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Jens Lagergren
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2020 – today
- 2024
- [c31]Oskar Kviman, Nicola Branchini, Víctor Elvira, Jens Lagergren:
Variational Resampling. AISTATS 2024: 3286-3294 - [c30]Alexandra Maria Hotti, Lennart Alexander Van der Goten, Jens Lagergren:
Benefits of Non-Linear Scale Parameterizations in Black Box Variational Inference through Smoothness Results and Gradient Variance Bounds. AISTATS 2024: 3538-3546 - [c29]Harald Melin, Vittorio Zampinetti, Andrew McPherson, Jens Lagergren:
VICTree - A Variational Inference Method for Clonal Tree Reconstruction. RECOMB 2024: 429-433 - [i10]Alfred Nilsson, Klas Wijk, Sai Bharath Chandra Gutha, Erik Englesson, Alexandra Hotti, Carlo Saccardi, Oskar Kviman, Jens Lagergren, Ricardo Vinuesa, Hossein Azizpour:
Indirectly Parameterized Concrete Autoencoders. CoRR abs/2403.00563 (2024) - [i9]Alexandra Hotti, Oskar Kviman, Ricky Molén, Víctor Elvira, Jens Lagergren:
Efficient Mixture Learning in Black-Box Variational Inference. CoRR abs/2406.07083 (2024) - 2023
- [c28]Oskar Kviman, Ricky Molén, Alexandra Hotti, Semih Kurt, Víctor Elvira, Jens Lagergren:
Cooperation in the Latent Space: The Benefits of Adding Mixture Components in Variational Autoencoders. ICML 2023: 18008-18022 - [i8]Ludvig Bergenstråhle, Jens Lagergren, Joakim Lundeberg:
Learning Stationary Markov Processes with Contrastive Adjustment. CoRR abs/2303.05497 (2023) - [i7]Oskar Kviman, Ricky Molén, Jens Lagergren:
Improved Variational Bayesian Phylogenetic Inference using Mixtures. CoRR abs/2310.00941 (2023) - 2022
- [j36]José Bonet, Mandi Chen
, Marc Dabad
, Simon Heath, Abel Gonzalez-Perez
, Núria López-Bigas
, Jens Lagergren:
DeepMP: a deep learning tool to detect DNA base modifications on Nanopore sequencing data. Bioinform. 38(5): 1235-1243 (2022) - [j35]Mohammadreza Mohaghegh Neyshabouri
, Jens Lagergren
:
ToMExO: A probabilistic tree-structured model for cancer progression. PLoS Comput. Biol. 18(12): 1010732 (2022) - [c27]Oskar Kviman, Harald Melin, Hazal Koptagel, Victor Elvira, Jens Lagergren:
Multiple Importance Sampling ELBO and Deep Ensembles of Variational Approximations. AISTATS 2022: 10687-10702 - [c26]Hazal Koptagel, Oskar Kviman, Harald Melin, Negar Safinianaini, Jens Lagergren:
VaiPhy: a Variational Inference Based Algorithm for Phylogeny. NeurIPS 2022 - [i6]Oskar Kviman, Harald Melin, Hazal Koptagel, Víctor Elvira, Jens Lagergren:
Multiple Importance Sampling ELBO and Deep Ensembles of Variational Approximations. CoRR abs/2202.10951 (2022) - [i5]Hazal Koptagel, Oskar Kviman, Harald Melin, Negar Safinianaini, Jens Lagergren:
VaiPhy: a Variational Inference Based Algorithm for Phylogeny. CoRR abs/2203.01121 (2022) - [i4]Oskar Kviman, Ricky Molén, Alexandra Hotti, Semih Kurt, Víctor Elvira, Jens Lagergren:
Learning with MISELBO: The Mixture Cookbook. CoRR abs/2209.15514 (2022) - [i3]Oskar Kviman, Hazal Koptagel, Harald Melin, Jens Lagergren:
Statistical Distance Based Deterministic Offspring Selection in SMC Methods. CoRR abs/2212.12290 (2022) - 2021
- [i2]Alexandra Hotti, Riccardo Sven Risuleo, Stefan Magureanu, Aref Moradi, Jens Lagergren:
The Klarna Product Page Dataset: A Realistic Benchmark for Web Representation Learning. CoRR abs/2111.02168 (2021) - 2020
