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Leo van Iersel
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2020 – today
- 2024
- [j42]Elise Deen, Leo van Iersel, Remie Janssen
, Mark Jones
, Yukihiro Murakami, Norbert Zeh:
A near-linear kernel for bounded-state parsimony distance. J. Comput. Syst. Sci. 140: 103477 (2024) - [j41]Katharina T. Huber, Leo van Iersel, Remie Janssen
, Mark Jones, Vincent Moulton
, Yukihiro Murakami, Charles Semple
:
Orienting undirected phylogenetic networks. J. Comput. Syst. Sci. 140: 103480 (2024) - [j40]Arkadiy Dushatskiy, Esther Julien, Leen Stougie, Leo van Iersel:
Solving the Tree Containment Problem Using Graph Neural Networks. Trans. Mach. Learn. Res. 2024 (2024) - [i31]Niels Holtgrefe, Leo van Iersel, Mark Jones:
Exact and Heuristic Computation of the Scanwidth of Directed Acyclic Graphs. CoRR abs/2403.12734 (2024) - [i30]Arkadiy Dushatskiy, Esther Julien, Leo van Iersel, Leen Stougie:
Solving the Tree Containment Problem Using Graph Neural Networks. CoRR abs/2404.09812 (2024) - [i29]Leo van Iersel, Mark Jones, Jannik Schestag, Céline Scornavacca, Mathias Weller:
Maximizing Network Phylogenetic Diversity. CoRR abs/2405.01091 (2024) - 2023
- [j39]Giulia Bernardini
, Leo van Iersel, Esther Julien, Leen Stougie:
Constructing phylogenetic networks via cherry picking and machine learning. Algorithms Mol. Biol. 18(1): 13 (2023) - [j38]Leo van Iersel, Vincent Moulton
, Yukihiro Murakami
:
Polynomial invariants for cactuses. Inf. Process. Lett. 182: 106394 (2023) - [c14]Leo van Iersel, Mark Jones, Esther Julien, Yukihiro Murakami:
Making a Network Orchard by Adding Leaves. WABI 2023: 7:1-7:20 - [i28]Giulia Bernardini, Leo van Iersel, Esther Julien, Leen Stougie:
Constructing Phylogenetic Networks via Cherry Picking and Machine Learning. CoRR abs/2304.02729 (2023) - [i27]Leo van Iersel, Mark Jones, Esther Julien, Yukihiro Murakami:
Making a Network Orchard by Adding Leaves. CoRR abs/2305.03106 (2023) - 2022
- [j37]Leo van Iersel, Remie Janssen
, Mark Jones, Yukihiro Murakami, Norbert Zeh
:
A Practical Fixed-Parameter Algorithm for Constructing Tree-Child Networks from Multiple Binary Trees. Algorithmica 84(4): 917-960 (2022) - [j36]Sander Borst
, Leo van Iersel
, Mark Jones, Steven Kelk:
New FPT Algorithms for Finding the Temporal Hybridization Number for Sets of Phylogenetic Trees. Algorithmica 84(7): 2050-2087 (2022) - [j35]Katharina T. Huber
, Leo van Iersel, Remie Janssen
, Mark Jones
, Vincent Moulton
, Yukihiro Murakami
:
Level-2 networks from shortest and longest distances. Discret. Appl. Math. 306: 138-165 (2022) - [j34]Leo van Iersel, Sjors Kole
, Vincent Moulton
, Leonie Nipius:
An algorithm for reconstructing level-2 phylogenetic networks from trinets. Inf. Process. Lett. 178: 106300 (2022) - [c13]Leo van Iersel, Mark Jones, Mathias Weller:
Embedding Phylogenetic Trees in Networks of Low Treewidth. ESA 2022: 69:1-69:14 - [c12]Giulia Bernardini
, Leo van Iersel, Esther Julien, Leen Stougie
:
Reconstructing Phylogenetic Networks via Cherry Picking and Machine Learning. WABI 2022: 16:1-16:22 - [i26]Leo van Iersel, Mark Jones, Mathias Weller:
Embedding phylogenetic trees in networks of low treewidth. CoRR abs/2207.00574 (2022) - [i25]Elise Deen, Leo van Iersel, Remie Janssen, Mark Jones, Yuki Murakami, Norbert Zeh:
A Near-Linear Kernel for Two-Parsimony Distance. CoRR abs/2211.00378 (2022) - 2021
- [j33]Leo van Iersel, Remie Janssen
, Mark Jones, Yukihiro Murakami
, Norbert Zeh:
A unifying characterization of tree-based networks and orchard networks using cherry covers. Adv. Appl. Math. 129: 102222 (2021) - [i24]Leo van Iersel, Sjors Kole, Vincent Moulton, Leonie Nipius:
An algorithm for reconstructing level-2 phylogenetic networks from trinets. CoRR abs/2109.11244 (2021) - 2020
- [j32]Leo van Iersel, Vincent Moulton
, Yukihiro Murakami
:
Reconstructibility of unrooted level-k phylogenetic networks from distances. Adv. Appl. Math. 120: 102075 (2020) - [j31]Leo van Iersel
, Remie Janssen, Mark Jones
, Yukihiro Murakami
, Norbert Zeh:
Polynomial-Time Algorithms for Phylogenetic Inference Problems Involving Duplication and Reticulation. IEEE ACM Trans. Comput. Biol. Bioinform. 17(1): 14-26 (2020) - [i23]Sander Borst
, Leo van Iersel, Mark Jones, Steven Kelk:
New FPT algorithms for finding the temporal hybridization number for sets of phylogenetic trees. CoRR abs/2007.13615 (2020)
2010 – 2019
- 2019
- [j30]Janosch Döcker, Leo van Iersel, Steven Kelk, Simone Linz
:
Deciding the existence of a cherry-picking sequence is hard on two trees. Discret. Appl. Math. 260: 131-143 (2019) - [i22]Katharina T. Huber, Leo van Iersel, Remie Janssen, Mark Jones, Vincent Moulton, Yukihiro Murakami, Charles Semple:
Rooting for phylogenetic networks. CoRR abs/1906.07430 (2019) - [i21]Leo van Iersel, Remie Janssen, Mark Jones, Yukihiro Murakami, Norbert Zeh:
A Practical Fixed-Parameter Algorithm for Constructing Tree-Child Networks from Multiple Binary Trees. CoRR abs/1907.08474 (2019) - [i20]Mark Jones, Philippe Gambette, Leo van Iersel, Remie Janssen, Steven Kelk, Fabio Pardi, Céline Scornavacca:
Cutting an alignment with Ockham's razor. CoRR abs/1910.11041 (2019) - 2018
- [j29]Leo van Iersel, Steven Kelk, Georgios Stamoulis, Leen Stougie, Olivier Boes:
On Unrooted and Root-Uncertain Variants of Several Well-Known Phylogenetic Network Problems. Algorithmica 80(11): 2993-3022 (2018) - [j28]Martijn van Ee, Leo van Iersel, Teun Janssen, René Sitters:
A priori TSP in the scenario model. Discret. Appl. Math. 250: 331-341 (2018) - [j27]Leo van Iersel
, Vincent Moulton
:
Leaf-Reconstructibility of Phylogenetic Networks. SIAM J. Discret. Math. 32(3): 2047-2066 (2018) - [j26]Laura Jetten, Leo van Iersel
:
Nonbinary Tree-Based Phylogenetic Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 15(1): 205-217 (2018) - [c11]Leo van Iersel, Remie Janssen, Mark Jones, Yukihiro Murakami, Norbert Zeh:
Polynomial-Time Algorithms for Phylogenetic Inference Problems. AlCoB 2018: 37-49 - [i19]Leo van Iersel, Mark Jones, Steven Kelk:
A third strike against perfect phylogeny. CoRR abs/1804.07232 (2018) - [i18]Teun Janssen, Céline M. F. Swennenhuis, Abdoul Bitar, Thomas Bosman, Dion Gijswijt, Leo van Iersel, Stéphane Dauzère-Pérès, Claude Yugma:
Parallel Machine Scheduling with a Single Resource per Job. CoRR abs/1809.05009 (2018) - 2017
