: 7.1 (2020)
  • SJR: 1.692 (2016
  • SNIP: 1.368 (2016
  • JCR 5-year Impact Factor: 4.847
  • JCR Categories: MULTIDISCIPLINARY SCIENCES
  • SJR Categories: Multidisciplinary (Q1)

Particle quality assessment and sorting for automatic and semiautomatic particle-picking techniques

  • Vargas, J.
  • Abrishami, V.
  • Marabini, R.
  • de la Rosa-Trevín, J.M.
  • Zaldivar, A.
  • Carazo, J.M.
  • Sorzano, C.O.S.
... View more Collapse

JOURNAL OF STRUCTURAL BIOLOGY - 1/09/2013

10.1016/j.jsb.2013.07.015 View source

Cite count: 25 (Web of Science) 23 (Scopus)
  • JCR Quartile: Q2 (2013)
  • SJR Quartile: Q1
  • JCR Impact Factor: 3.369 (2013)
  • Category normalized Impact: 0.672 (2013)
  • CiteScore: 5.5 (2020)
  • SJR: 2.596 (2013
  • SNIP: 1.256 (2013
  • JCR 5-year Impact Factor: 3.407
  • JCR Categories: CELL BIOLOGY
  • SJR Categories: Structural Biology (Q1)
Open Access

Pattern recognition and classification of images of biological macromolecules using artificial neural networks

  • Marabini R
  • Carazo JM

Biophysical Journal - 1/06/1994

10.1016/s0006-3495(94)80974-9 View source

Cite count: 102 (Web of Science) 96 (Scopus)
  • CiteScore: 6.3 (2020)

Pattern recognition and classification of images of biological macromolecules using neural networks

  • MARABINI, R
  • CARAZO, JM
  • Jouffrey, B
  • Colliex, C

Electron Microscopy 1994, Vol 1 - 1994

Open Access

PDBe-KB: collaboratively defining the biological context of structural data

  • Varadi, Mihaly
  • Anyango, Stephen
  • Armstrong, David
  • Berrisford, John
  • Choudhary, Preeti
  • Deshpande, Mandar
  • Nadzirin, Nurul
  • Nair, Sreenath S.
  • Pravda, Lukas
  • Tanweer, Ahsan
  • Al-Lazikani, Bissan
  • Andreini, Claudia
  • Barton, Geoffrey J.
  • Bednar, David
  • Berka, Karel
  • Blundell, Tom
  • Brock, Kelly P.
  • Maria Carazo, Jose
  • Damborsky, Jiri
  • David, Alessia
  • Dey, Sucharita
  • Dunbrack, Roland
  • Fernandez Recio, Juan
  • Fraternali, Franca
  • Gibson, Toby
  • Helmer-Citterich, Manuela
  • Hoksza, David
  • Hopf, Thomas
  • Jakubec, David
  • Kannan, Natarajan
  • Krivak, Radoslav
  • Kumar, Manjeet
  • Levy, Emmanuel D.
  • London, Nir
  • Macias, Jose Ramon
  • Srivatsan, Madhusudhan M.
  • Marks, Debora S.
  • Martens, Lennart
  • McGowan, Stuart A.
  • McGreig, Jake E.
  • Modi, Vivek
  • Gonzalo Parra, R.
  • Pepe, Gerardo
  • Piovesan, Damiano
  • Prilusky, Jaime
  • Putignano, Valeria
  • Radusky, Leandro G.
  • Ramasamy, Pathmanaban
  • Rausch, Atilio O.
  • Reuter, Nathalie
  • Rodriguez, Luis A.
  • Rollins, Nathan J.
  • Rosato, Antonio
  • Serrano, Luis
  • Singh, Gulzar
  • Skoda, Petr
  • Sorzano, Carlos Oscar S.
  • Stourac, Jan
  • Sulkowska, Joanna, I
  • Svobodova, Radka
  • Tichshenko, Natalia
  • Tosatto, Silvio C. E.
  • Vranken, Wim
  • Wass, Mark N.
  • Xue, Dandan
  • Zaidman, Daniel
  • Thornton, Janet
  • Sternberg, Michael
  • Orengo, Christine
  • Velankar, Sameer
  • PDBe-KB Consortium
... View more Collapse

NUCLEIC ACIDS RESEARCH - 10/11/2021

10.1093/nar/gkab988

Cite count: 36 (Web of Science) 15 (Scopus)
  • JCR Impact Factor: 19.16 (2021)
  • CiteScore: 28 (2021)
  • SJR: 8.241 (2021
  • SNIP: 5.19 (2021
  • JCR 5-year Impact Factor: 17.21
  • JCR Categories: BIOCHEMISTRY & MOLECULAR BIOLOGY
Open Access