- [j34]Mohammadreza Mohaghegh Neyshabouri
, Seong-Hwan Jun
, Jens Lagergren
:
Inferring tumor progression in large datasets. PLoS Comput. Biol. 16(10) (2020) - [c25]Negar Safinianaini, Camila P. E. de Souza
, Henrik Boström, Jens Lagergren:
Orthogonal Mixture of Hidden Markov Models. ECML/PKDD (1) 2020: 509-525
2010 – 2019
- 2017
- [j33]Mattias Frånberg, Rona J. Strawbridge
, Anders Hamsten, PROCARDIS consortium, Ulf de Faire, Jens Lagergren
, Bengt Sennblad:
Fast and general tests of genetic interaction for genome-wide association studies. PLoS Comput. Biol. 13(6) (2017) - 2016
- [j32]Mehmood Alam Khan, Owais Mahmudi, Ikram Ullah, Lars Arvestad
, Jens Lagergren
:
Probabilistic inference of lateral gene transfer events. BMC Bioinform. 17(S-14): 263-270 (2016) - [j31]Niko Beerenwinkel, Chris D. Greenman, Jens Lagergren
:
Computational Cancer Biology: An Evolutionary Perspective. PLoS Comput. Biol. 12(2) (2016) - [i1]Kerry Zhang, Jussi Karlgren, Cheng Zhang, Jens Lagergren:
Viewpoint and Topic Modeling of Current Events. CoRR abs/1608.04089 (2016) - 2014
- [c24]Pekka Parviainen, Hossein Shahrabi Farahani, Jens Lagergren:
Learning Bounded Tree-width Bayesian Networks using Integer Linear Programming. AISTATS 2014: 751-759 - 2013
- [j30]Joel Sjöstrand
, Lars Arvestad
, Jens Lagergren
, Bengt Sennblad:
GenPhyloData: realistic simulation of gene family evolution. BMC Bioinform. 14: 209 (2013) - [j29]Mehmood Alam Khan, Isaac Elias, Erik Sjölund, Kristina Nylander, Roman Valls Guimera, Richard Schobesberger, Peter Schmitzberger, Jens Lagergren
, Lars Arvestad
:
fastphylo: Fast tools for phylogenetics. BMC Bioinform. 14: 334 (2013) - [j28]Owais Mahmudi, Joel Sjöstrand
, Bengt Sennblad, Jens Lagergren
:
Genome-wide probabilistic reconciliation analysis across vertebrates. BMC Bioinform. 14(S-15): S10 (2013) - 2012
- [j27]Joel Sjöstrand
, Bengt Sennblad, Lars Arvestad
, Jens Lagergren
:
DLRS: gene tree evolution in light of a species tree. Bioinform. 28(22): 2994-2995 (2012) - 2011
- [j26]Ali Tofigh, Michael T. Hallett
, Jens Lagergren
:
Simultaneous Identification of Duplications and Lateral Gene Transfers. IEEE ACM Trans. Comput. Biol. Bioinform. 8(2): 517-535 (2011) - [c23]Ali Tofigh, Erik Sjölund, Mattias Höglund, Jens Lagergren:
A Global Structural EM Algorithm for a Model of Cancer Progression. NIPS 2011: 163-171 - 2010
- [j25]Mats Ensterö, Örjan Åkerborg
, Daniel Lundin
, Bei Wang, Terrence S. Furey, Marie Öhman
, Jens Lagergren
:
A computational screen for site selective A-to-I editing detects novel sites in neuron specific Hu proteins. BMC Bioinform. 11: 6 (2010)
2000 – 2009
- 2009
- [j24]Lars Arvestad
, Jens Lagergren, Bengt Sennblad:
The gene evolution model and computing its associated probabilities. J. ACM 56(2): 7:1-7:44 (2009) - [j23]Isaac Elias, Jens Lagergren:
Fast neighbor joining. Theor. Comput. Sci. 410(21-23): 1993-2000 (2009) - 2008
- [e2]Keith A. Crandall
, Jens Lagergren:
Algorithms in Bioinformatics, 8th International Workshop, WABI 2008, Karlsruhe, Germany, September 15-19, 2008. Proceedings. Lecture Notes in Computer Science 5251, Springer 2008, ISBN 978-3-540-87360-0 [contents] - 2007
- [j22]Isaac Elias, Jens Lagergren
:
Fast computation of distance estimators. BMC Bioinform. 8 (2007) - [j21]Bengt Sennblad, Eva Schreil, Ann-Charlotte Berglund Sonnhammer, Jens Lagergren
, Lars Arvestad
