Publikacje

Paweł Górecki

Liczba publikacji: 59

2022

• Marcin Wawerka, Dawid Dąbkowski, Natalia Rutecka, Agnieszka Mykowiecka, Paweł Górecki , Embedding gene trees into phylogenetic networks by conflict resolution algorithms, Algorithms for Molecular Biology, 17 (1) 2022, s. 11: 1-23. Zobacz w PBN
• Jerzy Tiuryn , Natalia Rutecka, Paweł Górecki , Rooting Gene Trees via Phylogenetic Networks, Lecture Notes in Computer Science, The 28th International Computing and Combinatorics Conference, Shenzen, China, 22 października 2022 - 24 października 2022, 13595 2022. Zobacz w PBN
• Alvin Chon, Paweł Górecki , Oliver Eulenstein, Xiaoqiu Huang, Ali Jannesari, Scalable and Extensible Robinson-Foulds for Comparative Phylogenetics, IEEE International Parallel and Distributed Processing Symposium Workshops, Lyon, France, 30 maja 2022 - 3 czerwca 2022. Zobacz w PBN

2021

• Marcin Wawerka, Dawid Dąbkowski, Natalia Rutecka, Agnieszka Mykowiecka, Paweł Górecki , Conflict Resolution Algorithms for Deep Coalescence Phylogenetic Networks, 21st International Workshop on Algorithms in Bioinformatics, Virtual, the United States of America, 2 sierpnia 2021 - 4 października 2021. Zobacz w PBN
• Jarosław Paszek , Oliver Eulenstein, Paweł Górecki , Novel genomic duplication models through integer linear programming, 12th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, Virtual on-line, the United States of America, 1 sierpnia 2021 - 4 sierpnia 2021. Zobacz w PBN
• Jarosław Paszek , Alexey Markin, Oliver Eulenstein, Paweł Górecki , Taming the Duplication-Loss-Coalescence Model with Integer Linear Programming, Journal of Computational Biology, 28 (8) 2021, s. 758-773. Zobacz w PBN
• Jerzy Tiuryn , Paweł Górecki , Oliver Eulenstein, The Unconstrained Diameters of the Duplication-Loss Cost and the Loss Cost, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 18 (6) 2021, s. 2125-2135. Zobacz w PBN

2020

• Paweł Górecki , Alexey Markin, Oliver Eulenstein, Exact median-tree inference for unrooted reconciliation costs, BMC Evolutionary Biology, 20 (S1) 2020, s. 136: 1-15. Zobacz w PBN
• Jarosław Paszek , Jerzy Tiuryn , Paweł Górecki , Minimizing genomic duplication episodes, Computational Biology and Chemistry, 89 2020, s. 107260. Zobacz w PBN

2019

• P. Tabaszewski, Paweł Górecki , Alexey Markin, Tavis Anderson, Oliver Eulenstein, Consensus of all Solutions for Intractable Phylogenetic Tree Inference, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 18 (1) 2019, s. 149-161. Zobacz w PBN
• Agnieszka Mykowiecka, Paweł Górecki , Credibility of Evolutionary Events in Gene Trees, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 16 (3) 2019, s. 713-726. Zobacz w PBN
• Paweł Górecki , Alexey Markin, Oliver Eulenstein, Feasibility Algorithms for the Duplication-Loss Cost, 25th International Computing and Combinatorics Conference, Xian, China, 29 lipca 2019 - 31 lipca 2019. Zobacz w PBN
• Cornelis A.M. van Bergen, Marvyn T. Koning, Edwin Quinten, Agnieszka Mykowiecka, Julieta Sepulveda, Ramin Monajemi, Ruben A.L. De Groen, Joost Vermaat, Susan L. Kloet, Szymon M. Kielbasa, Marcelo A. Navarrete, Paweł Górecki , Hendrik Veelken, High-Throughput BCR Sequencing and Single-Cell Transcriptomics Reveal Distinct Transcriptional Profiles Associated with Subclonal Evolution of Follicular Lymphoma, Blood, 134 (Supplement_1) 2019, s. 298-298. Zobacz w PBN
• Paweł Górecki , Agnieszka Mykowiecka, Jarosław Paszek , Oliver Eulenstein, Mathematical properties of the gene duplication cost, Discrete Applied Mathematics, 258 2019, s. 114-122. Zobacz w PBN

