Prototype for a new distributed database of volume data obtained by 3D imaging. - Roberto Marabini; C. Vaquerizo; José-Jesús Fernández; José María Carazo; M. Ladjadj; O. Odesanya; J. Frank (VBC, 1994)

Progessive-fidelity Image Transmission for Telebrowsing: An Efficient Implementation. - Manuel F. López; Vicente González Ruiz; José-Jesús Fernández; Inmaculada García (VIIP, 2001)

Techniques for Speeding up the SPIHT Progressive Image Compressor. - Vicente González Ruiz; Manuel F. López; José-Jesús Fernández; Inmaculada García (VIIP, 2001)

3D reconstruction of 2D crystals from projections in real space. - Roberto Marabini; Gabor T. Herman; Carlos Oscar Sánchez Sorzano; José María Carazo; José-Jesús Fernández; Samuel Matej (ISBI, 2002)

High Performance Computing in Electron Microscope Tomography of Complex Biological Structures. - José-Jesús Fernández; Albert F. Lawrence; Javier Roca Piera; Inmaculada García; Mark H. Ellisman; José María Carazo (VECPAR, 2002)

An Approach to Teaching Computer Arithmetic. - Ester M. Garzón; Inmaculada García; José-Jesús Fernández (VECPAR, 2002)

Progressive Image Transmission in Telemicroscopy: A Quantitative Approach for Electron Microscopy Images of Biological Specimens. - Vicente González Ruiz; José-Jesús Fernández; Manuel F. López; Inmaculada García (Real Time Imaging, 2002)

Grid Computing in Structure Determination of Biological Specimens by Electron Microscope Tomography. - José-Jesús Fernández; Jose-Roman Bilbao-Castro; Roberto Marabini; José María Carazo; Inmaculada García (European Across Grids Conference, 2003)

Parallel iterative reconstruction methods for structure determination of biological specimens by electron microscopy. - Jose-Roman Bilbao-Castro; José María Carazo; Inmaculada García; José-Jesús Fernández (ICIP (1), 2003)

Floating point arithmetic teaching for computational science. - José-Jesús Fernández; Inmaculada García; Ester M. Garzón (Future Gener. Comput. Syst., 2003)

Educational issues on number representation and arithmetic in computers: an undergraduate laboratory. - José-Jesús Fernández; Inmaculada García; Ester M. Garzón (IEEE Trans. Educ., 2003)

Image Registration in Electron Microscopy. A Stochastic Optimization Approach. - Juana López Redondo; Pilar Martínez Ortigosa; Inmaculada García; José-Jesús Fernández (ICIAR (2), 2004)

Parallelization and Comparison of 3D Iterative Reconstruction Algorithms. - Jose-Roman Bilbao-Castro; José María Carazo; José-Jesús Fernández; Inmaculada García (PDP, 2004)

A global optimization approach to image translational alignment in electron microscopy. - Juana López Redondo; Pilar Martínez Ortigosa; Inmaculada García; José-Jesús Fernández (SMC (5), 2004)

A Performance Prediction Model for Tomographic Reconstruction in Structural Biology. - Paula Cecilia Fritzsche; José-Jesús Fernández; Ana Ripoll; Inmaculada García; Emilio Luque (VECPAR, 2004)

Phan3D: design of biological phantoms in 3D electron microscopy. - Jose-Roman Bilbao-Castro; Carlos Oscar Sánchez Sorzano; Inmaculada García; José-Jesús Fernández (Bioinform., 2004)

Three-dimensional reconstruction of cellular structures by electron microscope tomography and parallel computing. - José-Jesús Fernández; José María Carazo; Inmaculada García (J. Parallel Distributed Comput., 2004)

Biological Structure Determination by EM is Well Suited to Grid Computing. - José-Jesús Fernández; Jose-Roman Bilbao-Castro; Roberto Marabini; José María Carazo; Inmaculada García (New Gener. Comput., 2004)

On the Suitability of Biological Structure Determination by Electron Microscopy to Grid Computing. - José-Jesús Fernández; Jose-Roman Bilbao-Castro; Roberto Marabini; José María Carazo; Inmaculada García (New Gener. Comput., 2004)

The Potential Of Grid Computing In Three-Dimensional Electron Microscopy. - Jose-Roman Bilbao-Castro; Roberto Marabini; José María Carazo; Inmaculada García; José-Jesús Fernández (Parallel Process. Lett., 2004)

3-D reconstruction of 2-D crystals in real space. - Roberto Marabini; Carlos Oscar Sánchez Sorzano; Samuel Matej; José-Jesús Fernández; José María Carazo; Gabor T. Herman (IEEE Trans. Image Process., 2004)

Filtering 3D images in Structural Biology with Anisotropic Nonlinear Diffusion on SMP Clusters. - Siham Tabik; Ester M. Garzón; Inmaculada García; José-Jesús Fernández (PARCO, 2005)

