José María Carazo

	2009
60		Carlos Oscar Sánchez Sorzano, Cédric Messaoudi, Matthias Eibauer, Jose-Roman Bilbao-Castro, Reiner Hegerl, S. Nickell, Sergio Marco, José María Carazo: Marker-free image registration of electron tomography tilt-series. BMC Bioinformatics 10: (2009)
59		Natalia Jiménez-Lozano, Joan Segura, José Ramón Macías, Juanjo Vega, José María Carazo: aGEM: an integrative system for analyzing spatial-temporal gene-expression information. Bioinformatics 25(19): 2566-2572 (2009)
58		Rubén Nogales-Cadenas, Federico Abascal, Javier Díez-Pérez, José María Carazo, Alberto D. Pascual-Montano: CentrosomeDB: a human centrosomal proteins database. Nucleic Acids Research 37(Database-Issue): 175-180 (2009)
57		Miguel Vazquez, Pedro Carmona-Saez, Rubén Nogales-Cadenas, Monica Chagoyen, Francisco Tirado, José María Carazo, Alberto D. Pascual-Montano: SENT: semantic features in text. Nucleic Acids Research 37(Web-Server-Issue): 153-159 (2009)
56		Rubén Nogales-Cadenas, Pedro Carmona-Saez, Miguel Vazquez, Cesar Vicente, Xiaoyuan Yang, Francisco Tirado, José María Carazo, Alberto D. Pascual-Montano: GeneCodis: interpreting gene lists through enrichment analysis and integration of diverse biological information. Nucleic Acids Research 37(Web-Server-Issue): 317-322 (2009)
	2008
55		Laura Fernandez-de-Manuel, María J. Ledesma-Carbayo, Julian Atienza-Herrero, Carlos Oscar Sánchez Sorzano, José María Carazo, Andrés Santos: Flexible image registration for the identification of best fitted protein models in 3D-EM maps. ISBI 2008: 983-986
54		Monica Chagoyen, José María Carazo, Alberto D. Pascual-Montano: Assessment of protein set coherence using functional annotations. BMC Bioinformatics 9: (2008)
53		Federico Abascal, Pedro Carmona-Saez, José María Carazo, Alberto D. Pascual-Montano: ChIPCodis: mining complex regulatory systems in yeast by concurrent enrichment analysis of chip-on-chip data. Bioinformatics 24(9): 1208-1209 (2008)
52		Carlos Oscar Sánchez Sorzano, Javier A. Velázquez-Muriel, Roberto Marabini, Gabor T. Herman, José María Carazo: Volumetric restrictions in single particle 3DEM reconstruction. Pattern Recognition 41(2): 616-626 (2008)
	2007
51		José-Jesús Fernández, Inmaculada García, José María Carazo, Roberto Marabini: Electron tomography of complex biological specimens on the Grid. Future Generation Comp. Syst. 23(3): 435-446 (2007)
50		Jose-Roman Bilbao-Castro, A. Merino, Inmaculada García, José María Carazo, José-Jesús Fernández: Parameter optimization in 3D reconstruction on a large scale grid. Parallel Computing 33(4-5): 250-263 (2007)
	2006
49		Ignacio Arganda-Carreras, Carlos Oscar Sánchez Sorzano, Roberto Marabini, José María Carazo, Carlos Ortiz-de-Solorzano, Jan Kybic: Consistent and Elastic Registration of Histological Sections Using Vector-Spline Regularization. CVAMIA 2006: 85-95
48		Bartosz Telenczuk, María J. Ledesma-Carbayo, Javier A. Velázquez-Muriel, Carlos Oscar Sánchez Sorzano, José María Carazo, Andrés Santos: Molecular image registration using mutual information and differential evolution optimization. ISBI 2006: 844-847
47		Carlos Oscar Sánchez Sorzano, Roberto Marabini, Alberto D. Pascual-Montano, Sjors H. W. Scheres, José María Carazo: Optimization problems in electron microscopy of single particles. Annals OR 148(1): 133-165 (2006)