Pea PSII-LHCII supercomplexes form pairs by making connections across the stromal gap

  • Albanese, Pascal
  • Melero, Roberto
  • Engel, Benjamin D.
  • Grinzato, Alessandro
  • Berto, Paola
  • Manfredi, Marcello
  • Chiodoni, Angelica
  • Vargas, Javier
  • Sanchez Sorzano, Carlos Oscar
  • Marengo, Emilio
  • Saracco, Guido
  • Zanotti, Giuseppe
  • Carazo, Jose-Maria
  • Pagliano, Cristina
... View more Collapse

Scientific Reports - 30/08/2017

10.1038/s41598-017-10700-8 View source

Cite count: 24 (Web of Science) 20 (Scopus)
  • JCR Quartile: Q2 (2017)
  • SJR Quartile: Q1
  • JCR Impact Factor: 4.122 (2022)
  • Category normalized Impact: 0.916 (2017)
  • CiteScore: 7.1 (2020)
  • SJR: 1.533 (2017
  • SNIP: 1.263 (2017
  • JCR 5-year Impact Factor: 4.609
  • JCR Categories: MULTIDISCIPLINARY SCIENCES
  • SJR Categories: Multidisciplinary (Q1)

Performance and Quality Comparison of Movie Alignment Software for Cryogenic Electron Microscopy

  • David Střelák
  • Daniel Marchán
  • José María Carazo
  • Carlos O. S. Sorzano

Micromachines - 26/09/2023

10.3390/mi14101835

Cite count:

pH-Controlled quaternary states of hexameric DnaB helicase

  • Donate, LE
  • Llorca, O
  • Barcena, M
  • Brown, SE
  • Dixon, NE
  • Carazo, JM

JOURNAL OF MOLECULAR BIOLOGY - 27/10/2000

10.1006/jmbi.2000.4132

Cite count: 17 (Web of Science) 17 (Scopus)
  • SJR Quartile: Q1
  • CiteScore: 8.5 (2020)
  • SJR: 4.57 (2000
  • SNIP: 1.423 (2000
  • SJR Categories: Molecular Biology (Q1); Structural Biology (Q1)

Phylogenetic reconstruction using an unsupervised growing neural network that adopts the topology of a phylogenetic tree

  • Dopazo, J
  • Carazo, JM

JOURNAL OF MOLECULAR EVOLUTION - 26/02/1997

10.1007/pl00006139

Cite count: 144 (Web of Science) 150 (Scopus)
  • CiteScore: 3.4 (2020)
Open Access

A GA-optimized neural network for classification of biological particles from electron-microscopy images

  • Merelo, JJ
  • Prieto, A
  • Moran, F
  • Marabini, R
  • Carazo, JM
  • Mira, J
  • MorenoDiaz, R
  • Cabestany, J
... View more Collapse

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) - 1/1/1997

10.1007/bfb0032577 View source

Cite count: 1 (Web of Science) 1 (Scopus)
  • CiteScore: 1.8 (2020)

Algorithms for three-dimensional reconstruction from the imperfect projection data provided by electron microscopy

  • Carazo J.
  • Herman G.
  • Sorzano C.
  • Marabini R.

Electron Tomography: Methods for Three-Dimensional Visualization of Structures in the Cell - 1/1/2006

10.1007/978-0-387-69008-7_8

Cite count: 18 (Scopus)

AN INTRODUCTION TO MAXIMUM-LIKELIHOOD METHODS IN CRYO-EM

  • Sigworth, Fred J.
  • Doerschuk, Peter C.
  • Carazo, Jose-Maria
  • Scheres, Sjors H. W.
  • Jensen, GJ

Methods in Enzymology - 1/1/2010

10.1016/s0076-6879(10)82011-7

Cite count: 67 (Web of Science) 52 (Scopus)
  • JCR Impact Factor: 1.626 (2010)
  • CiteScore: 2.6 (2020)
  • SJR: 1.408 (2010
  • SNIP: 0.493 (2010
  • JCR 5-year Impact Factor: 2.185
  • JCR Categories: BIOCHEMICAL RESEARCH METHODS

Exploring the conformational flexibility of molecular machines

  • Sjors Scheres
  • Herman, Gabor T.
  • Jose Maria Carazo Garcia

Mathematical Methods In Biomedical Imaging and Intensity-modulated Radiation Therapy (imrt) - 2008

