José-Jesús Fernández

Inmaculada García, Siham Tabik, Ester M. Garzón, 2006, 14th Euromicro International Conference on Parallel, Distributed, and Network-Based Processing (PDP'06).

Real-Time Electron Tomography Based on GPU Computing

Francisco Vázquez, José A. Martínez, Ester M. Garzón, 2010, Euro-Par Workshops.

Three-Dimensional Nanoparticle Distribution and Local Curvature of Heterogeneous Catalysts Revealed by Electron Tomography

P. Midgley, José-Jesús Fernández, T. Yates, 2007 .

Computational methods for electron tomography.

Jose-Jesus Fernandez, José-Jesús Fernández, 2012, Micron.

Robust membrane detection based on tensor voting for electron tomography.

Shoh Asano, Antonio Martinez-Sanchez, Vladan Lucic, 2014, Journal of structural biology.

Cryo-tomography tilt-series alignment with consideration of the beam-induced sample motion

David A. Agard, Tanmay A.M. Bharat, Jose-Jesus Fernandez, 2018, Journal of structural biology.

Ring closure activates yeast γTuRC for species-specific microtubule nucleation

Kimberly K. Fong, Charles H. Greenberg, A. Sali, 2014, Nature Structural &Molecular Biology.

Image Restoration in Electron Cryotomography - Towards Cellular Ultrastructure at Molecular Level

S. Li, José-Jesús Fernández, R. A. Crowther, 2008, Innovations in Hybrid Intelligent Systems.

A marker-free automatic alignment method based on scale-invariant features.

Renmin Han, Fa Zhang, Xiaohua Wan, 2014, Journal of structural biology.

Consideration of sample motion in cryo-tomography based on alignment residual interpolation.

David A Agard, Jose-Jesus Fernandez, Sam Li, 2019, Journal of structural biology.

On the suitability of Biological structure determination by electron microscopy to Grid Computing

José María Carazo, Roberto Marabini, José-Jesús Fernández, 2005, New Generation Computing.

Tomo3D 2.0--exploitation of advanced vector extensions (AVX) for 3D reconstruction.

Jose-Ignacio Agulleiro, Jose-Jesus Fernandez, José-Jesús Fernández, 2015, Journal of structural biology.

Electron cryo-tomography provides insight into procentriole architecture and assembly mechanism

D. Agard, W. Marshall, José-Jesús Fernández, 2018, bioRxiv.

Running title : Electron Cryo-Tomography of Procentriole 1 2 3 4 5 6 7 Electron Cryo-Tomography Provides Insight into Procentriole 8 Architecture and Assembly Mechanism 9 10

D. Agard, W. Marshall, José-Jesús Fernández, 2022 .

A ridge-based framework for segmentation of 3D electron microscopy datasets.

Inmaculada Garcia, Antonio Martinez-Sanchez, Jose-Jesus Fernandez, 2013, Journal of structural biology.

A generic model for ridges: A new framework to characterise biological planar structures

Inmaculada García, José-Jesús Fernández, Antonio Martínez-Sánchez, 2012, 2012 9th IEEE International Symposium on Biomedical Imaging (ISBI).

Procedure for Detection of Membranes in Three-Dimensional Subcellular Density Maps

Inmaculada García, José-Jesús Fernández, Antonio Martínez-Sánchez, 2012, PACBB.

Segmentation of Planar Structures in Bioimaging

José-Jesús Fernández, Inmaculada García, Antonio Martínez-Sánchez, 2012, VISAPP.

A differential structure approach to membrane segmentation in electron tomography.

Antonio Martinez-Sanchez, Jose-Jesus Fernandez, José-Jesús Fernández, 2011, Journal of structural biology.

Progressive Image Transmission in Telemicroscopy: A Quantitative Approach for Electron Microscopy Images of Biological Specimens

Inmaculada García, José-Jesús Fernández, Manuel F. López, 2002, Real Time Imaging.

Parameter optimization in 3D reconstruction on a large scale grid

Inmaculada García, José María Carazo, José-Jesús Fernández, 2007, Parallel Comput..

Electron tomography of complex biological specimens on the Grid

Inmaculada García, José María Carazo, Roberto Marabini, 2007, Future Gener. Comput. Syst..

A population global optimization algorithm to solve the image alignment problem in electron crystallography

Inmaculada García, Juana López Redondo, José-Jesús Fernández, 2007, J. Glob. Optim..

Assembly of Yeast Spindle Pole Body and its Components Revealed by Electron Cryo-Tomography

José-Jesús Fernández, Sam Li, 2018, bioRxiv.

Educational issues on number representation and arithmetic in computers: an undergraduate laboratory

Inmaculada García, Ester M. Garzón, José-Jesús Fernández, 2003, IEEE Trans. Educ..

TomoEED: fast edge‐enhancing denoising of tomographic volumes

José A. Martínez, J. J. Moreno, Ester M. Garzón, 2018, Bioinform..

Removing Contamination-Induced Reconstruction Artifacts from Cryo-electron Tomograms.

José-Jesús Fernández, Wolfgang Baumeister, Miroslava Schaffer, 2016, Biophysical journal.

XMSF: Structure-preserving noise reduction and pre-segmentation in microscope tomography

Carlos Oscar Sánchez Sorzano, José-Jesús Fernández, Jose-Roman Bilbao-Castro, 2010, Bioinform..

TOMOBFLOW: feature-preserving noise filtering for electron tomography

José-Jesús Fernández, José-Jesús Fernández, 2009, BMC Bioinformatics.

Anisotropic nonlinear filtering of cellular structures in cryoelectron tomography

José-Jesús Fernández, Li Sam, José-Jesús Fernández, 2005, Computing in Science & Engineering.