46		Monica Chagoyen, Pedro Carmona-Saez, Concha Gil, José María Carazo, Alberto D. Pascual-Montano: A literature-based similarity metric for biological processes. BMC Bioinformatics 7: 363 (2006)
45		Alberto D. Pascual-Montano, Pedro Carmona-Saez, Monica Chagoyen, Francisco Tirado, José María Carazo, Roberto D. Pascual-Marqui: bioNMF: a versatile tool for non-negative matrix factorization in biology. BMC Bioinformatics 7: 366 (2006)
44		Monica Chagoyen, Pedro Carmona-Saez, Hagit Shatkay, José María Carazo, Alberto D. Pascual-Montano: Discovering semantic features in the literature: a foundation for building functional associations. BMC Bioinformatics 7: 41 (2006)
43		Pedro Carmona-Saez, Monica Chagoyen, Andrés Rodríguez, Oswaldo Trelles, José María Carazo, Alberto D. Pascual-Montano: Integrated analysis of gene expression by association rules discovery. BMC Bioinformatics 7: 54 (2006)
42		Pedro Carmona-Saez, Roberto D. Pascual-Marqui, Francisco Tirado, José María Carazo, Alberto D. Pascual-Montano: Biclustering of gene expression data by non-smooth non-negative matrix factorization. BMC Bioinformatics 7: 78 (2006)
41		Alberto D. Pascual-Montano, José María Carazo, Kieko Kochi, Dietrich Lehmann, Roberto D. Pascual-Marqui: Nonsmooth Nonnegative Matrix Factorization (nsNMF). IEEE Trans. Pattern Anal. Mach. Intell. 28(3): 403-415 (2006)
	2005
40		Sjors H. W. Scheres, A. J. Merino, Carlos Oscar Sánchez Sorzano, José María Carazo: Grid Computing in 3D-EM Image Processing Using Xmipp. CBMS 2005: 561-563
39		Alberto D. Pascual-Montano, Francisco Tirado, Pedro Carmona-Saez, José María Carazo, Roberto D. Pascual-Marqui: Two-way clustering of gene expression profiles by sparse matrix factorization. CSB Workshops 2005: 103-104
38		Javier A. Velázquez-Muriel, José María Carazo: Extending the incorporation of superfamily structural information in the process of flexible fitting in 3D-EM. CSB Workshops 2005: 209-210
37		Sjors H. W. Scheres, Mikel Valle, José María Carazo: Fast maximum-likelihood refinement of electron microscopy images. ECCB/JBI 2005: 244
36		Andrés Rodríguez, José María Carazo, Oswaldo Trelles-Salazar: Mining association rules from biological databases. JASIST 56(5): 493-504 (2005)
35		Carlos Oscar Sánchez Sorzano, Roberto Marabini, Gabor T. Herman, José María Carazo: Multiobjective algorithm parameter optimization using multivariate statistics in three-dimensional electron microscopy reconstruction. Pattern Recognition 38(12): 2587-2601 (2005)
	2004
34		Jose-Roman Bilbao-Castro, José María Carazo, José-Jesús Fernández, Inmaculada García: Parallelization and Comparison of 3D Iterative Reconstruction Algorithms. PDP 2004: 96-102
33		Monica Chagoyen, M. Erdem Kurul, Pedro A. de Alarcón, José María Carazo, Amarnath Gupta: Designing and executing scientific workflows with a programmable integrator. Bioinformatics 20(13): 2092-2100 (2004)
32		Roberto Marabini, Carlos Oscar Sánchez Sorzano, Samuel Matej, José-Jesús Fernández, José María Carazo, Gabor T. Herman: 3-D reconstruction of 2-D crystals in real space. IEEE Transactions on Image Processing 13(4): 549-561 (2004)
31		José-Jesús Fernández, José María Carazo, Inmaculada García: Three-dimensional reconstruction of cellular structures by electron microscope tomography and parallel computing. J. Parallel Distrib. Comput. 64(2): 285-300 (2004)