- [j25]Katharina T. Huber, Leo van Iersel, Vincent Moulton
, Céline Scornavacca, Taoyang Wu
:
Reconstructing Phylogenetic Level-1 Networks from Nondense Binet and Trinet Sets. Algorithmica 77(1): 173-200 (2017) - [j24]Péter L. Erdös, Stephen G. Hartke, Leo van Iersel, István Miklós:
Graph Realizations Constrained by Skeleton Graphs. Electron. J. Comb. 24(2): 2 (2017) - [j23]Philippe Gambette
, Leo van Iersel, Mark Jones, Manuel Lafond
, Fabio Pardi
, Céline Scornavacca:
Rearrangement moves on rooted phylogenetic networks. PLoS Comput. Biol. 13(8) (2017) - [i17]Leo van Iersel, Vincent Moulton, Eveline de Swart, Taoyang Wu:
Binets: fundamental building blocks for phylogenetic networks. CoRR abs/1701.08995 (2017) - [i16]Steven Kelk, Fabio Pardi, Céline Scornavacca, Leo van Iersel:
Finding the most parsimonious or likely tree in a network with respect to an alignment. CoRR abs/1707.03648 (2017) - [i15]Remie Janssen, Mark Jones, Péter L. Erdös, Leo van Iersel, Céline Scornavacca:
Exploring the tiers of rooted phylogenetic network space using tail moves. CoRR abs/1708.07656 (2017) - [i14]Janosch Döcker, Leo van Iersel, Steven Kelk, Simone Linz:
Deciding the existence of a cherry-picking sequence is hard on two trees. CoRR abs/1712.02965 (2017) - 2016
- [j22]Leo van Iersel, Steven Kelk, Céline Scornavacca:
Kernelizations for the hybridization number problem on multiple nonbinary trees. J. Comput. Syst. Sci. 82(6): 1075-1089 (2016) - [j21]Steven Kelk, Leo van Iersel, Céline Scornavacca, Mathias Weller:
Phylogenetic incongruence through the lens of Monadic Second Order logic. J. Graph Algorithms Appl. 20(2): 189-215 (2016) - [j20]Leo van Iersel, Steven Kelk, Nela Lekic, Chris Whidden
, Norbert Zeh:
Hybridization Number on Three Rooted Binary Trees is EPT. SIAM J. Discret. Math. 30(3): 1607-1631 (2016) - [j19]Leo van Iersel, Steven Kelk, Nela Lekic, Simone Linz
:
Satisfying ternary permutation constraints by multiple linear orders or phylogenetic trees. Theor. Comput. Sci. 609: 1-21 (2016) - [c10]Martijn van Ee, Leo van Iersel, Teun Janssen, René Sitters:
A priori TSP in the Scenario Model. WAOA 2016: 183-196 - [i13]Laura Jetten, Leo van Iersel:
Nonbinary tree-based phylogenetic networks. CoRR abs/1601.04974 (2016) - [i12]Philippe Gambette, Leo van Iersel, Steven Kelk, Fabio Pardi, Céline Scornavacca:
Do branch lengths help to locate a tree in a phylogenetic network? CoRR abs/1607.06285 (2016) - [i11]Leo van Iersel, Steven Kelk, Georgios Stamoulis, Leen Stougie, Olivier Boes:
On unrooted and root-uncertain variants of several well-known phylogenetic network problems. CoRR abs/1609.00544 (2016) - 2015
- [j18]Murray Patterson
, Tobias Marschall
, Nadia Pisanti
, Leo van Iersel, Leen Stougie, Gunnar W. Klau
, Alexander Schönhuth
:
WhatsHap: Weighted Haplotype Assembly for Future-Generation Sequencing Reads. J. Comput. Biol. 22(6): 498-509 (2015) - [j17]Mareike Fischer
, Leo van Iersel, Steven Kelk, Céline Scornavacca:
On Computing the Maximum Parsimony Score of a Phylogenetic Network. SIAM J. Discret. Math. 29(1): 559-585 (2015) - [i10]Steven Kelk, Leo van Iersel, Céline Scornavacca:
Phylogenetic incongruence through the lens of Monadic Second Order logic. CoRR abs/1503.00368 (2015) - 2014
- [j16]Leo van Iersel, Steven Kelk, Nela Lekic, Céline Scornavacca:
A practical approximation algorithm for solving massive instances of hybridization number for binary and nonbinary trees. BMC Bioinform. 15: 127 (2014) - [j15]Céline Scornavacca, Leo van Iersel, Steven Kelk, David Bryant:
The agreement problem for unrooted phylogenetic trees is FPT. J. Graph Algorithms Appl. 18(3): 385-392 (2014) - [j14]Leo van Iersel, Steven Kelk, Nela Lekic, Leen Stougie:
Approximation Algorithms for Nonbinary Agreement Forests. SIAM J. Discret. Math. 28(1): 49-66 (2014) - [c9]Murray Patterson, Tobias Marschall, Nadia Pisanti, Leo van Iersel, Leen Stougie, Gunnar W. Klau
, Alexander Schönhuth:
WhatsHap: Haplotype Assembly for Future-Generation Sequencing Reads. RECOMB 2014: 237-249 - [c8]Leo van Iersel, Steven Kelk:
Kernelizations for the Hybridization Number Problem on Multiple Nonbinary Trees. WG 2014: 299-311 - [i9]Leo van Iersel, Steven Kelk, Nela Lekic, Chris Whidden, Norbert Zeh:
Hybridization Number on Three Trees. CoRR abs/1402.2136 (2014) - [i8]Leo van Iersel, Steven Kelk, Nela Lekic, Simone Linz:
Satisfying ternary permutation constraints by multiple linear orders or phylogenetic trees. CoRR abs/1410.2371 (2014) - [i7]Katharina T. Huber, Leo van Iersel, Vincent Moulton, Céline Scornavacca, Taoyang Wu:
Reconstructing phylogenetic level-1 networks from nondense binet and trinet sets. CoRR abs/1411.6804 (2014) - 2013
- [j13]Leo van Iersel, Simone Linz
:
A quadratic kernel for computing the hybridization number of multiple trees. Inf. Process. Lett. 113(9): 318-323 (2013) - [i6]Leo van Iersel, Steven Kelk:
Kernelizations for the hybridization number problem on multiple nonbinary trees. CoRR abs/1311.4045 (2013) - 2012
- [j12]Gregory Z. Gutin, Leo van Iersel, Matthias Mnich
, Anders Yeo
:
Every ternary permutation constraint satisfaction problem parameterized above average has a kernel with a quadratic number of variables. J. Comput. Syst. Sci. 78(1): 151-163 (2012) - [j11]Steven Kelk, Leo van Iersel, Nela Lekic, Simone Linz
, Céline Scornavacca, Leen Stougie:
Cycle Killer...Qu'est-ce que c'est? On the Comparative Approximability of Hybridization Number and Directed Feedback Vertex Set. SIAM J. Discret. Math. 26(4): 1635-1656 (2012) - [j10]Steven Kelk, Céline Scornavacca, Leo van Iersel:
On the Elusiveness of Clusters. IEEE ACM Trans. Comput. Biol. Bioinform. 9(2): 517-534 (2012) - [c7]Leo van Iersel, Steven Kelk, Nela Lekic, Céline Scornavacca:
A Practical Approximation Algorithm for Solving Massive Instances of Hybridization Number. WABI 2012: 430-440 - [i5]Leo van Iersel, Steven Kelk, Nela Lekic, Leen Stougie:
Computing nonbinary agreement forests. CoRR abs/1210.3211 (2012) - 2011
- [j9]Leo van Iersel, Steven Kelk:
Constructing the Simplest Possible Phylogenetic Network from Triplets. Algorithmica 60(2): 207-235 (2011) - [j8]Katharina T. Huber, Leo van Iersel, Steven Kelk, Radoslaw Suchecki
:
A Practical Algorithm for Reconstructing Level-1 Phylogenetic Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 8(3): 635-649 (2011) - [i4]Steven Kelk, Céline Scornavacca, Leo van Iersel:
