Santiago Marco-Sola

According to our database, Santiago Marco-Sola authored at least 27 papers between 2014 and 2026.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2026

Singletrack: an algorithm for improving memory consumption and performance of gap-affine sequence alignment.

Lorién López-Villellas, Cristian Iñiguez, Albert Jiménez-Blanco, Quim Aguado-Puig, Miquel Moretó, Jesús Alastruey-Benedé, Pablo Ibáñez, Santiago Marco-Sola

Bioinform., 2026

2025

ILVES: Accurate and efficient bond length and angle constraints in molecular dynamics.

Lorién López-Villellas, Carl Christian Kjelgaard Mikkelsen, Juan José Galano-Frutos, Santiago Marco-Sola, Jesús Alastruey-Benedé, Pablo Ibáñez, Miquel Moretó, Maria Cristina De Rosa, Pablo García-Risueño

CoRR, March, 2025

QuickEd: high-performance exact sequence alignment based on bound-and-align.

Max Doblas, Oscar Lostes-Cazorla, Quim Aguado-Puig, Cristian Iñiguez, Miquel Moretó, Santiago Marco-Sola

Bioinform., 2025

SMX: Heterogeneous Architecture for Universal Sequence Alignment Acceleration.

Max Doblas, Po Jui Shih, Oscar Lostes-Cazorla, Miquel Moretó, Christopher Batten, Santiago Marco-Sola

Proceedings of the 58th IEEE/ACM International Symposium on Microarchitecture, 2025

Squire: A General-Purpose Accelerator to Exploit Fine-Grain Parallelism on Dependency-Bound Kernels.

Rubén Langarita, Jesús Alastruey-Benedé, Pablo Ibáñez-Marín, Santiago Marco-Sola, Miquel Moretó, Adrià Armejach

Proceedings of the 34th International Conference on Parallel Architectures and Compilation Techniques, 2025

2024

GenArchBench: A genomics benchmark suite for arm HPC processors.

Lorién López-Villellas, Rubén Langarita-Benítez, Asaf Badouh, Víctor Soria Pardos, Quim Aguado-Puig, Guillem López-Paradís, Max Doblas, Javier Setoain, Chulho Kim, Makoto Ono, Adrià Armejach, Santiago Marco-Sola, Jesús Alastruey-Benedé, Pablo Ibáñez, Miquel Moretó

Future Gener. Comput. Syst., 2024

BIMSA: accelerating long sequence alignment using processing-in-memory.

Alejandro Alonso-Marín, Ivan Fernandez, Quim Aguado-Puig, Juan Gómez-Luna, Santiago Marco-Sola, Onur Mutlu, Miquel Moretó

Bioinform., 2024

QUETZAL: Vector Acceleration Framework for Modern Genome Sequence Analysis Algorithms.

Julian Pavon, Iván Vargas Valdivieso, Carlos Rojas, César Hernández, Mehmet Aslan, Roger Figueras, Yichao Yuan, Joël Lindegger, Mohammed Alser, Francesc Moll, Santiago Marco-Sola, Oguz Ergin, Nishil Talati, Onur Mutlu, Osman S. Unsal, Mateo Valero, Adrián Cristal

Proceedings of the 51st ACM/IEEE Annual International Symposium on Computer Architecture, 2024

2023

WFA-FPGA: An efficient accelerator of the wavefront algorithm for short and long read genomics alignment.

Abbas Haghi, Santiago Marco-Sola, Lluc Alvarez, Dionysios Diamantopoulos, Christoph Hagleitner, Miquel Moretó

Future Gener. Comput. Syst., December, 2023

WFA-GPU: gap-affine pairwise read-alignment using GPUs.

Quim Aguado-Puig, Max Doblas, Christos Matzoros, Antonio Espinosa, Juan Carlos Moure, Santiago Marco-Sola, Miquel Moretó

Bioinform., December, 2023

Accurate and efficient constrained molecular dynamics of polymers using Newton's method and special purpose code.

Lorién López-Villellas, Carl Christian Kjelgaard Mikkelsen, Juan José Galano-Frutos, Santiago Marco-Sola, Jesús Alastruey-Benedé, Pablo Ibáñez, Miquel Moretó, Javier Sancho, Pablo García-Risueño

Comput. Phys. Commun., July, 2023

Optimal gap-affine alignment in <i>O</i>(<i>s</i>) space.

Santiago Marco-Sola, Jordan M. Eizenga, Andrea Guarracino, Benedict Paten, Erik Garrison, Miquel Moretó

Bioinform., February, 2023

GMX: Instruction Set Extensions for Fast, Scalable, and Efficient Genome Sequence Alignment.