2018

• Paweł Górecki , Oliver Eulenstein, Bijective Diameters of Gene Tree Parsimony Costs, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 15 (5) 2018, s. 1723-1727. Zobacz w PBN
• Paweł Górecki , Alexey Markin, Oliver Eulenstein, Cophenetic Distances: A Near-Linear Time Algorithmic Framework, 24th International Computing and Combinatorics Conference, Qingdao, China, 2 lipca 2018 - 4 lipca 2018. Zobacz w PBN
• Paweł Górecki , Jarosław Paszek , Efficient algorithms for genomic duplication models, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 15 (5) 2018, s. 1515-1524. Zobacz w PBN
• Paweł Górecki , Jarosław Paszek , Inferring duplication episodes from unrooted gene trees, BMC Genomics, 19 (5) 2018, s. 71-95. Zobacz w PBN
• Paweł Górecki , Agnieszka Mykowiecka, Paweł Szczęsny, Inferring gene-species assignments in the presence of horizontal gene transfer, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2018. Zobacz w PBN
• Agnieszka Mykowiecka, Paweł Górecki , Anna Muszewska, Inferring time-consistent and well-supported horizontal gene transfers., IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Madryt, Spain, 2 grudnia 2018 - 5 grudnia 2018. Zobacz w PBN
• Michał Ciach, Anna Muszewska, Paweł Górecki , Locus-aware decomposition of gene trees with respect to polytomous species trees., Algorithms for Molecular Biology, 13 2018, s. 11. Zobacz w PBN
• Dawid Dąbkowski, Paweł Górecki , Minimising the Deep Coalescence, International Conference on Bioinformatics and Computational Biology, Las Vegas, the United States of America, 19 marca 2018 - 21 marca 2018. Zobacz w PBN
• Dawid Dąbkowski, Paweł Tabaszewski, Paweł Górecki , Minimizing the deep coalescence cost, Journal of Bioinformatics and Computational Biology, 16 (5) 2018, s. 1840021. Zobacz w PBN
• Oliver Eulenstein, Paweł Górecki , Paweł Tabaszewski, Phylogenetic Consensus for Exact Median Trees, The 9th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, Washington, D.C, the United States of America, 29 sierpnia 2018 - 1 września 2018. Zobacz w PBN

2017

• Michał Aleksander Ciach, Paweł Górecki , Anna Muszewska, Detecting Locus Acquisition Events in Gene Trees, 17th Workshop on Algorithms in Bioinformatics, Boston, MA, the United States of America, 21 sierpnia 2017 - 23 sierpnia 2017. Zobacz w PBN
• Paweł Górecki , Jarosław Paszek , New Algorithms for the Genomic Duplication Problem, Lecture Notes in Computer Science, RECOMB International Workshop on Comparative Genomics, Barcelona, Spain, 10562 2017, s. 101-115. Zobacz w PBN
• Paweł Górecki , Alexey Markin, Agnieszka Mykowiecka, Jarosław Paszek , Oliver Eulenstein, Phylogenetic Tree Reconciliation: Mean Values for Fixed Gene Trees, 13th International Symposium on Bioinformatics Research and Applications, Honolulu, the United States of America, 30 maja 2017 - 2 czerwca 2017. Zobacz w PBN
• Paweł Górecki , Jarosław Paszek , Oliver Eulenstein, Unconstrained Diameters for Deep Coalescence, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 14 (5) 2017, s. 1002-1012. Zobacz w PBN

