| 2026 | ICCS | A Parallel and Vectorized Implementation of the McCaskill Algorithm for X86-64 and RISC-V Architectures. | Marek Palkowski, Sergio Iserte, Tomasz Olas, Mateusz Gruzewski, Roman Wyrzykowski |
| 2025 | FedCSIS | NPDP programming for RISC multi-core processors. | Marek Palkowski, Mateusz Gruzewski |
| 2025 | KES | Knowledge Extraction for RNA Secondary Structure Prediction Using Heterogeneous and Dynamic Programming. | Mateusz Gruzewski, Marek Palkowski |
| 2024 | FedCSIS | Automatic Generation of OpenCL Code through Polyhedral Compilation with LLM. | Marek Palkowski, Mateusz Gruzewski |
| 2024 | PPAM | LLM-Driven Cross-Platform Code Generation for Polyhedral Optimized NPDP Codes. | Marek Palkowski |
| 2023 | FedCSIS | Polyhedral Tiling Strategies for the Zuker Algorithm Optimization. | Wlodzimierz Bielecki, Marek Palkowski, Piotr Blaszynski, Maciej Poliwoda |
| 2022 | FedCSIS | Automatic code optimization for computing the McCaskill partition functions. | Wlodzimierz Bielecki, Marek Palkowski, Maciej Poliwoda |
| 2022 | PPAM | NPDP Benchmark Suite for Loop Tiling Effectiveness Evaluation. | Marek Palkowski, Wlodzimierz Bielecki |
| 2021 | ICAISC | RNA Folding Codes Optimization Using the Intel SDK for OpenCL. | Mateusz Gruzewski, Marek Palkowski |
| 2020 | ICAISC | Automatic Generation of Parallel Cache-Efficient Code Implementing Zuker's RNA Folding. | Marek Palkowski, Wlodzimierz Bielecki, Mateusz Gruzewski |
| 2019 | FedCSIS | Parallel cache-efficient code for computing the McCaskill partition functions. | Marek Palkowski, Wlodzimierz Bielecki |
| 2019 | ICAISC | Energy Consumption Analysis of the Nussinov RNA Folding Implementations. | Marek Palkowski |
| 2019 | PPAM | Parallel Tiled Cache and Energy Efficient Code for Zuker's RNA Folding. | Marek Palkowski, Wlodzimierz Bielecki |
| 2018 | FedCSIS | Accelerating Minimum Cost Polygon Triangulation Code with the TRACO Compiler. | Marek Palkowski, Wlodzimierz Bielecki |
| 2018 | ICAISC | Parallel Cache Efficient Algorithm and Implementation of Needleman-Wunsch Global Sequence Alignment. | Marek Palkowski, Krzysztof Siedlecki, Wlodzimierz Bielecki |
| 2017 | FedCSIS | Optimizing Numerical Code by means of the Transitive Closure of Dependence Graphs. | Marek Palkowski, Wlodzimierz Bielecki |
| 2017 | ICAISC | Improving Data Locality of RNA Secondary Structure Prediction Code. | Marek Palkowski, Wlodzimierz Bielecki, Piotr Skotnicki |
| 2016 | FedCSIS | An Iteration Space Visualizer for Polyhedral Loop Transformations in Numerical Programming. | Marek Palkowski, Wlodzimierz Bielecki |
| 2016 | ICAISC | Finding Free Schedules for RNA Secondary Structure Prediction. | Marek Palkowski |
| 2016 | SBAC-PAD | Synchronization-Free Automatic Parallelization for Arbitrarily Nested Affine Loops. | Tomasz Klimek, Marek Palkowski, Wlodzimierz Bielecki |
| 2015 | FedCSIS | TRACO: An automatic loop nest parallelizer for numerical applications. | Marek Palkowski, Tomasz Klimek, Wlodzimierz Bielecki |
| 2015 | ICAISC | Using an Artificial Neural Network to Predict Loop Transformation Time. | Marek Palkowski, Wlodzimierz Bielecki |
| 2015 | PPAM | Free Scheduling of Tiles Based on the Transitive Closure of Dependence Graphs. | Wlodzimierz Bielecki, Marek Palkowski, Tomasz Klimek |
| 2014 | ICAISC | Usage of the TRACO Compiler for Neural Network Parallelization. | Marek Palkowski, Wlodzimierz Bielecki |
| 2012 | ICAISC | Automatic Privatization for Parallel Execution of Loops. | Marek Palkowski |
| 2010 | COCOA | An Iterative Algorithm of Computing the Transitive Closure of a Union of Parameterized Affine Integer Tuple Relations. | Wlodzimierz Bielecki, Tomasz Klimek, Marek Palkowski, Anna Beletska |
| 2009 | ISPDC | Coarse-Grained Loop Parallelization: Iteration Space Slicing vs Affine Transformations. | Anna Beletska, Wlodzimierz Bielecki, Albert Cohen, Marek Palkowski, Krzysztof Siedlecki |
| 2009 | PPAM | Extracting Both Affine and Non-linear Synchronization-Free Slices in Program Loops. | Wlodzimierz Bielecki, Marek Palkowski |
| 2008 | ICA3PP | Finding Synchronization-Free Parallelism Represented with Trees of Dependent Operations. | Wlodzimierz Bielecki, Anna Beletska, Marek Palkowski, Pierluigi San Pietro |
| 2008 | ICSoft | Using Message Passing for Developing Coarse-Grained Applications in OpenMP. | Wlodzimierz Bielecki, Marek Palkowski |