Haydi: Rapid Prototyping and Combinatorial Objects. - Stanislav Böhm; Jakub Beránek; Martin Surkovský (FoIKS, 2018)

A Distributed Environment for Traffic Navigation Systems. - Jan Martinovic; Martin Golasowski; Katerina Slaninová; Jakub Beránek; Martin Surkovský; Lukás Rapant; Daniela Szturcová; Radim Cmar (CISIS, 2019)

Alternative Paths Reordering Using Probabilistic Time-Dependent Routing. - Martin Golasowski; Jakub Beránek; Martin Surkovský; Lukás Rapant; Daniela Szturcová; Jan Martinovic; Katerina Slaninová (NBiS, 2019)

Network-accelerated non-contiguous memory transfers. - Salvatore Di Girolamo; Konstantin Taranov; Andreas Kurth; Michael Schaffner; Timo Schneider; Jakub Beránek; Maciej Besta; Luca Benini; Duncan Roweth; Torsten Hoefler (SC, 2019)

Streaming message interface: high-performance distributed memory programming on reconfigurable hardware. - Tiziano De Matteis; Johannes de Fine Licht; Jakub Beránek; Torsten Hoefler (SC, 2019)

Runtime vs Scheduler: Analyzing Dask's Overheads. - Stanislav Böhm; Jakub Beránek (WORKS@SC, 2020)

PsPIN: A high-performance low-power architecture for flexible in-network compute. - Salvatore Di Girolamo; Andreas Kurth; Alexandru Calotoiu; Thomas Benz; Timo Schneider; Jakub Beránek; Luca Benini; Torsten Hoefler (CoRR, 2020)

A RISC-V in-network accelerator for flexible high-performance low-power packet processing. - Salvatore Di Girolamo; Andreas Kurth; Alexandru Calotoiu; Thomas Benz; Timo Schneider; Jakub Beránek; Luca Benini; Torsten Hoefler (ISCA, 2021)

SISA: Set-Centric Instruction Set Architecture for Graph Mining on Processing-in-Memory Systems. - Maciej Besta; Raghavendra Kanakagiri; Grzegorz Kwasniewski; Rachata Ausavarungnirun; Jakub Beránek; Konstantinos Kanellopoulos; Kacper Janda; Zur Vonarburg-Shmaria; Lukas Gianinazzi; Ioana Stefan; Juan Gómez-Luna; Jakub Golinowski; et al. (MICRO, 2021)

GraphMineSuite: Enabling High-Performance and Programmable Graph Mining Algorithms with Set Algebra. - Maciej Besta; Zur Vonarburg-Shmaria; Yannick Schaffner; Leonardo Schwarz; Grzegorz Kwasniewski; Lukas Gianinazzi; Jakub Beránek; Kacper Janda; Tobias Holenstein; Sebastian Leisinger; Peter Tatkowski; Esref Özdemir; et al. (CoRR, 2021)

SISA: Set-Centric Instruction Set Architecture for Graph Mining on Processing-in-Memory Systems. - Maciej Besta; Raghavendra Kanakagiri; Grzegorz Kwasniewski; Rachata Ausavarungnirun; Jakub Beránek; Konstantinos Kanellopoulos; Kacper Janda; Zur Vonarburg-Shmaria; Lukas Gianinazzi; Ioana Stefan; Juan Gómez-Luna; Marcin Copik; et al. (CoRR, 2021)

GraphMineSuite: Enabling High-Performance and Programmable Graph Mining Algorithms with Set Algebra. - Maciej Besta; Zur Vonarburg-Shmaria; Yannick Schaffner; Leonardo Schwarz; Grzegorz Kwasniewski; Lukas Gianinazzi; Jakub Beránek; Kacper Janda; Tobias Holenstein; Sebastian Leisinger; Peter Tatkowski; Esref Özdemir; et al. (Proc. VLDB Endow., 2021)

Analysis of workflow schedulers in simulated distributed environments. - Jakub Beránek; Stanislav Böhm; Vojtech Cima (J. Supercomput., 2022)

Tunable and Portable Extreme-Scale Drug Discovery Platform at Exascale: the LIGATE Approach. - Gianluca Palermo; Gianmarco Accordi; Davide Gadioli; Emanuele Vitali; Cristina Silvano; Bruno Guindani; Danilo Ardagna; Andrea Rosario Beccari; Domenico Bonanni; Carmine Talarico; Filippo Lunghini; Jan Martinovic; et al. (CF, 2023)

pyCaverDock: Python implementation of the popular tool for analysis of ligand transport with advanced caching and batch calculation support. - Ondrej Vavra; Jakub Beránek; Jan Stourac; Martin Surkovský; Jiri Filipovic; Jirí Damborský; Jan Martinovic; David Bednar (Bioinform., 2023)

LIGATE - LIgand Generator and portable drug discovery platform AT Exascale. - Gianluca Palermo; Gianmarco Accordi; Davide Gadioli; Yuedong Zhang; Emanuele Vitali; Bruno Guindani; Danilo Ardagna; Cristina Silvano; Andrea Rosario Beccari; Domenico Bonanni; Carmine Talarico; Filippo Lunghini; et al. (CF (Companion), 2024)

A System Development Kit for Big Data Applications on FPGA-based Clusters: The EVEREST Approach. - Christian Pilato; Subhadeep Banik; Jakub Beránek; Fabien Brocheton; Jerónimo Castrillón; Riccardo Cevasco; Radim Cmar; Serena Curzel; Fabrizio Ferrandi; Karl F. A. Friebel; Antonella Galizia; Matteo Grasso; et al. (DATE, 2024)

HyperQueue: Efficient and ergonomic task graphs on HPC clusters. - Jakub Beránek; Ada Böhm; Gianluca Palermo; Jan Martinovic; Branislav Jansik (SoftwareX, 2024)