A Performance Prediction for Iterative Reconstruction Techniques on Tomography. - Paula Cecilia Fritzsche; Ana Ripoll; Emilio Luque; José-Jesús Fernández; Inmaculada García (PDP, 2005)

Anisotropic nonlinear filtering of cellular structures in cryoelectron tomography. - José-Jesús Fernández; Sam Li (Comput. Sci. Eng., 2005)

Evaluation of Parallel Paradigms on Anisotropic Nonlinear Diffusion. - Siham Tabik; Ester M. Garzón; Inmaculada García; José-Jesús Fernández (Euro-Par, 2006)

Multiprocessing of Anisotropic Nonlinear Diffusion for Filtering 3D Images. - Siham Tabik; Ester M. Garzón; Inmaculada García; José-Jesús Fernández (PDP, 2006)

Image processing and 3-D reconstruction in electron microscopy. - José-Jesús Fernández; Carlos Oscar Sánchez Sorzano; Roberto Marabini; José María Carazo (IEEE Signal Process. Mag., 2006)

Three-Dimensional Anisotropic Noise Reduction with Automated Parameter Tuning: Application to Electron Cryotomography. - José-Jesús Fernández; Sam Li; Vladan Lucic (CAEPIA, 2007)

A Load Balancing Framework in Multithreaded Tomographic Reconstruction. - José Antonio Álvarez-Bermejo; Javier Roca Piera; José-Jesús Fernández (PARCO, 2007)

Multithreaded Tomographic Reconstruction. - José Antonio Álvarez-Bermejo; Javier Roca Piera; José-Jesús Fernández (PVM/MPI, 2007)

EGEETomo: a user-friendly, fault-tolerant and grid-enabled application for 3D reconstruction in electron tomography. - Jose-Roman Bilbao-Castro; Inmaculada García; José-Jesús Fernández (Bioinform., 2007)

High performance noise reduction for biomedical multidimensional data. - Siham Tabik; Ester M. Garzón; Inmaculada García; José-Jesús Fernández (Digit. Signal Process., 2007)

Electron tomography of complex biological specimens on the Grid. - José-Jesús Fernández; Inmaculada García; José María Carazo; Roberto Marabini (Future Gener. Comput. Syst., 2007)

A population global optimization algorithm to solve the image alignment problem in electron crystallography. - Pilar Martínez Ortigosa; Juana López Redondo; Inmaculada García; José-Jesús Fernández (J. Glob. Optim., 2007)

Parameter optimization in 3D reconstruction on a large scale grid. - Jose-Roman Bilbao-Castro; A. Merino; Inmaculada García; José María Carazo; José-Jesús Fernández (Parallel Comput., 2007)

Fast Tomographic Reconstruction with Vectorized Backprojection. - Jose Ignacio Agulleiro Baldo; Ester M. Garzón; Inmaculada García; José-Jesús Fernández (PDP, 2008)

Efficient parallel implementation of iterative reconstruction algorithms for electron tomography. - José-Jesús Fernández; Dan Gordon 001; Rachel Gordon (J. Parallel Distributed Comput., 2008)

Image Restoration in Electron Cryotomography - Towards Cellular Ultrastructure at Molecular Level. - José-Jesús Fernández; Sam Li; R. A. Crowther (Innovations in Hybrid Intelligent Systems, 2008)

Structure-Preserving Noise Reduction in Biological Imaging. - José-Jesús Fernández; Sam Li; Vladan Lucic (Innovations in Hybrid Intelligent Systems, 2008)

Evaluation of Master-Slave Approaches for 3D Reconstruction in Electron Tomography. - M. Laura da Silva; Javier Roca Piera; José-Jesús Fernández (IWANN (2), 2009)

A robust and efficient algorithm for planar competitive location problems. - Juana López Redondo; José-Jesús Fernández; Inmaculada García; Pilar Martínez Ortigosa (Ann. Oper. Res., 2009)

TOMOBFLOW: feature-preserving noise filtering for electron tomography. - José-Jesús Fernández (BMC Bioinform., 2009)

Solving the Multiple Competitive Facilities Location and Design Problem on the Plane. - Juana López Redondo; José-Jesús Fernández; Inmaculada García; Pilar Martínez Ortigosa (Evol. Comput., 2009)

Improving the Performance of the Sparse Matrix Vector Product with GPUs. - Francisco Vázquez; Gloria Ortega; José-Jesús Fernández; Ester M. Garzón (CIT, 2010)

A Hybrid Parallel Approach for 3D Reconstruction of Cellular Specimens. - M. Laura da Silva; Javier Roca Piera; José-Jesús Fernández (DCAI, 2010)

Real-Time Electron Tomography Based on GPU Computing. - José Antonio Martínez; Francisco Vázquez; Ester M. Garzón; José-Jesús Fernández (Euro-Par Workshops, 2010)

Ultra-fast Tomographic Reconstruction with a Highly Optimized Weighted Back-Projection Algorithm. - Jose Ignacio Agulleiro Baldo; Ester M. Garzón; Inmaculada García Fernández; José-Jesús Fernández (PDP, 2010)