On the elusiveness of clusters. CoRR abs/1103.1834 (2011) - [i3]Steven Kelk, Leo van Iersel, Nela Lekic, Simone Linz, Céline Scornavacca, Leen Stougie:
Cycle killer... qu'est-ce que c'est? On the comparative approximability of hybridization number and directed feedback vertex set. CoRR abs/1112.5359 (2011) - 2010
- [j7]Leo van Iersel, Steven Kelk, Regula Rupp, Daniel H. Huson:
Phylogenetic networks do not need to be complex: using fewer reticulations to represent conflicting clusters. Bioinform. 26(12): 124-131 (2010) - [j6]Leo van Iersel, Charles Semple
, Mike A. Steel
:
Locating a tree in a phylogenetic network. Inf. Process. Lett. 110(23): 1037-1043 (2010) - [c6]Gregory Z. Gutin, Leo van Iersel, Matthias Mnich
, Anders Yeo
:
All Ternary Permutation Constraint Satisfaction Problems Parameterized above Average Have Kernels with Quadratic Numbers of Variables. ESA (1) 2010: 326-337 - [i2]Gregory Z. Gutin, Leo van Iersel, Matthias Mnich, Anders Yeo:
All Ternary Permutation Constraint Satisfaction Problems Parameterized Above Average Have Polynomial Kernels. CoRR abs/1004.1956 (2010) - [i1]Leo van Iersel, Charles Semple, Mike A. Steel:
Locating a tree in a phylogenetic network. CoRR abs/1006.3122 (2010)
2000 – 2009
- 2009
- [j5]Leo van Iersel, Steven Kelk, Matthias Mnich
:
Uniqueness, Intractability and Exact Algorithms: Reflections on Level-k Phylogenetic Networks. J. Bioinform. Comput. Biol. 7(4): 597-623 (2009) - [j4]Leo van Iersel, Judith Keijsper, Steven Kelk, Leen Stougie, Ferry Hagen
, Teun Boekhout:
Constructing Level-2 Phylogenetic Networks from Triplets. IEEE ACM Trans. Comput. Biol. Bioinform. 6(4): 667-681 (2009) - 2008
- [j3]Leo van Iersel, Judith Keijsper, Steven Kelk, Leen Stougie:
Shorelines of Islands of Tractability: Algorithms for Parsimony and Minimum Perfect Phylogeny Haplotyping Problems. IEEE ACM Trans. Comput. Biol. Bioinform. 5(2): 301-312 (2008) - [c5]Leo van Iersel, Steven Kelk:
Constructing the Simplest Possible Phylogenetic Network from Triplets. ISAAC 2008: 472-483 - [c4]Leo van Iersel, Judith Keijsper, Steven Kelk, Leen Stougie, Ferry Hagen
, Teun Boekhout:
Constructing Level-2 Phylogenetic Networks from Triplets. RECOMB 2008: 450-462 - 2007
- [j2]Rudi Cilibrasi
, Leo van Iersel, Steven Kelk, John Tromp
:
The Complexity of the Single Individual SNP Haplotyping Problem. Algorithmica 49(1): 13-36 (2007) - [j1]Cor A. J. Hurkens, Leo van Iersel, Judith Keijsper, Steven Kelk, Leen Stougie, John Tromp:
Prefix Reversals on Binary and Ternary Strings. SIAM J. Discret. Math. 21(3): 592-611 (2007) - [c3]Cor A. J. Hurkens, Leo van Iersel, Judith Keijsper, Steven Kelk, Leen Stougie, John Tromp:
Prefix Reversals on Binary and Ternary Strings. AB 2007: 292-306 - 2006
- [c2]Leo van Iersel, Judith Keijsper, Steven Kelk, Leen Stougie:
Beaches of Islands of Tractability: Algorithms for Parsimony and Minimum Perfect Phylogeny Haplotyping Problems. WABI 2006: 80-91 - 2005
- [c1]Rudi Cilibrasi, Leo van Iersel, Steven Kelk, John Tromp:
On the Complexity of Several Haplotyping Problems. WABI 2005: 128-139
Coauthor Index
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