Main Research Interests

Previous Positions

Professional Service

Teaching Publications

  • Bertil Schmidt, Jorge González-Domínguez, Christian Hundt, Moritz Schlarb, "Parallel Programming: Concepts and Practice". Morgan Kaufmann, November 2017. [DL].

Research Publications

  • Iñaki Amatria-Barral, Jorge González-Domínguez, Juan Touriño, Book Chapter: Hybrid MPI/OpenMP Implementation of RIblast for Transcriptome-Scale lncRNA-RNA Interaction Prediction. RNA-RNA and RNA-DNA Interactions (Methods in Molecular Biology series, Springer), 2949, pages 175-189 (November 2025). [DL].
  • Aurelio López-Fernández, Francisco A. Gómez-Vela, Domingo S. Rodríguez-Baena, Fernando M. Delgado-Chaves, Jorge González-Domínguez, Biclustering in bioinformatics using big data and High Performance Computing applications: challenges and perspectives, a review. Journal of Supercomputing, 81, 1123 (July 2025). [DL].
  • Alejandro Fernández-Fraga, Jorge González-Domínguez, María J. Martín, BetaGPU: Harnessing GPU power for parallelized beta distribution functions. SoftwareX, 29, 102009 (February 2025). [DL].
  • Marleen Balvert, Johnathan Cooper-Knock... Jorge González-Domínguez, et. al., "Considerations in the search for epistasis". Genome Biology, 25 (1), 296 (November 2024). [DL].
  • Bieito Beceiro, Jorge González-Domínguez, Laura Morán-Fernández, Verónica Bolón-Canedo, Juan Touriño, "CUDA Acceleration of MI-based Feature Selection Methods". Journal of Parallel and Distributed Computing, 190, 104901 (August 2024). [DL].
  • Aurelio López-Fernández, Francisco A. Gómez-Vela, Jorge González-Domínguez, Parameshachari Bidare-Divakarachari, bioScience: A new python science library for high-performance computing bioinformatics analytics. SoftwareX, 26, 101666 (May 2024). [DL].
  • Roberto R. Expósito, Jorge González-Domínguez, BigDEC: a multi-algorithm Big Data tool based on the k-mer spectrum method for scalable short-read error correction. Future Generation Computer Systems, 154, pages 314-329 (May 2024). [DL].
  • Alejandro Fernández-Fraga, Jorge González-Domínguez, María J. Martín, "PARamrfinder: Detecting allele-specific DNA methylation on Multicore Clusters". Journal of Supercomputing, 80, pages 14573-14599 (March 2024). [DL].
  • Alejandro Fernández-Fraga, Jorge González-Domínguez, María J. Martín, "Applying dynamic balancing to improve the performance of MPI parallel genomics applications". 39th ACM/SIGAPP Symposium On Applied Computing (SAC 2024), Avila, Spain, March 2024. [DL]
  • Alejandro Fernández-Fraga, Jorge González-Domínguez, Juan Touriño, "ParRADMeth: Identification of Differentially Methylated Regions on Multicore Clusters". IEEE/ACM Transactions on Computational Biology and Bioinformatics, 20 (3), pages 2041-2049 (May 2023). [DL].
  • Iñaki Amatria-Barral, Jorge González-Domínguez, Juan Touriño, "Parallel construction of RNA databases for extensive lncRNA-RNA interaction prediction". 38th ACM/SIGAPP Symposium On Applied Computing (SAC 2023), Tallinn, Estonia, March 2023. [DL]
  • Iñaki Amatria-Barral, Jorge González-Domínguez, Juan Touriño, "PATO: Genome-wide prediction of lncRNA--DNA triple helices". Bioinformatics, 39 (3), btad134 (March 2023) . [DL].
  • Iñaki Amatria-Barral, Jorge González-Domínguez, Juan Touriño, "pRIblast: a highly efficient parallel application for comprehensive lncRNA-RNA interaction prediction". Future Generation Computer Systems, 138, pages 270-279 (January 2023). [DL].
  • Bieito Beceiro, Jorge González-Domínguez, Juan Touriño, "Parallel-FST: a Feature Selection Library for Multicore Clusters". Journal of Parallel and Distributed Computing, 169, pages 106-116 (November 2022). [DL].
  • Christian Ponte-Fernández, Jorge González-Domínguez, María J. Martín, "A SIMD Algorithm for the Detection of Epistatic Interactions of any Order". Future Generation Computer Systems, 132, pages 108-123 (July 2022). [DL].
