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2020 – today
- 2024
[j12]Luigi Crisci
, Lorenzo Carpentieri, Biagio Cosenza, Gianmarco Accordi, Davide Gadioli, Emanuele Vitali, Gianluca Palermo, Andrea Rosario Beccari:
Enabling performance portability on the LiGen drug discovery pipeline. Future Gener. Comput. Syst. 158: 44-59 (2024)- [j11]Emanuele Vitali, Federico Ficarelli, Mauro Bisson, Davide Gadioli, Gianmarco Accordi, Massimiliano Fatica, Andrea Rosario Beccari, Gianluca Palermo:
GPU-optimized approaches to molecular docking-based virtual screening in drug discovery: A comparative analysis. J. Parallel Distributed Comput. 186: 104819 (2024) - [j10]Gianmarco Accordi, Davide Gadioli, Emanuele Vitali, Luigi Crisci, Biagio Cosenza, Andrea Beccari, Gianluca Palermo:
Out of kernel tuning and optimizations for portable large-scale docking experiments on GPUs. J. Supercomput. 80(8): 11798-11815 (2024) - [c24]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, Akash Deep Biswas, Jan Martinovic, Martin Golasowski, Paulo Silva, Ada Böhm, Jakub Beránek, Jan Krenek, Branislav Jansik, Peter Thoman, Philip Salzmann, Thomas Fahringer, Torsten Schwede, Leila Tamara Alexander, Gerardo Tauriello, Janani Durairaj, Biagio Cosenza, Luigi Crisci, Andrew Emerson, Federico Ficarelli, Erik Lindahl, Sebastian Wingbermühle, Daniele Gregori, Silvano Coletti, Emanuele Sana, Philipp Gschwandtner:
LIGATE - LIgand Generator and portable drug discovery platform AT Exascale. CF (Companion) 2024 - [c23]Gianmarco Accordi, Davide Gadioli, Giorgio Seguini, Andrea Rosario Beccari, Gianluca Palermo:
ZSMILES: An Approach for Efficient SMILES Storage for Random Access in Virtual Screening. IPDPS (Workshops) 2024: 554-560 - [c22]Gianmarco Accordi, Davide Gadioli, Gianluca Palermo, Luigi Crisci, Lorenzo Carpentieri, Biagio Cosenza, Andrea Rosario Beccari:
Unlocking performance portability on LUMI-G supercomputer: A virtual screening case study. IWOCL 2024: 9:1-9:4 - [c21]Giovanni Bocchi, Patrizio Frosini, Alessandra Micheletti, Alessandro Pedretti, Gianluca Palermo, Davide Gadioli, Carmen Gratteri, Filippo Lunghini, Andrea Rosario Beccari, Anna Fava, Carmine Talarico:
A geometric XAI approach to protein pocket detection. xAI (Late-breaking Work, Demos, Doctoral Consortium) 2024: 217-224 - [i13]Gianmarco Accordi, Davide Gadioli, Giorgio Seguini, Andrea Rosario Beccari, Gianluca Palermo:
ZSMILES: an approach for efficient SMILES storage for random access in Virtual Screening. CoRR abs/2404.19391 (2024) - [i12]Bruno Guindani, Davide Gadioli, Roberto Rocco, Danilo Ardagna, Gianluca Palermo:
Efficient Parameter Tuning for a Structure-Based Virtual Screening HPC Application. CoRR abs/2410.14842 (2024) - 2023
- [j9]Davide Gadioli, Emanuele Vitali, Federico Ficarelli, Chiara Latini, Candida Manelfi, Carmine Talarico, Cristina Silvano, Carlo Cavazzoni, Gianluca Palermo, Andrea Rosario Beccari:
EXSCALATE: An Extreme-Scale Virtual Screening Platform for Drug Discovery Targeting Polypharmacology to Fight SARS-CoV-2. IEEE Trans. Emerg. Top. Comput. 11(1): 170-181 (2023) - [c20]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, Paulo Silva, Ada Bohm, Jakub Beránek, Jan Krenek, Branislav Jansik, Biagio Cosenza, Luigi Crisci, Peter Thoman, Philip Salzmann, Thomas Fahringer, Leila T. Alexander, Gerardo Tauriello, Torsten Schwede, Janani Durairaj, Andrew Emerson, Federico Ficarelli, Sebastian Wingbermühle, Erik Lindahl, Daniele Gregori, Emanuele Sana, Silvano Coletti, Philipp Gschwandtner:
Tunable and Portable Extreme-Scale Drug Discovery Platform at Exascale: the LIGATE Approach. CF 2023: 272-278 - [c19]Lorenzo Carpentieri, Marco D'Antonio, Kaijie Fan, Luigi Crisci, Biagio Cosenza, Federico Ficarelli, Daniele Cesarini, Gianmarco Accordi, Davide Gadioli, Gianluca Palermo, Peter Thoman, Philip Salzmann, Philipp Gschwandtner, Markus Wippler, Filippo Marchetti, Daniele Gregori, Andrea Rosario Beccari:
Domain-Specific Energy Modeling for Drug Discovery and Magnetohydrodynamics Applications. SC Workshops 2023: 1789-1800 - [d1]Gianluca Palermo, Giovanni Bocchi, Carmine Talarico, Davide Gadioli, Alessandro Pedretti:
SiteMap pockets for the PDBbind dataset. Zenodo, 2023
- [i11]Gianmarco Accordi, Emanuele Vitali, Davide Gadioli, Luigi Crisci, Biagio Cosenza, Mauro Bisson, Massimiliano Fatica, Andrea Beccari, Gianluca Palermo:
Improving computation efficiency using input and architecture features for a virtual screening application. CoRR abs/2303.06150 (2023) - [i10]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, Paulo Silva, Ada Bohm, Jakub Beránek, Jan Krenek, Branislav Jansik, Luigi Crisci, Biagio Cosenza, Peter Thoman, Philip Salzmann, Thomas Fahringer, Leila T. Alexander, Gerardo Tauriello, Torsten Schwede, Janani Durairaj, Andrew Emerson, Federico Ficarelli, Sebastian Wingbermühle, Erik Lindahl, Daniele Gregori, Emanuele Sana, Silvano Coletti, Philipp Gschwandtner:
Tunable and Portable Extreme-Scale Drug Discovery Platform at Exascale: the LIGATE Approach. CoRR abs/2304.09953 (2023) - 2022
- [j8]Roberto Rocco, Davide Gadioli, Gianluca Palermo:
Legio: fault resiliency for embarrassingly parallel MPI applications. J. Supercomput. 78(2): 2175-2195 (2022) - [j7]Pedro Pinto, João Bispo, João M. P. Cardoso, Jorge G. Barbosa, Davide Gadioli, Gianluca Palermo, Jan Martinovic, Martin Golasowski, Katerina Slaninová, Radim Cmar, Cristina Silvano:
Pegasus: Performance Engineering for Software Applications Targeting HPC Systems. IEEE Trans. Software Eng. 48(3): 732-754 (2022) - [c18]Davide Gadioli, Emanuele Vitali, Federico Ficarelli, Chiara Latini, Candida Manelfi, Carmine Talarico, Cristina Silvano, Andrea Rosario Beccari, Gianluca Palermo:
An extreme-scale virtual screening platform for drug discovery. CF 2022: 211-212 - [c17]Luigi Crisci, Majid Salimi Beni, Biagio Cosenza, Nicolò Scipione, Davide Gadioli, Emanuele Vitali, Gianluca Palermo, Andrea Beccari:
Towards a Portable Drug Discovery Pipeline with SYCL 2020. IWOCL 2022: 5:1-5:2 - [i9]Emanuele Vitali, Federico Ficarelli, Mauro Bisson, Davide Gadioli, Massimiliano Fatica, Andrea Rosario Beccari, Gianluca Palermo:
GPU-optimized Approaches to Molecular Docking-based Virtual Screening in Drug Discovery: A Comparative Analysis. CoRR abs/2209.05069 (2022) - 2021