Max Doblas, Oscar Lostes-Cazorla, Quim Aguado-Puig, Nick Cebry, Pau Fontova-Musté, Christopher Frances Batten, Santiago Marco-Sola, Miquel Moretó

Proceedings of the 56th Annual IEEE/ACM International Symposium on Microarchitecture, 2023

WFAsic: A High-Performance ASIC Accelerator for DNA Sequence Alignment on a RISC-V SoC.

Abbas Haghi, Lluc Alvarez, Jordi Fornt, Juan Miguel De Haro Ruiz, Roger Figueras, Max Doblas, Santiago Marco-Sola, Miquel Moretó

Proceedings of the 52nd International Conference on Parallel Processing, 2023

RISC-V for Genome Data Analysis: Opportunities and Challenges.

Lorién López-Villellas, Esteve Pineda-Sánchez, Asaf Badouh, Santiago Marco-Sola, Pablo Ibáñez, Jesús Alastruey-Benedé, Miquel Moretó

Proceedings of the 38th Conference on Design of Circuits and Integrated Systems, 2023

2022

FPGA Acceleration of Pre-Alignment Filters for Short Read Mapping With HLS.

David Castells-Rufas, Santiago Marco-Sola, Juan Carlos Moure, Quim Aguado-Puig, Antonio Espinosa

IEEE Access, 2022

Accelerating Edit-Distance Sequence Alignment on GPU Using the Wavefront Algorithm.

Quim Aguado-Puig, Santiago Marco-Sola, Juan Carlos Moure, David Castells-Rufas, Lluc Alvarez, Antonio Espinosa, Miquel Moretó

IEEE Access, 2022

Sargantana: A 1 GHz+ In-Order RISC-V Processor with SIMD Vector Extensions in 22nm FD-SOI.

Víctor Soria Pardos, Max Doblas, Guillem López-Paradís, Gerard Candón, Narcís Rodas, Xavier Carril, Pau Fontova-Musté, Neiel Leyva, Santiago Marco-Sola, Miquel Moretó

Proceedings of the 25th Euromicro Conference on Digital System Design, 2022

2021

Fast gap-affine pairwise alignment using the wavefront algorithm.

Santiago Marco-Sola, Juan Carlos Moure, Miquel Moretó, Antonio Espinosa

Bioinform., 2021

An FPGA Accelerator of the Wavefront Algorithm for Genomics Pairwise Alignment.

Abbas Haghi, Santiago Marco-Sola, Lluc Alvarez, Dionysios Diamantopoulos, Christoph Hagleitner, Miquel Moretó

Proceedings of the 31st International Conference on Field-Programmable Logic and Applications, 2021

OpenCL-based FPGA Accelerator for Semi-Global Approximate String Matching Using Diagonal Bit-Vectors.

David Castells-Rufas, Santiago Marco-Sola, Quim Aguado-Puig, Antonio Espinosa-Morales, Juan Carlos Moure, Lluc Alvarez, Miquel Moretó

Proceedings of the 31st International Conference on Field-Programmable Logic and Applications, 2021

2020

The DeepHealth Toolkit: A Unified Framework to Boost Biomedical Applications.

Michele Cancilla, Laura Canalini, Federico Bolelli, Stefano Allegretti, Salvador Carrión, Roberto Paredes, Jon Ander Gómez, Simone Leo, Marco Enrico Piras, Luca Pireddu, Asaf Badouh, Santiago Marco-Sola, Lluc Alvarez, Miquel Moretó, Costantino Grana

Proceedings of the 25th International Conference on Pattern Recognition, 2020

2019

gemBS: high throughput processing for DNA methylation data from bisulfite sequencing.

Angelika Merkel, Marcos Fernández-Callejo, Eloi Casals, Santiago Marco-Sola, Ronald P. Schuyler, Ivo Glynne Gut, Simon C. Heath

Bioinform., 2019

2017

Efficient approximate string matching techniques for sequence alignment.

Santiago Marco-Sola

PhD thesis, 2017

2015

Boosting the FM-Index on the GPU: Effective Techniques to Mitigate Random Memory Access.

Alejandro Chacón, Santiago Marco-Sola, Antonio Espinosa, Paolo Ribeca, Juan Carlos Moure

IEEE ACM Trans. Comput. Biol. Bioinform., 2015

2014

FM-Index on GPU: A Cooperative Scheme to Reduce Memory Footprint.

Alejandro Chacón, Santiago Marco-Sola, Antonio Espinosa, Paolo Ribeca, Juan Carlos Moure

Proceedings of the IEEE International Symposium on Parallel and Distributed Processing with Applications, 2014

Thread-cooperative, bit-parallel computation of levenshtein distance on GPU.

Alejandro Chacón, Santiago Marco-Sola, Antonio Espinosa, Paolo Ribeca, Juan Carlos Moure

Proceedings of the 2014 International Conference on Supercomputing, 2014