José-Jesús Fernández

Orcid: 0000-0003-2222-3355

According to our database1, José-Jesús Fernández authored at least 70 papers between 1994 and 2024.

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Bibliography

2024
Acceleration of 3D feature-enhancing noise filtering in hybrid CPU/GPU systems.
J. Supercomput., June, 2024

2023
FlowDenoising: Structure-preserving denoising in 3D electron microscopy (3DEM).
SoftwareX, July, 2023

2022
HPC enables efficient 3D membrane segmentation in electron tomography.
J. Supercomput., 2022

Optical flow driven interpolation for isotropic FIB-SEM reconstructions.
Comput. Methods Programs Biomed., 2022

Computational methods for three-dimensional electron microscopy (3DEM).
Comput. Methods Programs Biomed., 2022

2020
PolishEM: image enhancement in FIB-SEM.
Bioinform., 2020

2018
TomoEED: fast edge-enhancing denoising of tomographic volumes.
Bioinform., 2018

2012
Automatic tuning of the sparse matrix vector product on GPUs based on the ELLR-T approach.
Parallel Comput., 2012

Segmentation of Planar Structures in Bioimaging.
Proceedings of the VISAPP 2012, 2012

Procedure for Detection of Membranes in Three-Dimensional Subcellular Density Maps.
Proceedings of the 6th International Conference on Practical Applications of Computational Biology & Bioinformatics, 2012

Fast Sparse Matrix Matrix Product Based on ELLR-T and GPU Computing.
Proceedings of the 10th IEEE International Symposium on Parallel and Distributed Processing with Applications, 2012

Dynamic Load Scheduling on CPU-GPU for Iterative Tomographic Reconstruction.
Proceedings of the 10th IEEE International Symposium on Parallel and Distributed Processing with Applications, 2012

A generic model for ridges: A new framework to characterise biological planar structures.
Proceedings of the 9th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2012

2011
Solving the facility location and design (1∣1)-centroid problem via parallel algorithms.
J. Supercomput., 2011

Parallel algorithms for continuous multifacility competitive location problems.
J. Glob. Optim., 2011

A new approach for sparse matrix vector product on NVIDIA GPUs.
Concurr. Comput. Pract. Exp., 2011

Matrix Implementation of Simultaneous Iterative Reconstruction Technique (SIRT) on GPUs.
Comput. J., 2011

Fast tomographic reconstruction on multicore computers.
Bioinform., 2011

Multi-core Desktop Processors Make Possible Real-Time Electron Tomography.
Proceedings of the 19th International Euromicro Conference on Parallel, 2011

2010
Analytical Performance Prediction for Iterative Reconstruction Techniques in Electron Tomography of Biological Structures.
Int. J. High Perform. Comput. Appl., 2010

Three-dimensional feature-preserving noise reduction for real-time electron tomography.
Digit. Signal Process., 2010

Heuristics for the facility location and design (1|1)-centroid problem on the plane.
Comput. Optim. Appl., 2010

XMSF: Structure-preserving noise reduction and pre-segmentation in microscope tomography.
Bioinform., 2010

Ultra-fast Tomographic Reconstruction with a Highly Optimized Weighted Back-Projection Algorithm.
Proceedings of the 18th Euromicro Conference on Parallel, 2010

Real-Time Electron Tomography Based on GPU Computing.
Proceedings of the Euro-Par 2010 Parallel Processing Workshops, 2010

A Hybrid Parallel Approach for 3D Reconstruction of Cellular Specimens.
Proceedings of the Distributed Computing and Artificial Intelligence, 2010

Improving the Performance of the Sparse Matrix Vector Product with GPUs.
Proceedings of the 10th IEEE International Conference on Computer and Information Technology, 2010

2009
Solving the Multiple Competitive Facilities Location and Design Problem on the Plane.
Evol. Comput., 2009

TOMOBFLOW: feature-preserving noise filtering for electron tomography.
BMC Bioinform., 2009

A robust and efficient algorithm for planar competitive location problems.
Ann. Oper. Res., 2009

Evaluation of Master-Slave Approaches for 3D Reconstruction in Electron Tomography.
Proceedings of the Distributed Computing, 2009

2008
Structure-Preserving Noise Reduction in Biological Imaging.
Proceedings of the Innovations in Hybrid Intelligent Systems, 2008

Image Restoration in Electron Cryotomography - Towards Cellular Ultrastructure at Molecular Level.
Proceedings of the Innovations in Hybrid Intelligent Systems, 2008

Efficient parallel implementation of iterative reconstruction algorithms for electron tomography.
J. Parallel Distributed Comput., 2008

Fast Tomographic Reconstruction with Vectorized Backprojection.
Proceedings of the 16th Euromicro International Conference on Parallel, 2008