  • Christian Ponte-Fernández, Jorge González-Domínguez, María J. Martín, "Fiuncho: a Program for Any-Order Epistasis Detection in CPU Clusters". Journal of Supercomputing, 78, pages 15338-15357 (April 2022). [DL].
  • Borja González-Seoane, Christian Ponte-Fernández, Jorge González-Domínguez, María J. Martín, "PyToxo: a Python tool for calculating penetrance tables of high-order epistasis models". BMC Bioinformatics, 23, article 117 (April 2022). [DL].
  • Christian Ponte-Fernández, Jorge González-Domínguez, Antonio Carvajal-Rodríguez, María J. Martín, "Evaluation of Existing Methods for High-Order Epistasis Detection". IEEE/ACM Transactions on Computational Biology and Bioinformatics, 19 (2), pages 912-926 (March 2022) . [DL].
  • Jorge González-Domínguez, José M. Martín-Martínez, Roberto R. Expósito , MPI-dot2dot: A parallel tool to find DNA tandem repeats on multicore clusters". Journal of Supercomputing, 78, pages 4217-4235 (February 2022). [DL].
  • Basilio B. Fraguela, Diego Andrade, Jorge González-Domínguez, "ScalaParBiBit: Scaling the Binary Biclustering in Distributed-Memory Systems". Cluster Computing-The Journal of Networks Software Tools and Applications, 24, pages 2249-2268 (March 2021). [DL].
  • Jorge González-Domínguez, Book Chapter: Fast and Accurate Multiple Sequence Alignment with MSAProbs-MPI. Multiple Sequence Alignment (Methods in Molecular Biology series, Springer), 2231, pages 39-47 (December 2020). [DL].
  • Roberto R. Expósito, Jorge González-Domínguez, Juan Touriño, "SMusket: Spark-based DNA error correction on distributed-memory systems". Future Generation Computer Systems, 111, 698-713 (October 2020). [DL].
  • Roberto R. Expósito, Roi Galego-Torreiro, Jorge González-Domínguez, "SeQual: Big Data Tool to Perform Quality Control and Data Preprocessing of Large NGS Datasets". IEEE Access, 8, 146075-146084 (August 2020). [DL].
  • Christian Ponte-Fernández, Jorge González-Domínguez, Antonio Carvajal-Rodríguez, María J. Martín, "Toxo: a Library for Calculating Penetrance Tables of High-Order Epistasis Models". BMC Bioinformatics, 21, article 138 (April 2020). [DL].
  • Christian Ponte-Fernández, Jorge González-Domínguez, María J. Martín, "Fast Search of Third-Order Epistatic Interactions on CPU and GPU Clusters". International Journal of High Performance Computing Applications, 34(1), 20-29 (January 2020). [DL].
  • Jorge González-Domínguez, Roberto R. Expósito, Verónica Bolón-Canedo, "CUDA-JMI: Acceleration of Feature Selection on Heterogeneous Systems". Future Generation Computer Systems, 102, pages 426-436 (January 2020). [DL].
  • Jorge González-Domínguez, Verónica Bolón-Canedo, Borja Freire, Juan Touriño, "Parallel Feature Selection for Distributed-Memory Clusters". Information Sciences, 496, pages 399-409 (September 2019). [DL].
  • Jorge González-Domínguez, Roberto R. Expósito, "Accelerating Binary Biclustering on Platforms with CUDA-enabled GPUs". Information Sciences, 496, pages 317-325 (September 2019). [DL].
  • Uxía Casal, Jorge González-Domínguez, María J. Martín, "Analysis of the Construction of Similarity Matrices on Multi-core and Many-core Platforms Using Different Similarity Metrics". 19th International Conference on Computational Science (ICCS 2019), Faro, Portugal, June 2019. [Slides] [DL].
  • Jorge González-Domínguez, Roberto R. Expósito, Book Chapter: HPC Tools to Deal with Microarray Data. Microarray Bioinformatics (Methods in Molecular Biology series, Springer), 1986, pages 227-243 (May 2019). [DL].
  • Jorge González-Domínguez, María J. Martín, "MPIGeneNet: Parallel Calculation of Gene Co-Expression Networks on Multicore Clusters". IEEE/ACM Transactions on Computational Biology and Bioinformatics, 15(5), pages 1732-1737 (September 2018). [DL].