2016

• Paweł Górecki , Agnieszka Mykowiecka, Bootstrapping Algorithms for Gene Duplication and Speciation Events, Lecture Notes in Computer Science, Algorithms for Computational Biology, Trujillo, Spain, 21 czerwca 2016 - 22 czerwca 2016. Zobacz w PBN
• Paweł Górecki , Jarosław Paszek , Genomic duplication problems for unrooted gene trees, BMC Genomics, 2016. Zobacz w PBN
• Paweł Górecki , Jarosław Paszek , Agnieszka Mykowiecka, Mean Values of Gene Duplication and Loss Cost Functions, Lecture Notes in Computer Science, International Symposium on Bioinformatics Research and Applications, 5 czerwca 2016 - 8 czerwca 2016. Zobacz w PBN

2015

• Arkadiusz Betkier, Paweł Górecki , Paweł Szczęsny, Fast Algorithms for Inferring Gene-Species Associations, Lecture Notes in Computer Science, International Symposium on Bioinformatics Research and Applications, Norfolk, the United States of America, 7 czerwca 2015 - 10 czerwca 2015. Zobacz w PBN
• Oliver Eulenstein, Paweł Górecki , Gene Tree Diameter for Deep Coalescence, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2015. Zobacz w PBN

2014

• Oliver Eulenstein, Paweł Górecki , DrML: Probabilistic Modeling of Gene Duplications, Journal of Computational Biology, 2014. Zobacz w PBN
• Paweł Górecki , Jarosław Paszek , Eulenstein Oliver, Duplication Cost Diameters, Lecture Notes in Computer Science, International Symposium on Bioinformatics Research and Applications, China, 2014. Zobacz w PBN
• Oliver Eulenstein, Paweł Górecki , Maximizing Deep Coalescence Cost, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2014. Zobacz w PBN
• Oliver Eulenstein, Paweł Górecki , Refining Discordant Gene Trees, BMC Bioinformatics, 2014. Zobacz w PBN
• Paweł Górecki , Jarosław Paszek , Oliver Eulenstein, Unconstrained Gene Tree Diameters for Deep Coalescence, ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, the United States of America, 2014. Zobacz w PBN

2013

• Oliver Eulentsein, Paweł Górecki , Algorithms for Unrooted Gene Trees with Polytomies, 2013. Zobacz w PBN
• Wen-Chieh Chang, Oliver Eulenstein, Paweł Górecki , Ande Wehe, Exact Solutions for Classical Gene Tree Parsimony Problems, 2013. Zobacz w PBN
• Oliver Eulenstein, Paweł Górecki , Chang Wen-Chien, Exact Solutions for Species Tree Inference from Discordant Gene Trees, Journal of Bioinformatics and Computational Biology, 2013. Zobacz w PBN
• Oliver Eulenstein, Paweł Górecki , Jerzy Tiuryn , Unrooted Tree Reconciliation: A Unified Approach, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2013. Zobacz w PBN

