Krister M. Swenson

59 papers B 3C 7Misc 1Journal 32Unranked 14
YearRankTypeTitle / Venue / Authors
2024 J jnl
A Simple and Efficient Algorithm for Sorting Signed Permutations by Reversals.
CoRR
Krister M. Swenson
2023 J jnl
Evaluating impacts of syntenic block detection strategies on rearrangement phylogeny using
Bioinform.
Afif Elghraoui, Siavash Mirarab, Krister M. Swenson, Faramarz Valafar
2023 — conf
Two Strikes Against the Phage Recombination Problem.
RECOMB-CG
Manuel Lafond, Anne Bergeron, Krister M. Swenson
2022 — conf
On the Comparison of Bacteriophage Populations.
RECOMB-CG
Anne Bergeron, Marie-Jean Meurs, Romy Valiquette-Labonté, Krister M. Swenson
2022 — conf
Quantifying Hierarchical Conflicts in Homology Statements.
RECOMB-CG
Krister M. Swenson, Afif Elghraoui, Faramarz Valafar, Siavash Mirarab, Mathias Weller
2021 J jnl
A Faster Algorithm for Computing the Kernel of Maximum Agreement Subtrees.
IEEE ACM Trans. Comput. Biol. Bioinform.
Biing-Feng Wang, Krister M. Swenson
2019 J jnl
A general framework for genome rearrangement with biological constraints.
Algorithms Mol. Biol.
Pijus Simonaitis, Annie Chateau, Krister M. Swenson
2019 J jnl
Large-scale mammalian genome rearrangements coincide with chromatin interactions.
Bioinform.
Krister M. Swenson, Mathieu Blanchette
2019 J jnl
Rapid alignment-free phylogenetic identification of metagenomic sequences.
Bioinform.
Benjamin Linard, Krister M. Swenson, Fabio Pardi
2019 C conf
Rapidly Computing the Phylogenetic Transfer Index.
WABI
Jakub Truszkowski, Olivier Gascuel, Krister M. Swenson
2019 C conf
Weighted Minimum-Length Rearrangement Scenarios.
WABI
Pijus Simonaitis, Annie Chateau, Krister M. Swenson
2018 — conf
A General Framework for Genome Rearrangement with Biological Constraints.
RECOMB-CG
Pijus Simonaitis, Annie Chateau, Krister M. Swenson
2018 J jnl
A framework for cost-constrained genome rearrangement under Double Cut and Join.
CoRR
Pijus Simonaitis, Annie Chateau, Krister M. Swenson
2018 J jnl
Finding local genome rearrangements.
Algorithms Mol. Biol.
Pijus Simonaitis, Krister M. Swenson
2017 C conf
Finding Local Genome Rearrangements.
WABI
Pijus Simonaitis, Krister M. Swenson
2017 — conf
Rearrangement Scenarios Guided by Chromatin Structure.
RECOMB-CG
Sylvain Pulicani, Pijus Simonaitis, Eric Rivals, Krister M. Swenson
2016 J jnl
Aligning the unalignable: bacteriophage whole genome alignments.
BMC Bioinform.
Sèverine Bérard, Annie Chateau, Nicolas Pompidor, Paul Guertin, Anne Bergeron, Krister M. Swenson
2016 J jnl
Models and algorithms for genome rearrangement with positional constraints.
Algorithms Mol. Biol.
Krister M. Swenson, Pijus Simonaitis, Mathieu Blanchette
2015 C conf
Models and Algorithms for Genome Rearrangement with Positional Constraints.
WABI
Krister M. Swenson, Mathieu Blanchette
2014 J jnl
Gene tree correction for reconciliation and species tree inference: Complexity and algorithms.
J. Discrete Algorithms
Riccardo Dondi, Nadia El-Mabrouk, Krister M. Swenson
2013 J jnl
Ancestral Genome Organization: An Alignment Approach.
J. Comput. Biol.
Patrick Holloway, Krister M. Swenson, David H. Ardell, Nadia El-Mabrouk
2013 — ch.
Error Detection and Correction of Gene Trees.
Models and Algorithms for Genome Evolution
Manuel Lafond, Krister M. Swenson, Nadia El-Mabrouk
2013 J jnl
Gene tree correction guided by orthology.
BMC Bioinform.
Manuel Lafond, Magali Semeria, Krister M. Swenson, Eric Tannier, Nadia El-Mabrouk
2013 J jnl
Reconstructing the modular recombination history of Staphylococcus aureus phages.
BMC Bioinform.
Krister M. Swenson, Paul Guertin, Hugo Deschênes, Anne Bergeron
2012 J jnl
A graph-theoretic approach for inparalog detection.
BMC Bioinform.
Olivier Tremblay-Savard, Krister M. Swenson
2012 C conf
An Optimal Reconciliation Algorithm for Gene Trees with Polytomies.
WABI
Manuel Lafond, Krister M. Swenson, Nadia El-Mabrouk
2012 B conf
Evolution of Genome Organization by Duplication and Loss: An Alignment Approach.
RECOMB
Patrick Holloway, Krister M. Swenson, David H. Ardell, Nadia El-Mabrouk
2012 J jnl
Gene tree correction for reconciliation and species tree inference.
Algorithms Mol. Biol.
Krister M. Swenson, Andrea Doroftei, Nadia El-Mabrouk
2012 J jnl
Gene trees and species trees: irreconcilable differences.
BMC Bioinform.
Krister M. Swenson, Nadia El-Mabrouk
2012 — conf
On the Comparison of Sets of Alternative Transcripts.