  • Roberto R. Expósito, Jorge González-Domínguez, Juan Touriño, "HSRA: Hadoop-based spliced read aligner for RNA sequencing data". PLOS One, 13(7) (July 2018). [DL].
  • Jorge González-Domínguez, Roberto R. Expósito, "ParBiBit: Parallel Tool for Binary Biclustering on Modern Distributed-Memory Systems". PLOS One, 13(4) (April 2018). [DL].
  • Jorge González-Domínguez, Christian Hundt, Bertil Schmidt, "parSRA: A Framework for the Parallel Execution of Short Read Aligners on Compute Clusters". The Journal of Computational Science, 25, pages 134-139 (April 2018). [DL].
  • Roberto R. Expósito,Jorge Veiga, Jorge González-Domínguez, Juan Touriño, "MarDRe: Efficient MapReduce-Based Removal of Duplicate DNA Reads in the Cloud". Bioinformatics, 33(17), pages 2762-2764 (September 2017). [DL].
  • Daniel Junger, Christian Hundt, Jorge González-Domínguez, Bertil Schmidt, "Speed and Accuracy Improvement of Higher-Order Epistasis Detection on CUDA-Enabled GPUs". Cluster Computing-The Journal of Networks Software Tools and Applications, 20(3), pages 1899-1908 (August 2017). [DL].
  • Christian Ponte, Jorge González-Domínguez, María J. Martín, "Evaluation of OpenMP SIMD Directives on Xeon Phi Coprocessors". 15th International Conference on High Performance Computing and Simulation (HPCS 2017), Genoa, Italy, July 2017. [DL].
  • Jorge González-Domínguez, María J. Martín, "Fast Parallel Construction of Correlation Similarity Matrices for Gene Co-Expression Networks on Multicore Clusters". 17th International Conference on Computational Science (ICCS 2017), Zurich, Switzerland, June 2017 [Slides] [DL].
  • Jorge González-Domínguez, Beatriz Remeseiro, María J. Martín, Parallel Definition of Tear Film Maps on Distributed-Memory Clusters for the Support of Dry Eye Diagnosis. Computer Methods and Programs in Biomedicine, 139, pages 51-60 (February 2017). [DL].
  • Jorge González-Domínguez, Yonchao Liu, Juan Touriño, Bertil Schmidt, "MSAProbs-MPI: Parallel Multiple Sequence Aligner for Distributed-Memory Systems". Bioinformatics, 32(24), pages 3826-3828 (December 2016). [DL].
  • Carlos Eiras-Franco, Verónica Bolón-Canedo, Sabela Ramos, Jorge González-Domínguez, Amparo Alonso-Betanzos, Juan Touriño, "Multithreaded and Spark Parallelization of Feature Selection Filters". The Journal of Computational Science, 17(3), pages 609-619 (November 2016). [DL]
  • Jorge González-Domínguez, Sabela Ramos, Juan Touriño, Bertil Schmidt, "Parallel Pairwise Epistasis Detection on Heterogeneous Computing Architectures". IEEE Transactions on Parallel and Distributed Systems, 27(8), pages 2329-2340 (August 2016). [DL].
  • Daniel Junger, Christian Hundt, Jorge González-Domínguez, Bertil Schmidt, "Ultra-Fast Detection of Higher-Order Epistatic Interactions on GPUs". 4th International Workshop on Parallelism in Bioinformatics (PBio 2016), Grenoble, France, August 2016. [DL]
  • Jan C. Kässens, Lars Wienbrandt, Manfred Schimmler, Jorge González-Domínguez, Bertil Schmidt, "Combining GPU and FPGA Technology for Efficient Exhaustive Interaction Analysis in GWAS". 27th IEEE International Conference on Application-specific Systems, Architectures and Processors (ASAP 2016), London, United Kingdom, July 2016. [DL]
  • Jorge González-Domínguez, Beatriz Remeseiro, María J. Martín, "Acceleration of Tear Film Map Definition on Multicore Systems". 16th International Conference on Computational Science (ICCS 2016), San Diego, USA, June 2016. [Slides] [DL]
  • Jorge González-Domínguez, Bertil Schmidt, "ParDRe: Faster Parallel Duplicated Reads Removal Tool for Sequencing Studies". Bioinformatics, 32(10), pages 1562-1564 (May 2016). [DL].
  • Jorge González-Domínguez, Yongchao Liu, Bertil Schmidt, "Parallel and scalable short-read alignment on multi-core clusters using UPC++". PLOS One, 11(1) (January 2016). [DL].
