| 2024 | AISTATS | Benefits of Non-Linear Scale Parameterizations in Black Box Variational Inference through Smoothness Results and Gradient Variance Bounds. | Alexandra Maria Hotti, Lennart Alexander Van der Goten, Jens Lagergren |
| 2024 | AISTATS | Variational Resampling. | Oskar Kviman, Nicola Branchini, Vctor Elvira, Jens Lagergren |
| 2024 | ICML | Efficient Mixture Learning in Black-Box Variational Inference. | Alexandra Hotti, Oskar Kviman, Ricky Moln, Vctor Elvira, Jens Lagergren |
| 2024 | ICML | Indirectly Parameterized Concrete Autoencoders. | Alfred Nilsson, Klas Wijk, Sai Bharath Chandra Gutha, Erik Englesson, Alexandra Hotti, Carlo Saccardi, Oskar Kviman, Jens Lagergren, Ricardo Vinuesa, Hossein Azizpour |
| 2024 | RECOMB | VICTree - A Variational Inference Method for Clonal Tree Reconstruction. | Harald Melin, Vittorio Zampinetti, Andrew McPherson, Jens Lagergren |
| 2023 | ICML | Cooperation in the Latent Space: The Benefits of Adding Mixture Components in Variational Autoencoders. | Oskar Kviman, Ricky Moln, Alexandra Hotti, Semih Kurt, Vctor Elvira, Jens Lagergren |
| 2022 | AISTATS | Multiple Importance Sampling ELBO and Deep Ensembles of Variational Approximations. | Oskar Kviman, Harald Melin, Hazal Koptagel, Victor Elvira, Jens Lagergren |
| 2014 | AISTATS | Learning Bounded Tree-width Bayesian Networks using Integer Linear Programming. | Pekka Parviainen, Hossein Shahrabi Farahani, Jens Lagergren |
| 2006 | RECOMB | Motif Yggdrasil: Sampling from a Tree Mixture Model. | Samuel A. Andersson, Jens Lagergren |
| 2005 | ICALP | Fast Neighbor Joining. | Isaac Elias, Jens Lagergren |
| 2004 | RECOMB | Gene tree reconstruction and orthology analysis based on an integrated model for duplications and sequence evolution. | Lars Arvestad, Ann-Charlotte Berglund, Jens Lagergren, Bengt Sennblad |
| 2004 | RECOMB | Simultaneous identification of duplications and lateral transfers. | Michael T. Hallett, Jens Lagergren, Ali Tofigh |
| 2003 | ISMB | Bayesian gene/species tree reconciliation and orthology analysis using MCMC. | Lars Arvestad, Ann-Charlotte Berglund, Jens Lagergren, Bengt Sennblad |
| 2003 | ISMB | Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm. | jvind Johansson, Wynand Alkema, Wyeth W. Wasserman, Jens Lagergren |
| 2003 | PSB | Towards Identifying Lateral Gene Transfer Events. | Louigi Addario-Berry, Michael T. Hallett, Jens Lagergren |
| 2003 | WABI | Ancestral Maximum Likelihood of Evolutionary Trees Is Hard. | Louigi Addario-Berry, Benny Chor, Michael T. Hallett, Jens Lagergren, Alessandro Panconesi, Todd Wareham |
| 2001 | RECOMB | Efficient algorithms for lateral gene transfer problems. | Michael T. Hallett, Jens Lagergren |
| 2000 | RECOMB | New algorithms for the duplication-loss model. | Michael T. Hallett, Jens Lagergren |
| 1998 | ESA | Fitting Points on the Real Line and Its Application to RH Mapping. | Johan Hstad, Lars Ivansson, Jens Lagergren |
| 1996 | ICALP | A Polynomial-Time Algorithm for Near-Perfect Phylogeny. | David Fernndez-Baca, Jens Lagergren |
| 1996 | ISAAC | On the Approximability of the Steiner Tree Problem in Phylogeny. | David Fernndez-Baca, Jens Lagergren |
| 1996 | STACS | Hypothesis Testing in Perfect Phylogeny for a Bounded Number of Characters. | Jens Lagergren |
| 1994 | ICALP | The Size of an Interwine. | Jens Lagergren |
| 1991 | ICALP | Finding Minimal Forbidden Minors Using a Finite Congruence. | Jens Lagergren, Stefan Arnborg |
| 1990 | FOCS | Efficient Parallel Algorithms for Tree-Decomposition and Related Problems | Jens Lagergren |
| 1988 | ICALP | Problems Easy for Tree-Decomposable Graphs (Extended Abstract). | Stefan Arnborg, Jens Lagergren, Detlef Seese |