  • ORCID
Open Access

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

  • Sorzano C.O.S.
  • Jiménez-Moreno A.
  • Maluenda D.
  • Ramírez-Aportela E.
  • Martínez M.
  • Cuervo A.
  • Melero R.
  • Conesa J.J.
  • 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 J.J.
  • Macías J.R.
  • Losana P.
  • Marabini R.
  • Carazo J.M.
... View more Collapse

Methods in Molecular Biology - 1/1/2021

10.1007/978-1-0716-1406-8_13

Cite count: 5 (Web of Science) 1 (Scopus)
  • JCR Quartile: Q2 (2021)
  • Category normalized Impact: 0.595 (2021)
  • CiteScore: 2.2 (2020)
  • SJR: 0.711 (2020
  • SNIP: 0.57 (2020

Interchanging geometry conventions in 3DEM: Mathematical context for the development of standards

  • Sorzano C.
  • Marabini R.
  • Vargas J.
  • Otón J.
  • Cuenca-Alba J.
  • Quintana A.
  • de la Rosa-Trevín J.
  • Carazo J.
... View more Collapse

Applied and Numerical Harmonic Analysis - 1/1/2014

10.1007/978-1-4614-9521-5_2

Cite count: 9 (Web of Science) 4 (Scopus)
  • JCR Quartile: Q2 (2014)
  • Category normalized Impact: 0.312 (2014)
  • CiteScore: 0.8 (2020)

Interchanging geometry information in electron microscopy single particle analysis: mathematical context for the development of a standard.

  • Carlos Oscar S. Sorzano
  • Roberto Marabini
  • J. Vargas
  • J. Otón
  • J. Cuenca-Alba
  • A. Quintana
  • J.M. de la Rosa-Trevín
  • Jose Maria Carazo Garcia
... View more Collapse

Computational Methods For Three-dimensional Microscopy Reconstruction - 2014

  • ORCID
Open Access

ON A PROTOTYPE FOR A NEW DISTRIBUTED DATA-BASE OF VOLUME DATA OBTAINED BY 3D IMAGING

  • MARABINI, R
  • VAQUERIZO, C
  • FERNANDEZ, JJJ
  • CARAZO, JM
  • LADJADJ, M
  • ODESANYA, O
  • FRANK, J
  • Robb, RA
... View more Collapse

Visualization in Biomedical Computer 1994 - 9/09/1994

10.1117/12.185208 View source

Cite count: 1 (Web of Science) 4 (Scopus)
  • CiteScore: 0.8 (2020)
Open Access

Semiautomatic, high-throughput, high-resolution protocol for three-dimensional reconstruction of single particles in electron microscopy

  • Sorzano C.
  • De La Rosa Trevín J.
  • Otón J.
  • Vega J.
  • Cuenca J.
  • Zaldívar-Peraza A.
  • Gómez-Blanco J.
  • Vargas J.
  • Quintana A.
  • Marabini R.
  • Carazo J.
... View more Collapse

Methods in Molecular Biology - 1/1/2013

10.1007/978-1-62703-137-0_11

Cite count: 14 (Scopus)
  • SJR Quartile: Q3
  • CiteScore: 2.2 (2020)
  • SJR: 0.751 (2013
  • SNIP: 0.362 (2013
  • SJR Categories: Genetics (Q3); Molecular Biology (Q3)

Soft X-ray tomography imaging for biological samples

  • Otón J.
  • Sorzano C.
  • Chichón F.
  • Carrascosa J.
  • Carazo J.
  • Marabini R.

Applied and Numerical Harmonic Analysis - 1/1/2014

10.1007/978-1-4614-9521-5_8

Cite count: 4 (Web of Science) 3 (Scopus)
  • JCR Quartile: Q2 (2014)
  • Category normalized Impact: 0.156 (2014)
  • CiteScore: 0.8 (2020)

3-D ELECTRON MICROSCOPY AND INCOMPLETE ANGULAR COVERAGE: A RESTORATION SCHEME BASED ON PROJECTIONS ONTO CONVEX SETS.

  • Carazo J.

ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings - 1/1/1988

Cite count:
  • CiteScore: 4.6 (2020)

3-DIMENSIONAL STRUCTURE OF THE DNAB HELICASE OLIGOMER FROM ESCHERICHIA-COLI BY ELECTRON-MICROSCOPY AND IMAGE-PROCESSING

  • Carmen San Martín
  • STAMFORD, NPJ
  • DAMMEROVA, N
  • DIXON, NE
  • Jose Maria Carazo Garcia

Electron Microscopy 1994, Vols 3a and 3b - 1994

  • ORCID

3D reconstruction of macromolecules on multiprocessors

  • Ujaldón M.
  • Asenjo R.
  • Zapata E.L.
  • Cabaleiro J.C.
  • Carazo J.M.