  • Jorge González-Domínguez, Jan C. Kässens, Lars Wienbrandt, Bertil Schmidt, "Large-Scale Genome-Wide Association Studies on a GPU Cluster Using a CUDA-Accelerated PGAS Programming Model". International Journal of High Performance Computing Applications, 29(4), pages 506-510 (November 2015). [DL].
  • Jorge González-Domínguez, Lars Wienbrandt, Jan C. Kässens, David Ellinghaus, Manfred Schimmler, Bertil Schmidt, "Parallelizing Epistasis Detection in GWAS on FPGA and GPU-accelerated Computing Systems". IEEE/ACM Transactions on Computational Biology and Bioinformatics, 12(5), pages 982-994 (October 2015). [DL]
  • Jan C. Kässens, Lars Wienbrandt, Jorge González-Domínguez, Bertil Schmidt, Manfred Schimmler, "High-Speed Exhaustive 3-locus Interaction Epistasis Analysis on FPGAs". The Journal of Computational Science, 9, pages 131-136 (May 2015). [DL]
  • Jorge González-Domínguez, Bertil Schmidt, "GPU-Accelerated Exhaustive Search for Third-Order Epistatic Interactions in Case-Control Studies". The Journal of Computational Science, 8, pages 93-100 (May 2015). [DL]
  • Jorge González-Domínguez, Bertil Schmidt, "Using a CUDA-Accelerated PGAS Model on a GPU Cluster for Bioinformatics". GPU Technology Conference (GTC 2015), San Jose, CA, USA, March 2015. [Slides]
  • Yongchao Liu, Jorge González-Domínguez, Bertil Schmidt, "Faster Compressed Sparse Row (CSR)-based Sparse Matrix-Vector Multiplication using CUDA" (Poster). GPU Technology Conference (GTC 2015), San Jose, CA, USA, March 2015.
  • Damián A. Mallón, Guillermo L. Taboada, Carlos Teijeiro, Jorge González-Domínguez, Andrés Gómez, Brian Wibecan, "Scalable PGAS Collective Operations in NUMA Clusters". Cluster Computing-The Journal of Networks Software Tools and Applications, 17(4), pages 1473-1495 (November 2014). [DL]
  • Jorge González-Domínguez, Osni A. Marques, María J. Martín, Juan Touriño, "A 2D Algorithm with Asymmetric Workload for the UPC Conjugate Gradient Method". The Journal of Supercomputing . 70(2), pages 816-829 (September 2014). [DL]
  • Jan C. Kässens, Jorge González-Domínguez, Lars Wienbrandt, Bertil Schmidt, "UPC++ for Bioinformatics: A Case Study Using Genome-Wide Association Studies". 15th IEEE International Conference on Cluster Computing (Cluster 2014), Madrid, Spain, September 2014. [Slides] [DL]
  • Jorge González-Domínguez, Bertil Schmidt, Jan C. Kässens, Lars Wienbrandt, Hybrid CPU/GPU Acceleration of Detection of 2-SNP Epistatic Interactions in GWAS. 20th International European Conference on Parallel and Distributed Computing (Euro-Par 2014), Lecture Notes on Computer Science, vol 8632, pp 680-691. Porto, Portugal, August 2014. [Slides] [DL]
  • Sandra Catalán, Jorge González-Domínguez, Rafael Mayo, Enrique S. Quintana-Ortí, "Analyzing the Energy Efficiency of the Memory Subsystem in Multicore Processors". 12th IEEE International Symposium on Parallel and Distributed Processing with Applications (ISPA 2014), Milano, Italy, August 2014. [DL]
  • Jorge González-Domínguez, Osni A. Marques, María J. Martín, Juan Touriño, "The Parallel Conjugate Gradient Method using Unified Parallel C". 14th International Conference on Computational and Mathematical Methods in Science and Engineering (CMMSE 2014), Rota, Spain, July 2011.