:
primetv: a viewer for reconciled trees. BMC Bioinform. 8 (2007) - [j20]Samuel A. Andersson, Jens Lagergren
:
Motif Yggdrasil: Sampling Sequence Motifs from a Tree Mixture Model. J. Comput. Biol. 14(5): 682-697 (2007) - 2006
- [j19]Marcus Hjelm, Mattias Höglund
, Jens Lagergren
:
New Probabilistic Network Models and Algorithms for Oncogenesis. J. Comput. Biol. 13(4): 853-865 (2006) - [j18]Örjan Svensson, Lars Arvestad
, Jens Lagergren
:
Genome-Wide Survey for Biologically Functional Pseudogenes. PLoS Comput. Biol. 2(5) (2006) - [j17]David Bryant, Jens Lagergren:
Compatibility of unrooted phylogenetic trees is FPT. Theor. Comput. Sci. 351(3): 296-302 (2006) - [c22]Samuel A. Andersson, Jens Lagergren:
Motif Yggdrasil: Sampling from a Tree Mixture Model. RECOMB 2006: 458-472 - 2005
- [c21]Isaac Elias, Jens Lagergren:
Fast Neighbor Joining. ICALP 2005: 1263-1274 - [e1]Jens Lagergren:
Comparative Genomics, RECOMB 2004 International Workshop, RCG 2004, Bertinoro, Italy, October 16-19, 2004, Revised Selected Papers. Lecture Notes in Computer Science 3388, Springer 2005, ISBN 3-540-24455-7 [contents] - 2004
- [j16]Louigi Addario-Berry, Benny Chor, Michael T. Hallett
, Jens Lagergren
, Alessandro Panconesi, Todd Wareham:
Ancestral Maximum Likelihood of Evolutionary Trees Is Hard. J. Bioinform. Comput. Biol. 2(2): 257-272 (2004) - [j15]Wynand Alkema
, Öjvind Johansson, Jens Lagergren
, Wyeth W. Wasserman
:
MSCAN: identification of functional clusters of transcription factor binding sites. Nucleic Acids Res. 32(Web-Server-Issue): 195-198 (2004) - [j14]Lars Ivansson, Jens Lagergren:
Algorithms for RH Mapping: New Ideas and Improved Analysis. SIAM J. Comput. 34(1): 89-108 (2004) - [c20]Lars Arvestad, Ann-Charlotte Berglund, Jens Lagergren, Bengt Sennblad:
Gene tree reconstruction and orthology analysis based on an integrated model for duplications and sequence evolution. RECOMB 2004: 326-335 - [c19]Michael T. Hallett
, Jens Lagergren, Ali Tofigh:
Simultaneous identification of duplications and lateral transfers. RECOMB 2004: 347-356 - 2003
- [j13]Johan Håstad
, Lars Ivansson, Jens Lagergren:
Fitting points on the real line and its application to RH mapping. J. Algorithms 49(1): 42-62 (2003) - [j12]David Fernández-Baca, Jens Lagergren:
A Polynomial-Time Algorithm for Near-Perfect Phylogeny. SIAM J. Comput. 32(5): 1115-1127 (2003) - [c18]Lars Arvestad, Ann-Charlotte Berglund, Jens Lagergren, Bengt Sennblad:
Bayesian gene/species tree reconciliation and orthology analysis using MCMC. ISMB (Supplement of Bioinformatics) 2003: 7-15 - [c17]Öjvind Johansson, Wynand Alkema, Wyeth W. Wasserman, Jens Lagergren:
Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm. ISMB (Supplement of Bioinformatics) 2003: 169-176 - [c16]Louigi Addario-Berry, Michael T. Hallett, Jens Lagergren:
Towards Identifying Lateral Gene Transfer Events. Pacific Symposium on Biocomputing 2003: 279-290 - [c15]Louigi Addario-Berry, Benny Chor, Michael T. Hallett
, Jens Lagergren, Alessandro Panconesi, Todd Wareham:
Ancestral Maximum Likelihood of Evolutionary Trees Is Hard. WABI 2003: 202-215 - 2002
- [j11]Jens Lagergren:
Combining polynomial running time and fast convergence for the disk-covering method. J. Comput. Syst. Sci. 65(3): 481-493 (2002) - 2001
- [c14]Michael T. Hallett
, Jens Lagergren:
Efficient algorithms for lateral gene transfer problems. RECOMB 2001: 149-156 - 2000
- [c13]Michael T. Hallett
, Jens Lagergren:
Hunting for Functionally Analogous Genes. FSTTCS 2000: 465-476 - [c12]Michael T. Hallett
, Jens Lagergren:
New algorithms for the duplication-loss model. RECOMB 2000: 138-146
1990 – 1999
- 1999
- [j10]Jens Lagergren, Peter Bro Miltersen:
Guest Editors' Foreword. Nord. J. Comput. 6(2): 135-136 (1999) - 1998
- [j9]David Fernández-Baca, Jens Lagergren:
On the Approximability of the Steiner Tree Problem in Phylogeny. Discret. Appl. Math. 88(1-3): 129-145 (1998) - [j8]Viggo Kann, Jens Lagergren, Alessandro Panconesi:
Approximate Max k-Cut with Subgraph Guarantee. Inf. Process. Lett. 65(3): 145-150 (1998) - [j7]Jens Lagergren:
Upper Bounds on the Size of Obstructions and Intertwines. J. Comb. Theory B 73(1): 7-40 (1998) - [c11]Johan Håstad, Lars Ivansson, Jens Lagergren:
Fitting Points on the Real Line and Its Application to RH Mapping. ESA 1998: 465-476 - 1997
- [j6]Viggo Kann, Sanjeev Khanna, Jens Lagergren, Alessandro Panconesi:
On the Hardness of Approximating Max k-Cut and its Dual. Chic. J. Theor. Comput. Sci. 1997 (1997) - 1996
- [j5]Viggo Kann, Jens Lagergren, Alessandro Panconesi:
Approximability of Maximum Splitting of k-Sets and Some Other Apx-Complete Problems. Inf. Process. Lett. 58(3): 105-110 (1996) - [j4]Jens Lagergren:
Efficient Parallel Algorithms for Graphs of Bounded Tree-Width. J. Algorithms 20(1): 20-44 (1996) - [j3]Bruno Courcelle, Jens Lagergren:
Equivalent Definitions of Recognizability for Sets of Graphs of Bounded Tree-Width. Math. Struct. Comput. Sci. 6(2): 141-165 (1996) - [c10]David Fernández-Baca, Jens Lagergren:
A Polynomial-Time Algorithm for Near-Perfect Phylogeny. ICALP 1996: 670-680 - [c9]David Fernández-Baca, Jens Lagergren:
On the Approximability of the Steiner Tree Problem in Phylogeny. ISAAC 1996: 65-74 - [c8]Viggo Kann, Sanjeev Khanna, Jens Lagergren, Alessandro Panconesi:
On the Hardness of Approximating Max k-Cut and Its Dual. ISTCS 1996: 61-67 - [c7]Jens Lagergren:
Hypothesis Testing in Perfect Phylogeny for a Bounded Number of Characters. STACS 1996: 605-616 - 1994
- [j2]Jens Lagergren:
The Nonexistence of Reduction Rules Giving an Embedding into a K-tree. Discret. Appl. Math. 54(2-3): 219-223 (1994) - [c6]Jens Lagergren:
The Size of an Interwine. ICALP 1994: 520-531 - 1993
- [c5]Bruno Courcelle, Jens Lagergren:
Recognizable Sets of Graphs of Bounded Tree-Width. Dagstuhl Seminar on Graph Transformations in Computer Science 1993: 138-152 - 1991
- [j1]Stefan Arnborg, Jens Lagergren, Detlef Seese:
Easy Problems for Tree-Decomposable Graphs. J. Algorithms 12(2): 308-340 (1991) - [c4]Jens Lagergren:
An upper bound on the size of an obstruction. Graph Structure Theory 1991: 601-621 - [c3]Jens Lagergren, Stefan Arnborg:
Finding Minimal Forbidden Minors Using a Finite Congruence. ICALP 1991: 532-543 - 1990
- [c2]Jens Lagergren:
Efficient Parallel Algorithms for Tree-Decomposition and Related Problems. FOCS 1990: 173-182
1980 – 1989
- 1988
- [c1]Stefan Arnborg, Jens Lagergren, Detlef Seese:
Problems Easy for Tree-Decomposable Graphs (Extended Abstract). ICALP 1988: 38-51
Coauthor Index
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last updated on 2024-07-09 21:12 CEST by the dblp team
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