An improved algorithm for anisotropic nonlinear diffusion for denoising cryo-tomograms.

José Jesús Fernández, Sam Li, José-Jesús Fernández, 2003, Journal of structural biology.

Three-dimensional reconstruction of cellular structures by electron microscope tomography and parallel computing

Inmaculada García, José María Carazo, José-Jesús Fernández, 2004, J. Parallel Distributed Comput..

High-performance electron tomography of complex biological specimens.

Inmaculada García, José-Jesús Fernández, Mark H Ellisman, 2002, Journal of structural biology.

Fast tomographic reconstruction on multicore computers

José-Jesús Fernández, Jose Ignacio Agulleiro Baldo, José-Jesús Fernández, 2011, Bioinform..

A new approach for sparse matrix vector product on NVIDIA GPUs

Francisco Vázquez, Ester M. Garzón, José-Jesús Fernández, 2011, Concurr. Comput. Pract. Exp..

Three-Dimensional Anisotropic Noise Reduction with Automated Parameter Tuning: Application to Electron Cryotomography

S. Li, José-Jesús Fernández, Vladan Lucic, 2007, CAEPIA.

Dynamic Load Scheduling on CPU-GPU for Iterative Tomographic Reconstruction

Ester M. Garzón, José-Jesús Fernández, Jose Ignacio Agulleiro Baldo, 2012, 2012 IEEE 10th International Symposium on Parallel and Distributed Processing with Applications.

A performance prediction for iterative reconstruction techniques on tomography

Emilio Luque, Inmaculada García, Ana Ripoll, 2005, 13th Euromicro Conference on Parallel, Distributed and Network-Based Processing.

A Performance Prediction Model for Tomographic Reconstruction in Structural Biology

Emilio Luque, Inmaculada García, Ana Ripoll, 2004, VECPAR.

The Potential Of Grid Computing In Three-Dimensional Electron Microscopy

Inmaculada García, José María Carazo, Roberto Marabini, 2004, Parallel Process. Lett..

High Performance Computing in Electron Microscope Tomography of Complex Biological Structures

Albert F. Lawrence, Inmaculada García, Mark H. Ellisman, 2002, VECPAR.

Improving the Performance of the Sparse Matrix Vector Product with GPUs

Ester M. Garzón, Gloria Ortega López, Francisco Vázquez, 2010, 2010 10th IEEE International Conference on Computer and Information Technology.

TomoAlign: A Novel Approach to Correcting Sample Motion and 3D CTF in CryoET.

José-Jesús Fernández, Sam Li, 2021, Journal of Structural Biology.

Three-dimensional real-space crystallography of MCM-48 mesoporous silica revealed by scanning transmission electron tomography

José-Jesús Fernández, Paul A. Midgley, Osamu Terasaki, 2006 .

Structure-Preserving Noise Reduction in Biological Imaging

S. Li, José-Jesús Fernández, Vladan Lucic, 2008, Innovations in Hybrid Intelligent Systems.

Evaluation of a Multicore-Optimized Implementation for Tomographic Reconstruction

José-Jesús Fernández, Jose-Ignacio Agulleiro, José Jesús Fernández, 2012, PloS one.

Analytical Performance Prediction for Iterative Reconstruction Techniques in Electron Tomography of Biological Structures

Emilio Luque, Inmaculada García, Dolores Rexachs, 2010, Int. J. High Perform. Comput. Appl..

Multi-core Desktop Processors Make Possible Real-Time Electron Tomography

Inmaculada García, Ester M. Garzón, José-Jesús Fernández, 2011, 2011 19th International Euromicro Conference on Parallel, Distributed and Network-Based Processing.

Three-dimensional feature-preserving noise reduction for real-time electron tomography

José A. Martínez, José-Jesús Fernández, José-Jesús Fernández, 2010, Digit. Signal Process..

Fast Tomographic Reconstruction with Vectorized Backprojection

Inmaculada García, Ester M. Garzón, José-Jesús Fernández, 2008, 16th Euromicro Conference on Parallel, Distributed and Network-Based Processing (PDP 2008).

Floating point arithmetic teaching for computational science

Inmaculada García, Ester M. Garzón, José-Jesús Fernández, 2003, Future Gener. Comput. Syst..

A marker-free automatic alignment method based on scale-invariant features.

Xiaohua Wan, Fa Zhang, Renmin Han, 2014, Journal of structural biology.

3-D reconstruction of 2-D crystals in real space

José María Carazo, Gabor T. Herman, Roberto Marabini, 2004, IEEE Transactions on Image Processing.

Efficient parallel implementation of iterative reconstruction algorithms for electron tomography

José-Jesús Fernández, Dan Gordon, Rachel Gordon, 2008, J. Parallel Distributed Comput..

Real‐Time Tomographic Reconstruction through CPU + GPU Coprocessing

Emmanuel Jeannot, Ester M. Garzón, Julius Žilinskas, 2014, HiPC 2014.

CTF determination and correction in electron cryotomography.

J. J. Fernández, R. Crowther, José-Jesús Fernández, 2006, Ultramicroscopy.

Parallel iterative reconstruction methods for structure determination of biological specimens by electron microscopy

Inmaculada García, José María Carazo, José-Jesús Fernández, 2003, Proceedings 2003 International Conference on Image Processing (Cat. No.03CH37429).

PolishEM: image enhancement in FIB-SEM

J J Fernandez, T E Torres, E Martin-Solana, 2020, Bioinform..

FlowDenoising: Structure-preserving denoising in 3D electron microscopy (3DEM)

José-Jesús Fernández, Vicente González Ruiz, 2023, SoftwareX.

Sharpening high resolution information in single particle electron cryomicroscopy.

J. J. Fernández, J. Carrascosa, José-Jesús Fernández, 2008, Journal of structural biology.