2012

• Oliver Eulenstein, Paweł Górecki , A Robinson-Foulds Measure to Compare Unrooted Trees with Rooted Trees, Lecture Notes in Computer Science, 2012. Zobacz w PBN
• Oliver Eulenstein, Paweł Górecki , Algorithms: Simultaneous Error-Correction and Rooting for Gene Tree Reconciliation and the Gene Duplication Problem, BMC Bioinformatics, 2012. Zobacz w PBN
• Oliver Eulenstein, Paweł Górecki , Deep Coalescence Reconciliation with Unrooted Gene Trees: Linear Time Algorithms, Lecture Notes in Computer Science, 2012. Zobacz w PBN
• Gordon J. Burleigh, Oliver Eulenstein, Paweł Górecki , GTP Supertrees from Unrooted Gene Trees: Linear Time Algorithms for NNI Based Local Searches, Lecture Notes in Computer Science, 2012. Zobacz w PBN
• Paweł Górecki , Jerzy Tiuryn , Inferring Evolutionary Scenarios in the Duplication, Loss and Horizontal Gene Transfer Model, Lecture Notes in Computer Science, 2012. Zobacz w PBN
• Andrea Aerts, Kerrie Barry, Isabelle Benoit, Manfred Binder, Robert A. Blanchette, Alex Boyd, Alexis Carlson, Alex Copeland, Pedro M. Coutinho, Dan Cullen, Daniel C. Eastwood, Patricia Ferreira, Keisha Findley, Dimitrios Floudas, Brian Foster, Jill Gaskell, Dylan Glotzer, Igor V. Grigoriev, Paweł Górecki , Joseph Heitman, Bernard Henrissat, Cedar Hesse, David S. Hibbett, Chiaki Hori, Kiyohiko Igarashi, Joel A. Jurgens, Nathan Kallen, Phil Kersten, Annegret Kohler, T. K. Arun Kumar, Alan Kuo, Ursula Kües, Kurt LaButti, Luis F. Larrondo, Erika Lindquist, Albee Ling, Vincent Lombard, Susan Lucas, Taina Lundell, Francis Martin, Rachael Martin, Angel T. Martínez, David J. McLaughlin, Ingo Morgenstern, Emanuelle Morin, Claude Murat, Laszlo G. Nagy, Matt Nolan, Robin A. Ohm, Robert Otillar, Aleksandrina Patyshakuliyeva, Antonio Pisabarro, Robert Riley, Antonis Rokas, Francisco J. Ruiz-Dueñas, Grzegorz Sabat, Asaf Salamov, Masahiro Samejima, Jeremy Schmutz, Jason C. Slot, Joseph W. Spatafora, Franz St. John, Jan Stenlid, Hui Sun, Sheng Sun, Khajamohiddin Syed, Adrian Tsang, Ad Wiebenga, Jagjit S. Yadav, Darcy Young, Ronald P. de Vries, The Paleozoic Origin of Enzymatic Lignin Decomposition Reconstructed from 31 Fungal Genomes, Science, 2012. Zobacz w PBN

2011

• Oliver Eulenstein, Paweł Górecki , A linear time algorithm for error-corrected reconciliation of unrooted gene trees, Lecture Notes in Computer Science, 2011. Zobacz w PBN
• Gordon Burleigh, Oliver Eulenstein, Paweł Górecki , Maximum likelihood models and algorithms for gene tree evolution with duplications and losses, BMC Bioinformatics, 2011. Zobacz w PBN

2010

• Paweł Górecki , H-trees: a Model of Evolutionary Scenarios with Horizontal Gene Transfer, Fundamenta Informaticae, 2010. Zobacz w PBN

2007

• Paweł Górecki , Jerzy Tiuryn , Inferring phylogeny from whole genomes, Bioinformatics, 2007. Zobacz w PBN
• Paweł Górecki , Jerzy Tiuryn , URec: a system for unrooted reconciliation, Bioinformatics, 2007. Zobacz w PBN

2006

• Paweł Górecki , Jerzy Tiuryn , DLS-trees: a model of evolutionary scenarios, Theoretical Computer Science, 2006. Zobacz w PBN

2004

• Paweł Górecki , Jerzy Tiuryn , On the structure of reconciliations, Lecture Notes in Computer Science, 2004. Zobacz w PBN
• Paweł Górecki , Reconciliation problems for duplication, loss and horizontal gene transfer, 2004. Zobacz w PBN

2003

• Paweł Górecki , Maximum likelihood estimation for duplication, loss model, 2003. Zobacz w PBN
• Paweł Górecki , Single step reconciliation algorihm for duplication, loss and horizontal gene transfer model, 2003. Zobacz w PBN

Inne

• Javad Ansarifar, Alexey Markin, Paweł Górecki , Oliver Eulenstein, Integer Linear Programming Formulation for the Unified Duplication-Loss-Coalescence Model, Bioinformatics Research and Applications: 16th International Symposium, ISBRA 2020, Moscow, Russia, December 1–4, 2020, Proceedings, , s. 229-242. Zobacz w PBN