- [j6]Emanuele Vitali, Davide Gadioli, Gianluca Palermo, Martin Golasowski, João Bispo, Pedro Pinto, Jan Martinovic, Katerina Slaninová, João M. P. Cardoso, Cristina Silvano:
An Efficient Monte Carlo-Based Probabilistic Time-Dependent Routing Calculation Targeting a Server-Side Car Navigation System. IEEE Trans. Emerg. Top. Comput. 9(2): 1006-1019 (2021) - [j5]Davide Gadioli, Gianluca Palermo, Stefano Cherubin, Emanuele Vitali, Giovanni Agosta, Candida Manelfi, Andrea Rosario Beccari, Carlo Cavazzoni, Nico Sanna, Cristina Silvano:
Tunable approximations to control time-to-solution in an HPC molecular docking Mini-App. J. Supercomput. 77(1): 841-869 (2021) - [c16]Emanuele Vitali, Davide Gadioli, Fabrizio Ferrandi, Gianluca Palermo:
Parametric Throughput Oriented Large Integer Multipliers for High Level Synthesis. DATE 2021: 38-41 - [c15]Stefano Markidis, Davide Gadioli, Emanuele Vitali, Gianluca Palermo:
Understanding the I/O Impact on the Performance of High-Throughput Molecular Docking. PDSW@SC 2021: 9-14 - [i8]Roberto Rocco, Davide Gadioli, Gianluca Palermo:
Legio: Fault Resiliency for Embarrassingly Parallel MPI Applications. CoRR abs/2104.14246 (2021) - [i7]Davide Gadioli, Emanuele Vitali, Federico Ficarelli, Chiara Latini, Candida Manelfi, Carmine Talarico, Cristina Silvano, Carlo Cavazzoni, Gianluca Palermo, Andrea Rosario Beccari:
EXSCALATE: An extreme-scale in-silico virtual screening platform to evaluate 1 trillion compounds in 60 hours on 81 PFLOPS supercomputers. CoRR abs/2110.11644 (2021) - [i6]Natarajan Arul Murugan, Artur Podobas, Davide Gadioli, Emanuele Vitali, Gianluca Palermo, Stefano Markidis:
A Review on Parallel Virtual Screening Softwares for High Performance Computers. CoRR abs/2112.00116 (2021)
2010 – 2019
- 2019
- [b1]Davide Gadioli:
Dynamic application autotuning for self-aware approximate computing. Polytechnic University of Milan, Italy, 2019 - [j4]Cristina Silvano, Giovanni Agosta, Andrea Bartolini, Andrea Rosario Beccari, Luca Benini, Loïc Besnard, João Bispo, Radim Cmar, João M. P. Cardoso, Carlo Cavazzoni, Daniele Cesarini, Stefano Cherubin, Federico Ficarelli, Davide Gadioli, Martin Golasowski, Antonio Libri, Jan Martinovic, Gianluca Palermo, Emanuele Vitali:
The ANTAREX domain specific language for high performance computing. Microprocess. Microsystems 68: 58-73 (2019) - [j3]Davide Gadioli, Emanuele Vitali, Gianluca Palermo, Cristina Silvano:
mARGOt: A Dynamic Autotuning Framework for Self-Aware Approximate Computing. IEEE Trans. Computers 68(5): 713-728 (2019) - [j2]Emanuele Vitali, Davide Gadioli, Gianluca Palermo, Andrea Beccari, Carlo Cavazzoni, Cristina Silvano:
Exploiting OpenMP and OpenACC to accelerate a geometric approach to molecular docking in heterogeneous HPC nodes. J. Supercomput. 75(7): 3374-3396 (2019) - [c14]Emanuele Vitali, Davide Gadioli, Andrea Beccari, Carlo Cavazzoni, Cristina Silvano, Gianluca Palermo:
An hybrid approach to accelerate a molecular docking application for virtual screening in heterogeneous nodes: POSTER. CF 2019: 298-299 - [c13]Cristina Silvano, Giovanni Agosta, Andrea Bartolini, Andrea Rosario Beccari, Luca Benini, Loïc Besnard, João Bispo, Radim Cmar, João M. P. Cardoso, Carlo Cavazzoni, Daniele Cesarini, Stefano Cherubin, Federico Ficarelli, Davide Gadioli, Martin Golasowski, Imane Lasri, Antonio Libri, Candida Manelfi, Jan Martinovic, Gianluca Palermo, Pedro Pinto, Erven Rohou, Nico Sanna, Katerina Slaninová, Emanuele Vitali:
Supporting the Scale-Up of High Performance Application to Pre-Exascale Systems: The ANTAREX Approach. PDP 2019: 116-123 - [i5]Cristina Silvano, Giovanni Agosta, Andrea Bartolini, Andrea Rosario Beccari, Luca Benini, Loïc Besnard, João Bispo, Radim Cmar, João M. P. Cardoso, Carlo Cavazzoni, Daniele Cesarini, Stefano Cherubin, Federico Ficarelli, Davide Gadioli, Martin Golasowski, Antonio Libri, Jan Martinovic, Gianluca Palermo, Pedro Pinto, Erven Rohou, Katerina Slaninová, Emanuele Vitali:
The ANTAREX Domain Specific Language for High Performance Computing. CoRR abs/1901.06175 (2019) - [i4]Emanuele Vitali, Davide Gadioli, Gianluca Palermo, Martin Golasowski, João Bispo, Pedro Pinto, Jan Martinovic, Katerina Slaninová, João M. P. Cardoso, Cristina Silvano:
An Efficient Monte Carlo-based Probabilistic Time-Dependent Routing Calculation Targeting a Server-Side Car Navigation System. CoRR abs/1901.06210 (2019) - [i3]Tomás Martinovic, Davide Gadioli, Gianluca Palermo, Cristina Silvano:
On-line Application Autotuning Exploiting Ensemble Models. CoRR abs/1901.06228 (2019) - [i2]Emanuele Vitali, Davide Gadioli, Gianluca Palermo, Andrea Beccari, Carlo Cavazzoni, Cristina Silvano:
Exploiting OpenMP & OpenACC to Accelerate a Molecular Docking Mini-App in Heterogeneous HPC Nodes. CoRR abs/1901.06229 (2019) - [i1]Davide Gadioli, Gianluca Palermo, Stefano Cherubin, Emanuele Vitali, Giovanni Agosta, Candida Manelfi, Andrea Rosario Beccari, Carlo Cavazzoni, Nico Sanna, Cristina Silvano:
Tunable Approximations to Control Time-to-Solution in an HPC Molecular Docking Mini-App. CoRR abs/1901.06363 (2019) - 2018
- [c12]Cristina Silvano, Gianluca Palermo, Giovanni Agosta, Amir H. Ashouri, Davide Gadioli, Stefano Cherubin, Emanuele Vitali, Luca Benini, Andrea Bartolini, Daniele Cesarini, João M. P. Cardoso, João Bispo, Pedro Pinto, Ricardo Nobre, Erven Rohou, Loïc Besnard, Imane Lasri, Nico Sanna, Carlo Cavazzoni, Radim Cmar, Jan Martinovic, Katerina Slaninová, Martin Golasowski, Andrea Rosario Beccari, Candida Manelfi:
Autotuning and adaptivity in energy efficient HPC systems: the ANTAREX toolbox. CF 2018: 270-275 - [c11]Davide Gadioli, Ricardo Nobre, Pedro Pinto, Emanuele Vitali, Amir H. Ashouri, Gianluca Palermo, João M. P. Cardoso, Cristina Silvano:
SOCRATES - A seamless online compiler and system runtime autotuning framework for energy-aware applications. DATE 2018: 1143-1146 - [c10]Cristina Silvano, Giovanni Agosta, Andrea Bartolini, Andrea Rosario Beccari, Luca Benini, Loïc Besnard, João Bispo, Radim Cmar, João M. P. Cardoso, Carlo Cavazzoni, Stefano Cherubin, Davide Gadioli, Martin Golasowski, Imane Lasri, Jan Martinovic, Gianluca Palermo, Pedro Pinto, Erven Rohou, Nico Sanna, Katerina Slaninová, Emanuele Vitali:
ANTAREX: A DSL-Based Approach to Adaptively Optimizing and Enforcing Extra-Functional Properties in High Performance Computing. DSD 2018: 600-607 - [c9]Emanuele Vitali, Davide Gadioli, Gianluca Palermo, Andrea Beccari, Cristina Silvano:
Accelerating a Geometric Approach to Molecular Docking with OpenACC. PBio@EuroMPI 2018: 45-51 - [c8]Ahmet Erdem, Davide Gadioli, Gianluca Palermo, Cristina Silvano:
Design Space Pruning and Computational Workload Splitting for Autotuning OpenCL Applications. RAPIDO 2018: 4:1-4:6 - 2017
- [j1]Kim Grüttner, Ralph Görgen, Sören Schreiner, Fernando Herrera, Pablo Peñil, Julio L. Medina, Eugenio Villar, Gianluca Palermo, William Fornaciari, Carlo Brandolese, Davide Gadioli, Emanuele Vitali, Davide Zoni, Sara Bocchio, Luca Ceva, Paolo Azzoni, Massimo Poncino, Sara Vinco, Enrico Macii, Salvatore Cusenza, John M. Favaro, Raúl Valencia, Ingo Sander, Kathrin Rosvall, Nima Khalilzad, Davide Quaglia:
CONTREX: Design of embedded mixed-criticality CONTRol systems under consideration of EXtra-functional properties. Microprocess. Microsystems 51: 39-55 (2017) - [c7]Cristina Silvano, Giovanni Agosta, Jorge G. Barbosa, Andrea Bartolini, Andrea Rosario Beccari, Luca Benini, João Bispo, João M. P. Cardoso, Carlo Cavazzoni, Stefano Cherubin, Radim Cmar, Davide Gadioli, Candida Manelfi, Jan Martinovic, Ricardo Nobre, Gianluca Palermo, Martin Palkovic, Pedro Pinto, Erven Rohou, Nico Sanna, Katerina Slaninová:
The ANTAREX tool flow for monitoring and autotuning energy efficient HPC systems. SAMOS 2017: 308-316 - 2016
- [c6]Cristina Silvano, Giovanni Agosta, Stefano Cherubin, Davide Gadioli, Gianluca Palermo, Andrea Bartolini, Luca Benini, Jan Martinovic, Martin Palkovic, Katerina Slaninová, João Bispo, João M. P. Cardoso, Rui Abreu, Pedro Pinto, Carlo Cavazzoni, Nico Sanna, Andrea Rosario Beccari, Radim Cmar, Erven Rohou:
The ANTAREX approach to autotuning and adaptivity for energy efficient HPC systems. Conf. Computing Frontiers 2016: 288-293 - [c5]Davide Gadioli, Gianluca Palermo, Cristina Silvano:
Application Adaptation at Runtime through Dynamic Knobs Autotuning. RES4ANT@DATE 2016: 43-47 - [c4]Ralph Görgen, Kim Grüttner, Fernando Herrera, Pablo Peñil, Julio L. Medina, Eugenio Villar, Gianluca Palermo, William Fornaciari, Carlo Brandolese, Davide Gadioli, Sara Bocchio, Luca Ceva, Paolo Azzoni, Massimo Poncino, Sara Vinco, Enrico Macii, Salvatore Cusenza, John M. Favaro, Raúl Valencia, Ingo Sander, Kathrin Rosvall, Davide Quaglia:
CONTREX: Design of Embedded Mixed-Criticality CONTRol Systems under Consideration of EXtra-Functional Properties. DSD 2016: 286-293 - 2015
- [c3]Davide Gadioli, Gianluca Palermo, Cristina Silvano:
Application autotuning to support runtime adaptivity in multicore architectures. SAMOS 2015: 173-180 - 2014
- [c2]Edoardo Paone, Davide Gadioli, Gianluca Palermo, Vittorio Zaccaria, Cristina Silvano:
Evaluating orthogonality between application auto-tuning and run-time resource management for adaptive OpenCL applications. ASAP 2014: 161-168 - [c1]Davide Gadioli, Simone Libutti, Giuseppe Massari, Edoardo Paone, Michele Scandale, Patrick Bellasi, Gianluca Palermo, Vittorio Zaccaria, Giovanni Agosta, William Fornaciari, Cristina Silvano:
OpenCL Application Auto-tuning and Run-Time Resource Management for Multi-core Platforms. ISPA 2014: 127-133
Coauthor Index
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