ISBRA
Aïda Ouangraoua, Krister M. Swenson, Anne Bergeron
2012 J jnl
The Kernel of Maximum Agreement Subtrees.
IEEE ACM Trans. Comput. Biol. Bioinform.
Krister M. Swenson, Eric C. H. Chen, Nicholas D. Pattengale, David Sankoff
2011 J jnl
A 2-Approximation for the Minimum Duplication Speciation Problem.
J. Comput. Biol.
Aïda Ouangraoua, Krister M. Swenson, Cédric Chauve
2011 J jnl
Listing All Parsimonious Reversal Sequences: New Algorithms and Perspectives.
J. Comput. Biol.
Ghada Badr, Krister M. Swenson, David Sankoff
2011 J jnl
Listing all sorting reversals in quadratic time.
Algorithms Mol. Biol.
Krister M. Swenson, Ghada Badr, David Sankoff
2011 C conf
OMG! Orthologs in Multiple Genomes - Competing Graph-Theoretical Formulations.
WABI
Chunfang Zheng, Krister M. Swenson, Eric Lyons, David Sankoff
2011 — conf
The Kernel of Maximum Agreement Subtrees.
ISBRA
Krister M. Swenson, Eric C. H. Chen, Nicholas D. Pattengale, David Sankoff
2011 J jnl
Theory and Practice of Ultra-Perfection.
J. Comput. Biol.
Aïda Ouangraoua, Anne Bergeron, Krister M. Swenson
2011 J jnl
Uncovering Hidden Phylogenetic Consensus in Large Data Sets.
IEEE ACM Trans. Comput. Biol. Bioinform.
Nicholas D. Pattengale, Andre J. Aberer, Krister M. Swenson, Alexandros Stamatakis, Bernard M. E. Moret
2010 — conf
An Approximation Algorithm for Computing a Parsimonious First Speciation in the Gene Duplication Model.
RECOMB-CG
Aïda Ouangraoua, Krister M. Swenson, Cédric Chauve
2010 J jnl
Estimating true evolutionary distances under rearrangements, duplications, and losses.
BMC Bioinform.
Yu Lin, Vaibhav Rajan, Krister M. Swenson, Bernard M. E. Moret
2010 J jnl
Heuristics for the inversion median problem.
BMC Bioinform.
Vaibhav Rajan, Andrew Wei Xu, Yu Lin, Krister M. Swenson, Bernard M. E. Moret
2010 — conf
Listing All Parsimonious Reversal Sequences: New Algorithms and Perspectives.
RECOMB-CG
Ghada Badr, Krister M. Swenson, David Sankoff
2010 C conf
Listing All Sorting Reversals in Quadratic Time.
WABI
Krister M. Swenson, Ghada Badr, David Sankoff
2010 J jnl
Sorting Signed Permutations by Inversions in
J. Comput. Biol.
Krister M. Swenson, Vaibhav Rajan, Yu Lin, Bernard M. E. Moret
2010 J jnl
The Metropolized Partial Importance Sampling MCMC Mixes Slowly on Minimum Reversal Rearrangement Paths.
IEEE ACM Trans. Comput. Biol. Bioinform.
István Miklós, Bence Mélykúti, Krister M. Swenson
2010 — conf
Ultra-Perfect Sorting Scenarios.
RECOMB-CG
Aïda Ouangraoua, Anne Bergeron, Krister M. Swenson
2010 — conf
Uncovering Hidden Phylogenetic Consensus.
ISBRA
Nicholas D. Pattengale, Krister M. Swenson, Bernard M. E. Moret
2009 — —
Evolution of whole genomes through inversions - models and algorithms for duplicates, ancestors, and edit scenarios.
Krister M. Swenson
2009 J jnl
Hurdles and Sorting by Inversions: Combinatorial, Statistical, and Experimental Results.
J. Comput. Biol.
Krister M. Swenson, Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
2009 J jnl
Inversion-based genomic signatures.
BMC Bioinform.
Krister M. Swenson, Bernard M. E. Moret
2009 J jnl
Maximum independent sets of commuting and noninterfering inversions.
BMC Bioinform.
Krister M. Swenson, Yokuki To, Jijun Tang, Bernard M. E. Moret
2009 B conf
Sorting Signed Permutations by Inversions in O(nlogn) Time.
RECOMB
Krister M. Swenson, Vaibhav Rajan, Yu Lin, Bernard M. E. Moret
2008 J jnl
Approximating the true evolutionary distance between two genomes.
ACM J. Exp. Algorithmics
Krister M. Swenson, Mark Marron, Joel V. Earnest-DeYoung, Bernard M. E. Moret
2008 — conf
Hurdles Hardly Have to Be Heeded.
RECOMB-CG
Krister M. Swenson, Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
2008 B conf
Phylogenetic Reconstruction from Complete Gene Orders of Whole Genomes.
APBC
Krister M. Swenson, William Arndt, Jijun Tang, Bernard M. E. Moret
2005 — conf
A Framework for Orthology Assignment from Gene Rearrangement Data.
Comparative Genomics
Krister M. Swenson, Nicholas D. Pattengale, Bernard M. E. Moret
2005 — conf
Approximating the True Evolutionary Distance between Two Genomes.
ALENEX/ANALCO
Krister M. Swenson, Mark Marron, Joel V. Earnest-DeYoung, Bernard M. E. Moret
2004 J jnl
Genomic Distances under Deletions and Insertions.
Theor. Comput. Sci.
Mark Marron, Krister M. Swenson, Bernard M. E. Moret
2003 Misc conf
Genomic Distances under Deletions and Insertions.
COCOON
Mark Marron, Krister M. Swenson, Bernard M. E. Moret