2007
Parameter optimization in 3D reconstruction on a large scale grid.
Parallel Comput., 2007

A population global optimization algorithm to solve the image alignment problem in electron crystallography.
J. Glob. Optim., 2007

Electron tomography of complex biological specimens on the Grid.
Future Gener. Comput. Syst., 2007

High performance noise reduction for biomedical multidimensional data.
Digit. Signal Process., 2007

EGEETomo: a user-friendly, fault-tolerant and grid-enabled application for 3D reconstruction in electron tomography.
Bioinform., 2007

Multithreaded Tomographic Reconstruction.
Proceedings of the Recent Advances in Parallel Virtual Machine and Message Passing Interface, 14th European PVM/MPI User's Group Meeting, Paris, France, September 30, 2007

A Load Balancing Framework in Multithreaded Tomographic Reconstruction.
Proceedings of the Parallel Computing: Architectures, 2007

Three-Dimensional Anisotropic Noise Reduction with Automated Parameter Tuning: Application to Electron Cryotomography.
Proceedings of the Current Topics in Artificial Intelligence, 2007

2006
Image processing and 3-D reconstruction in electron microscopy.
IEEE Signal Process. Mag., 2006

Multiprocessing of Anisotropic Nonlinear Diffusion for Filtering 3D Images.
Proceedings of the 14th Euromicro International Conference on Parallel, 2006

Evaluation of Parallel Paradigms on Anisotropic Nonlinear Diffusion.
Proceedings of the Euro-Par 2006, Parallel Processing, 12th International Euro-Par Conference, Dresden, Germany, August 28, 2006

2005
Anisotropic nonlinear filtering of cellular structures in cryoelectron tomography.
Comput. Sci. Eng., 2005

A Performance Prediction for Iterative Reconstruction Techniques on Tomography.
Proceedings of the 13th Euromicro Workshop on Parallel, 2005

Filtering 3D images in Structural Biology with Anisotropic Nonlinear Diffusion on SMP Clusters.
Proceedings of the Parallel Computing: Current & Future Issues of High-End Computing, 2005

2004
3-D reconstruction of 2-D crystals in real space.
IEEE Trans. Image Process., 2004

The Potential Of Grid Computing In Three-Dimensional Electron Microscopy.
Parallel Process. Lett., 2004

On the Suitability of Biological Structure Determination by Electron Microscopy to Grid Computing.
New Gener. Comput., 2004

Biological Structure Determination by EM is Well Suited to Grid Computing.
New Gener. Comput., 2004

Three-dimensional reconstruction of cellular structures by electron microscope tomography and parallel computing.
J. Parallel Distributed Comput., 2004

Phan3D: design of biological phantoms in 3D electron microscopy.
Bioinform., 2004

A Performance Prediction Model for Tomographic Reconstruction in Structural Biology.
Proceedings of the High Performance Computing for Computational Science, 2004

A global optimization approach to image translational alignment in electron microscopy.
Proceedings of the IEEE International Conference on Systems, 2004

Parallelization and Comparison of 3D Iterative Reconstruction Algorithms.
Proceedings of the 12th Euromicro Workshop on Parallel, 2004

Image Registration in Electron Microscopy. A Stochastic Optimization Approach.
Proceedings of the Image Analysis and Recognition: International Conference, 2004

2003
Educational issues on number representation and arithmetic in computers: an undergraduate laboratory.
IEEE Trans. Educ., 2003

Floating point arithmetic teaching for computational science.
Future Gener. Comput. Syst., 2003

Parallel iterative reconstruction methods for structure determination of biological specimens by electron microscopy.
Proceedings of the 2003 International Conference on Image Processing, 2003

Grid Computing in Structure Determination of Biological Specimens by Electron Microscope Tomography.
Proceedings of the Grid Computing, 2003

2002
Progressive Image Transmission in Telemicroscopy: A Quantitative Approach for Electron Microscopy Images of Biological Specimens.
Real Time Imaging, 2002

An Approach to Teaching Computer Arithmetic.
Proceedings of the High Performance Computing for Computational Science, 2002

High Performance Computing in Electron Microscope Tomography of Complex Biological Structures.
Proceedings of the High Performance Computing for Computational Science, 2002

3D reconstruction of 2D crystals from projections in real space.
Proceedings of the 2002 IEEE International Symposium on Biomedical Imaging, 2002

2001
Techniques for Speeding up the SPIHT Progressive Image Compressor.
Proceedings of the IASTED International Conference on Visualization, 2001

Progessive-fidelity Image Transmission for Telebrowsing: An Efficient Implementation.
Proceedings of the IASTED International Conference on Visualization, 2001

1994
Prototype for a new distributed database of volume data obtained by 3D imaging.
Proceedings of the Visualization in Biomedical Computing 1994, 1994


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