30		José-Jesús Fernández, Jose-Roman Bilbao-Castro, Roberto Marabini, José María Carazo, Inmaculada García: Biological Structure Determination by EM is Well Suited to Grid Computing. New Generation Comput. 22(2): (2004)
29		José-Jesús Fernández, Jose-Roman Bilbao-Castro, Roberto Marabini, José María Carazo, Inmaculada García: On the Suitability of Biological Structure Determination by Electron Microscopy to Grid Computing. New Generation Comput. 23(1): (2004)
28		Jose-Roman Bilbao-Castro, Roberto Marabini, José María Carazo, Inmaculada García, José-Jesús Fernández: The Potential Of Grid Computing In Three-Dimensional Electron Microscopy. Parallel Processing Letters 14(2): 151-162 (2004)
	2003
27		Monica Chagoyen, M. Erdem Kurul, Pedro A. de Alarcón, Simone Santini, Bertram Ludäscher, José María Carazo, Amarnath Gupta: A Semantic Mediation Approach for Problems in Computational Molecular Biology. CSB 2003: 386-387
26		José-Jesús Fernández, Jose-Roman Bilbao-Castro, Roberto Marabini, José María Carazo, Inmaculada García: Grid Computing in Structure Determination of Biological Specimens by Electron Microscope Tomography. European Across Grids Conference 2003: 171-181
25		Jose-Roman Bilbao-Castro, José María Carazo, Inmaculada García, José-Jesús Fernández: Parallel iterative reconstruction methods for structure determination of biological specimens by electron microscopy. ICIP (1) 2003: 565-568
24		Jorge García de la Nava, Daniel Franco Santaella, Jesús Cuenca Alba, José María Carazo, Oswaldo Trelles, Alberto D. Pascual-Montano: Engene: the processing and exploratory analysis of gene expression data. Bioinformatics 19(5): 657-658 (2003)
	2002
23		Pedro A. de Alarcón, Alberto D. Pascual-Montano, José María Carazo: Spin Images and Neural Networks for Efficient Content-Based Retrieval in 3D Object Databases. CIVR 2002: 225-234
22		Pedro A. de Alarcón, Alberto D. Pascual-Montano, Amarnath Gupta, José María Carazo: Modeling Shape and Topology of 3D Images of Biological Specimens. ICPR (1) 2002: 79-82
21		Roberto Marabini, Gabor T. Herman, Carlos Oscar Sánchez Sorzano, José María Carazo: Volumetric constraints in 3D tomography applied to electron microscopy. ISBI 2002: 641-644
20		Roberto Marabini, Gabor T. Herman, Carlos Oscar Sánchez Sorzano, José María Carazo, José-Jesús Fernández, Samuel Matej: 3D reconstruction of 2D crystals from projections in real space. ISBI 2002: 689-692
19		José-Jesús Fernández, Albert F. Lawrence, Javier Roca Piera, Inmaculada García, Mark H. Ellisman, José María Carazo: High Performance Computing in Electron Microscope Tomography of Complex Biological Structures. VECPAR 2002: 166-180
18		Carlos Oscar Sánchez Sorzano, José María Carazo, Oswaldo Trelles: Command-line interfaces can be efficiently brought to graphics: COLIMATE (the COmmand LIne MATE). Softw., Pract. Exper. 32(9): 873-887 (2002)
	2001
17		Roberto D. Pascual-Marqui, Alberto D. Pascual-Montano, Kieko Kochi, José María Carazo: Smoothly distributed fuzzy c-means: a new self-organizing map. Pattern Recognition 34(12): 2395-2402 (2001)
	1999
16		Alberto Pascual, Montserrat Barcéna, Juan J. Merelo Guervós, José María Carazo: Application of the Fuzzy Kohonen Clustering Network to Biological Macromolecules Images Classification. IWANN (2) 1999: 331-340