Proceedings of The 2nd Euromicro Workshop On Parallel and Distributed Processing, Pdp 1994 - 1/1/1994

10.1109/empdp.1994.592499

Cite count:

A method for refining the geometry of images collected by the random conical tilt scheme based on common lines

  • de la Fraga, LG
  • Herman, GT
  • Jose Maria Carazo Garcia

Electron Microscopy 1998, Vol 1 - 1998

  • ORCID

Analysing cryoEM data quality in the post resolution revolution era: Validity criteria

  • Jose Maria Carazo Garcia

European Biophysics Journal With Biophysics Letters - 07/2019

  • ORCID

A new image translational alignment method with an application in electron crystallography

  • Roca, R
  • Danielsson, PE
  • Jose Maria Carazo Garcia
  • Jose-Jesus Fernandez

Electron Microscopy 1998, Vol 1 - 1998

  • ORCID

An image processing approach to the simulation of electron microscopy volumes of atomic structures

  • Sorzano, C.O.S.
  • Vargas, J.
  • Oton, J.
  • Abrishami, V.
  • De La Rosa-Trevin, J.M.
  • Del Riego, S.
  • Fernandez-Alderete, A.
  • Martinez-Rey, C.
  • Marabini, R.
  • Carazo, J.M.
... View more Collapse

2014 IEEE International Conference on Image Processing, ICIP 2014 - 28/01/2014

10.1109/icip.2014.7025420 View source

Cite count:
  • SJR Categories: Computer Vision and Pattern Recognition

A semantic mediation approach for problems in computational molecular biology

  • Chagoyen M.
  • Kurul M.
  • De-Alarcon P.
  • Santini S.
  • Ludäscher B.
  • Carazo J.
  • Gupta A.
... View more Collapse

Proceedings of The 2003 Ieee Bioinformatics Conference, Csb 2003 - 1/1/2003

10.1109/csb.2003.1227339

Cite count:
  • SJR Categories: Transportation

AutoRes: Structure resolution determination through autocorrelation analysis

  • J. Vargas
  • Carlos Oscar S. Sorzano
  • Jose Maria Carazo Garcia

3dem Gordon Research Conference 2015 - 2015

  • ORCID

BioImage, the data base of volume images: Update on the first prototype

  • Jose Maria Carazo Garcia
  • Monica Chagoyen
  • Lucini, JL
  • Stelzer, E
  • Lindek, S
  • Fritsch, R
  • Engel, A
  • Heyman, JB
  • Fita, I
  • Susana G Kalko
  • Henn, C
  • Pittet, JJ
  • McNeil, P
  • Rodriquez-Tome, P
  • Shotton, D
  • Boudier, T
  • Machtynger, J
... View more Collapse

Electron Microscopy 1998, Vol 1 - 1998

  • ORCID

This author has no patents.

Open Access

Accessing Information on the Conformational Flexibility of Molecular Machines

  • Carazo, JM

Structure - 1/02/2004

10.1016/j.str.2004.01.017

Cite count: 3 (Web of Science) 4 (Scopus)
  • SJR Quartile: Q1
  • CiteScore: 9 (2020)
  • SJR: 4.47 (2004
  • SNIP: 1.507 (2004
  • SJR Categories: Molecular Biology (Q1); Structural Biology (Q1)

Automatic local resolution-based sharpening of cryo-EM maps.

  • Ramirez-Aportela E
  • Vilas JL
  • Melero R
  • Conesa P
  • Martinez M
  • Maluenda D
  • Mota J
  • Jimenez A
  • Vargas J
  • Marabini R
  • Carazo JM
  • Sorzano COS
... View more Collapse

10/2018

10.1101/433284

  • ORCID

A variant to the \'random approximation\' of the reference-free alignment algorithm

  • Marco S.
  • Chagoyen M.
  • De La Fraga L.
  • Carazo J.
  • Carrascosa J.

Ultramicroscopy - 1/11/1996

10.1016/s0304-3991(96)00083-6

Cite count: 62 (Scopus)
  • CiteScore: 5 (2020)

Biological structure determination by EM is well suited to grid computing

  • Fernandez J.
  • Bilbao-Castro J.
  • Marabini R.
  • Carazo J.
  • Garcia I.