XMSF: Structure-preserving noise reduction and pre-segmentation in microscope tomography. - Jose-Roman Bilbao-Castro; Carlos Oscar Sánchez Sorzano; Inmaculada García; José-Jesús Fernández (Bioinform., 2010)

Heuristics for the facility location and design (1|1)-centroid problem on the plane. - Juana López Redondo; José-Jesús Fernández; Inmaculada García; Pilar Martínez Ortigosa (Comput. Optim. Appl., 2010)

Three-dimensional feature-preserving noise reduction for real-time electron tomography. - José-Jesús Fernández; José Antonio Martínez (Digit. Signal Process., 2010)

Analytical Performance Prediction for Iterative Reconstruction Techniques in Electron Tomography of Biological Structures. - Paula Cecilia Fritzsche; José-Jesús Fernández; Dolores Rexachs; Inmaculada García; Emilio Luque (Int. J. High Perform. Comput. Appl., 2010)

Multi-core Desktop Processors Make Possible Real-Time Electron Tomography. - Jose Ignacio Agulleiro Baldo; Ester M. Garzón; Inmaculada García; José-Jesús Fernández (PDP, 2011)

Fast tomographic reconstruction on multicore computers. - Jose Ignacio Agulleiro Baldo; José-Jesús Fernández (Bioinform., 2011)

Matrix Implementation of Simultaneous Iterative Reconstruction Technique (SIRT) on GPUs. - Francisco Vázquez; Ester M. Garzón; José-Jesús Fernández (Comput. J., 2011)

A new approach for sparse matrix vector product on NVIDIA GPUs. - Francisco Vázquez; José-Jesús Fernández; Ester M. Garzón (Concurr. Comput. Pract. Exp., 2011)

Parallel algorithms for continuous multifacility competitive location problems. - Juana López Redondo; José-Jesús Fernández; Inmaculada García; Pilar Martínez Ortigosa (J. Glob. Optim., 2011)

Solving the facility location and design (1∣1)-centroid problem via parallel algorithms. - Juana López Redondo; José-Jesús Fernández; Inmaculada García; Pilar Martínez Ortigosa (J. Supercomput., 2011)

A generic model for ridges: A new framework to characterise biological planar structures. - Antonio Martínez-Sánchez; Inmaculada García; José-Jesús Fernández (ISBI, 2012)

Dynamic Load Scheduling on CPU-GPU for Iterative Tomographic Reconstruction. - Jose Ignacio Agulleiro Baldo; Francisco Miguel Vázquez López; Ester M. Garzón; José-Jesús Fernández (ISPA, 2012)

Fast Sparse Matrix Matrix Product Based on ELLR-T and GPU Computing. - Francisco Vázquez; Gloria Ortega; José-Jesús Fernández; Inmaculada García; Ester M. Garzón (ISPA, 2012)

Procedure for Detection of Membranes in Three-Dimensional Subcellular Density Maps. - Antonio Martínez-Sánchez; Inmaculada García; José-Jesús Fernández (PACBB, 2012)

Segmentation of Planar Structures in Bioimaging. - Antonio Martínez-Sánchez; Inmaculada García; José-Jesús Fernández (VISAPP (2), 2012)

Automatic tuning of the sparse matrix vector product on GPUs based on the ELLR-T approach. - Francisco Vázquez; José-Jesús Fernández; Ester M. Garzón (Parallel Comput., 2012)

TomoEED: fast edge-enhancing denoising of tomographic volumes. - Juan José Moreno; Antonio Martínez-Sánchez; José Antonio Martínez; Ester M. Garzón; José-Jesús Fernández (Bioinform., 2018)

PolishEM: image enhancement in FIB-SEM. - José-Jesús Fernández; Teobaldo E. Torres; Eva Martin-Solana; Gerardo F. Goya; Maria-Rosario Fernandez-Fernandez (Bioinform., 2020)

Computational methods for three-dimensional electron microscopy (3DEM). - José-Jesús Fernández; Antonio Martínez-Sánchez (Comput. Methods Programs Biomed., 2022)

Optical flow driven interpolation for isotropic FIB-SEM reconstructions. - Vicente González Ruiz; J. P. García-Ortiz; M. R. Fernández-Fernández; José-Jesús Fernández (Comput. Methods Programs Biomed., 2022)

HPC enables efficient 3D membrane segmentation in electron tomography. - Juan José Moreno; Ester M. Garzón; José-Jesús Fernández; Antonio Martínez-Sánchez (J. Supercomput., 2022)

FlowDenoising: Structure-preserving denoising in 3D electron microscopy (3DEM). - Vicente González Ruiz; José-Jesús Fernández (SoftwareX, 2023)

Acceleration of 3D feature-enhancing noise filtering in hybrid CPU/GPU systems. - Vicente González Ruiz; Juan José Moreno; José-Jesús Fernández (J. Supercomput., 2024)