15		Juan J. Merelo Guervós, Víctor Manuel Rivas Santos, Gustavo Romero, Pedro A. Castillo Valdivieso, Alberto Pascual, José María Carazo: Improved Automatic Classification of Biological Particles from Electron-Microscopy Images Using Genetic Neural Nets. IWANN (2) 1999: 373-382
14		José María Carazo, Ernst H. K. Stelzer, A. Engel, I. Fita, C. Henn, J. Machtynger, P. McNeil, David M. Shotton, Monica Chagoyen, Pedro A. de Alarcón, R. Fritsch, J. B. Heymann, S. Kalko, J. J. Pittet, Patricia Rodriguez-Tomé, Thomas Boudier: Organising multi-dimensional biological image information: the BioImage Database. Nucleic Acids Research 27(1): 280-283 (1999)
	1998
13		S. Lindek, R. Fritsch, Ernst H. K. Stelzer, José María Carazo, A. Engel, I. Fita, C. Henn, P. McNeil, David M. Shotton, J. Machtynger: Biolmage, the database of biological microscopy data. German Conference on Bioinformatics 1998
12		Huaichun Wang, Joaquín Dopazo, José María Carazo: Self-organizing tree growing network for classifying amino acids. Bioinformatics 14(4): 376-377 (1998)
11		Oswaldo Trelles, Miguel A. Andrade, Alfonso Valencia, Emilio L. Zapata, José María Carazo: Computational space reduction and parallelization of a new clustering approach for large groups of sequences. Bioinformatics 14(5): 439-451 (1998)
10		Oswaldo Trelles, C. Ceron, Huaichun Wang, Joaquín Dopazo, José María Carazo: New phylogenetic venues opened by a novel implementation of the DNAml algorithm. Bioinformatics 14(6): 544-545 (1998)
9		Juan J. Merelo Guervós, Alberto Prieto, Federico Morán, Roberto Marabini, José María Carazo: Automatic Classification of Biological Particles from Electron-microscopy Images Using Conventional and Genetic-algorithm Optimized Learning Vector Quantization. Neural Processing Letters 8(1): 55-65 (1998)
8		C. Ceron, Joaquín Dopazo, Emilio L. Zapata, José María Carazo, Oswaldo Trelles: Parallel Implementation of DNAml Program on Message-Passing Architectures. Parallel Computing 24(5-6): 701-716 (1998)
	1997
7		Juan J. Merelo Guervós, Alberto Prieto, Federico Morán, Roberto Marabini, José María Carazo: A GA-optimized Neural Network for Classification of Biological Particles from Electron-Microscopy Images. IWANN 1997: 1174-1182
6		Joaquín Dopazo, Huaichun Wang, José María Carazo: A New Type of Unsupervised Growing Neural Network for Biological Sequence Classification That Adopts the Topology of a Phylogenetic Tree. IWANN 1997: 932-941
	1996
5		Roberto Marabini, José María Carazo: On a new computationally fast image invariant based on bispectral projections. Pattern Recognition Letters 17(9): 959-967 (1996)
	1995
4		Oswaldo Trelles-Salazar, Emilio L. Zapata, Joaquín Dopazo, A. F. Coulson, José María Carazo: An image-processing approach to dotplots: an X-Window-based program for interactive analysis of dotplots derived from sequence and structural data. Computer Applications in the Biosciences 11(3): 301-308 (1995)
	1994
3		Oswaldo Trelles-Salazar, Emilio L. Zapata, José María Carazo: Mapping Strategies for Sequential Sequence Comparison Algorithms on LAN-Based Message Passing Architectures. HPCN 1994: 197-202
2		Oswaldo Trelles-Salazar, Emilio L. Zapata, José María Carazo: On an efficient parallelization of exhaustive sequence comparison algorithms on message passing architectures. Computer Applications in the Biosciences 10(5): 509-511 (1994)