  • Lars Wienbrandt, Jan C. Kässens, Jorge González-Domínguez, Bertil Schmidt, David Ellinghaus, Manfred Schimmler, "FPGA-Based Acceleration of Detecting Statistical Epistasis in GWAS". 14th International Conference on Computational Science (ICCS 2014), Cairns, Australia, June 2014. [DL]
  • Roberto R. Expósito, Guillermo L. Taboada, Sabela Ramos, Jorge González-Domínguez, Juan Touriño, Ramón Doallo, "Analysis of I/O Performance on an Amazon EC2 Cluster Compute and High I/O Platform". The Journal of Grid Computing, 11(4), pages 613-631 (December 2013). [DL]
  • Jorge González-Domínguez, María J. Martín, Guillermo L. Taboada, Roberto R. Expósito, Juan Touriño, "The Servet 3.0 Benchmark Suite: Characterization of Network Performance Degradation". Computers and Electrical Engineering. 39(8), pages 2483-2493 (November 2013). [DL]
  • PhD Thesis, "UPCBLAS: A Numerical Library for Unified Parallel C with Architecture-Aware Optimizations". [Slides]
  • Jorge González-Domínguez, Oscar García-López, Guillermo L. Taboada, María J. Martín, Juan Touriño, "Performance Evaluation of Sparse Matrix Products in UPC". The Journal of Supercomputing , 64(1), pages 100-109 (April 2013). [DL]
  • Evangelos Georganas, Jorge González-Domínguez, Edgar Solomonik, Yili Zheng, Juan Touriño, Katherine Yelick, "Communication Avoiding and Overlapping for Numerical Linear Algebra". 24th ACM/IEEE International Conference for High Performance Computing, Networking, Storage and Analysis (SC 2012), Salt Lake City, UT, USA, November 2012. [Slides] [DL]
  • Jorge González-Domínguez, María J. Martín, Guillermo L. Taboada, Juan Touriño, Ramón Doallo, Damián A. Mallón, Brian Wibecan, "UPCBLAS: A Library for Parallel Matrix Computations in Unified Parallel C". Concurrency and Computation: Practice and Experience , 24(14), pages 1645-1667 (September 2012). [DL]
  • Jorge González-Domínguez, Osni A. Marques, María J. Martín, Guillermo L. Taboada, Juan Touriño, "Design and Performance Issues of Cholesky and LU Solvers using UPCBLAS". 10th IEEE International Symposium on Parallel and Distributed Processing with Applications (ISPA 2012), Leganés, Spain, July 2012. [Slides] [DL]
  • Jorge González-Domínguez, Guillermo L. Taboada, Basilio B. Fraguela, María J. Martín, Juan Touriño, "Automatic Mapping of Parallel Applications on Multicore Architectures using the Servet Benchmark Suite". Computers and Electrical Engineering , 38(2), pages 258-269 (March 2012). [DL]
  • Jorge González-Domínguez, Oscar García-López, Guillermo L. Taboada, María J. Martín, Juan Touriño, "SparseBLAS Products in UPC: an Evaluation of Storage Formats". 11th International Conference on Computational and Mathematical Methods in Science and Engineering (CMMSE 2011), Benidorm, Spain, June 2011. [Slides]
  • Jorge González-Domínguez, María J. Martín, Guillermo L. Taboada, Juan Touriño, "Dense Triangular Solvers on Multicore Clusters using UPC". 11th International Conference on Computational Science (ICCS 2011), Singapore, June 2011. [Slides] [DL]
  • Jorge González-Domínguez, Guillermo L. Taboada, Basilio B. Fraguela, María J. Martín, Juan Touriño, "Servet: una suite de benchmarks para el soporte del autotuning en clusters de sistemas multinúcleo". XXI Jornadas de Paralelismo. Valencia, Spain, September 2010. [Slides]
  • Jorge González-Domínguez, Guillermo L. Taboada, Basilio B. Fraguela, María J. Martín, Juan Touriño, "Servet: A Benchmark Suite for Autotuning on Multicore Clusters". 24th IEEE International Parallel and Distributed Processing Symposium (IPDPS 2010). Atlanta, GA, USA, April 2010. [Slides] [DL]
  • Jorge González-Domínguez, María J. Martín, Guillermo L. Taboada, Juan Touriño, Ramón Doallo, Andrés Gómez, "Una Biblioteca Numérica Paralela para UPC". XX Jornadas de Paralelismo, A Coruña, Spain, September 2009. [Slides]
  • Jorge González-Domínguez, María J. Martín, Guillermo L. Taboada, Juan Touriño, Ramón Doallo, Andrés Gómez, "A Parallel Numerical Library for UPC". 15th International European Conference on Parallel and Distributed Computing (Euro-Par 2009), Lecture Notes on Computer Science, vol 5704, pp 630-641. Delft, The Netherlands, August 2009. [Slides] [DL]