New Generation Computing - 1/06/2004

10.1007/bf03040957

Cite count:
  • JCR Quartile: Q2 (2004)
  • SJR Quartile: Q2
  • JCR Impact Factor: 0.854 (2022)
  • CiteScore: 2.1 (2020)
  • SJR: 0.556 (2004
  • SNIP: 1.19 (2004
  • SJR Categories: Computer Networks and Communications (Q2); Hardware and Architecture (Q2); Software (Q2); Theoretical Computer Science (Q2)

DeepEMhancer: a deep learning solution for cryo-EM volume post-processing

  • Ruben Sanchez Garcia
  • Josue Gomez-Blanco
  • Ana Cuervo
  • Jose Maria Carazo
  • Carlos Oscar S Sorzano
  • Javier Vargas

13/06/2020

10.1101/2020.06.12.148296

  • ORCID

Dynamic Kinetochore Size Regulation Promotes Microtubule Capture And Chromosome Biorientation In Mitosis

  • Sacristan C
  • Ahmad M
  • Keller J
  • Fermie J
  • Groenewold V
  • Tromer E
  • Fish A
  • Melero R
  • Carazo JM
  • Klumperman J
  • Musacchio A
  • Perrakis A
  • Kops GJ
... View more Collapse

03/2018

10.1101/279398

  • ORCID

ENRICH: a fast method to improve the quality of flexible macromolecular reconstructions

  • Kazemi M
  • Sorzano COS
  • Des Georges A
  • Carazo JM
  • Vargas J

08/2018

10.1101/400317

  • ORCID
Open Access

ENRICH: A fast method to improve the quality of flexible macromolecular reconstructions

  • Kazemi M.
  • Sorzano C.O.S.
  • Carazo J.M.
  • Georges A.d.
  • Abrishami V.
  • Vargas J.

Progress In Biophysics & Molecular Biology - 1/09/2021

10.1016/j.pbiomolbio.2021.01.001

Cite count: 2 (Web of Science) 1 (Scopus)
  • JCR Impact Factor: 4.799 (2021)
  • CiteScore: 5.8 (2020)
  • SJR: 0.859 (2020
  • SNIP: 0.995 (2020
  • JCR 5-year Impact Factor: 3.907
  • JCR Categories: BIOCHEMISTRY & MOLECULAR BIOLOGY
Open Access

Erratum: Crystal structure of a near-full-length archaeal MCM: Functional insights for an AAA+ hexameric helicase (Proceedings of the National Academy of Sciences of the United States of America (2008) 23:51 (20191-20196))

  • Brewster A.
  • Wang G.
  • Yu X.
  • Greenleaf W.
  • Carazo J.
  • Tjajadi M.
  • Klein M.
  • Chen X.
... View more Collapse

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA - 7/4/2009

Cite count: 1 (Scopus)
  • SJR Quartile: Q1
  • JCR Impact Factor: 9.432 (2009)
  • CiteScore: 16.2 (2020)
  • SJR: 7.025 (2009
  • SNIP: 2.563 (2009
  • JCR 5-year Impact Factor: 10.312
  • JCR Categories: MULTIDISCIPLINARY SCIENCES
  • SJR Categories: Multidisciplinary (Q1)

Erratum: Image processing tools for the validation of CryoEM maps (Faraday Discussions (2022) DOI: 10.1039/D2FD00059H)

  • Sorzano C.O.S.
  • Vilas J.L.
  • Ramírez-Aportela E.
  • Krieger J.
  • Del Hoyo D.
  • Herreros D.
  • Fernandez-Giménez E.
  • Marchán D.
  • De Isidro Gómez F.
  • Macías J.R.
  • Sánchez I.
  • Del Caño L.
  • Fonseca-Reyna Y.
  • Conesa P.
  • García-Mena A.
  • Burguet J.
  • García Condado J.
  • Méndez García J.
  • Martínez M.
  • Muñoz-Barrutia A.
  • Marabini R.
  • Vargas J.
  • Carazo J.M.
... View more Collapse

FARADAY DISCUSSIONS - 11/11/2022

10.1039/d2fd90074b

Cite count:
  • JCR Impact Factor: 3.4 (2022)
  • JCR 5-year Impact Factor: 3.4
  • JCR Categories: CHEMISTRY, PHYSICAL

Scopus: 52

Web of Science: 54

Scopus: 178

Web of Science: 192

Last data update: 5/18/24 8:47 AM
Next scheduled update: 5/25/24 3:00 AM