	1990
1		Francisco F. Rivera, Emilio L. Zapata, José María Carazo: Cluster validity based on the hard tendency of the fuzzy classification. Pattern Recognition Letters 11(1): 7-12 (1990)

Coauthor Index

1	Federico Abascal	[53] [58]
2	Pedro A. de Alarcón	[14] [22] [23] [27] [33]
3	Jesús Cuenca Alba	[24]
4	Miguel A. Andrade-Navarro (Miguel A. Andrade)	[11]
5	Ignacio Arganda-Carreras	[49]
6	Julian Atienza-Herrero	[55]
7	Montserrat Barcéna	[16]
8	Jose-Roman Bilbao-Castro	[25] [26] [28] [29] [30] [34] [50] [60]
9	Thomas Boudier	[14]
10	Pedro Carmona-Saez	[39] [42] [43] [44] [45] [46] [53] [56] [57]
11	C. Ceron	[8] [10]
12	Monica Chagoyen	[14] [27] [33] [43] [44] [45] [46] [54] [57]
13	A. F. Coulson	[4]
14	Javier Díez-Pérez	[58]
15	Joaquín Dopazo	[4] [6] [8] [10] [12]
16	Matthias Eibauer	[60]
17	Mark H. Ellisman	[19]
18	A. Engel	[13] [14]
19	José-Jesús Fernández	[19] [20] [25] [26] [28] [29] [30] [31] [32] [34] [50] [51]
20	Laura Fernandez-de-Manuel	[55]
21	I. Fita	[13] [14]
22	R. Fritsch	[13] [14]
23	Inmaculada García (Inmaculada García Fernández)	[19] [25] [26] [28] [29] [30] [31] [34] [50] [51]
24	Concha Gil	[46]
25	Juan Julián Merelo Guervós (Juan J. Merelo Guervós)	[7] [9] [15] [16]
26	Amarnath Gupta	[22] [27] [33]
27	Reiner Hegerl	[60]
28	C. Henn	[13] [14]
29	Gabor T. Herman	[20] [21] [32] [35] [52]
30	J. B. Heymann	[14]
31	Natalia Jiménez-Lozano	[59]
32	S. Kalko	[14]
33	Kieko Kochi	[17] [41]
34	M. Erdem Kurul	[27] [33]
35	Jan Kybic	[49]
36	Albert F. Lawrence	[19]
37	María J. Ledesma-Carbayo	[48] [55]
38	Dietrich Lehmann	[41]
39	S. Lindek	[13]
40	Bertram Ludäscher	[27]
41	J. Machtynger	[13] [14]
42	José Ramón Macías	[59]
43	Roberto Marabini	[5] [7] [9] [20] [21] [26] [28] [29] [30] [32] [35] [47] [49] [51] [52]
44	Sergio Marco	[60]
45	Samuel Matej	[20] [32]
46	P. McNeil	[13] [14]
47	A. Merino	[50]
48	A. J. Merino	[40]
49	Cédric Messaoudi	[60]
50	Federico Morán	[7] [9]
51	Jorge García de la Nava	[24]
52	S. Nickell	[60]
53	Rubén Nogales-Cadenas	[56] [57] [58]
54	Carlos Ortiz-de-Solorzano	[49]
55	Alberto Pascual	[15] [16]
56	Roberto D. Pascual-Marqui	[17] [39] [41] [42] [45]
57	Alberto D. Pascual-Montano	[17] [22] [23] [24] [39] [41] [42] [43] [44] [45] [46] [47] [53] [54] [56] [57] [58]
58	Javier Roca Piera	[19]
59	J. J. Pittet	[14]
60	Alberto Prieto	[7] [9]
61	Francisco F. Rivera	[1]
62	Andrés Rodríguez	[36] [43]
63	Patricia Rodriguez-Tomé	[14]
64	Gustavo Romero	[15]
65	Daniel Franco Santaella	[24]
66	Simone Santini	[27]
67	Andrés Santos	[48] [55]
68	Víctor Manuel Rivas Santos (Víctor M. Rivas)	[15]
69	Sjors H. W. Scheres	[37] [40] [47]
70	Joan Segura	[59]
71	Hagit Shatkay	[44]
72	David M. Shotton	[13] [14]
73	Carlos Oscar Sánchez Sorzano	[18] [20] [21] [32] [35] [40] [47] [48] [49] [52] [55] [60]
74	Ernst H. K. Stelzer	[13] [14]
75	Bartosz Telenczuk	[48]
76	Francisco Tirado	[39] [42] [45] [56] [57]
77	Oswaldo Trelles (Oswaldo Trelles-Salazar)	[2] [3] [4] [8] [10] [11] [18] [24] [36] [43]
78	Pedro A. Castillo Valdivieso (Pedro A. Castillo)	[15]
79	Alfonso Valencia	[11]
80	Mikel Valle	[37]
81	Miguel Vazquez	[56] [57]
82	Juanjo Vega	[59]
83	Javier A. Velázquez-Muriel	[38] [48] [52]
84	Cesar Vicente	[56]
85	Huaichun Wang	[6] [10] [12]
86	Xiaoyuan Yang	[56]
87	Emilio L. Zapata	[1] [2] [3] [4] [8] [11]

Colors in the list of coauthors