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Modern and Ancient Genomes Group - Research
Modern and Ancient Genomes Group

Research

Our research interest is to computational methods applied to ancient DNA, sedimentary DNA, ancient microbes, low-coverage DNA, haplotypes and allele frequencies. We mostly use pangenomic graphs, Bayesian inference. We also collaborate closely with groups that produce empirical data.

Here are some publications from the group along with software that is being actively supported by the lab.

2024

Louis Kraft, Johannes Soeding, Martin Steinegger, Annika Jochheim, Antonio Fernandez-Guerra, Gabriel Renaud
Cold Spring Harbor Laboratory  ·  03 Aug 2024
Joshua Daniel Rubin, Jan van Waaij, Louis M Kraft, Jouni Sirén, Peter Wad Sackett, Gabriel Renaud
Cold Spring Harbor Laboratory  ·  02 Aug 2024
Mikkel Spallou Eriksen, Gabriel Renaud
Cold Spring Harbor Laboratory  ·  01 Aug 2024
Pablo Librado, Gaetan Tressières, Lorelei Chauvey, Antoine Fages, Naveed Khan, Stéphanie Schiavinato, Laure Calvière-Tonasso, Mariya A Kusliy, Charleen Gaunitz, Xuexue Liu, Stefanie Wagner, Clio Der Sarkissian, Andaine Seguin-Orlando, Aude Perdereau, Jean-Marc Aury, John Southon, Beth Shapiro, Olivier Bouchez, Cécile Donnadieu, Yvette Running Horse Collin, Kristian M Gregersen, Mads Dengsø Jessen, Kirsten Christensen, Lone Claudi-Hansen, Mélanie Pruvost, Erich Pucher, Hrvoje Vulic, Mario Novak, Andrea Rimpf, Peter Turk, Simone Reiter, Gottfried Brem, Christoph Schwall, Éric Barrey, Céline Robert, Christophe Degueurce, Liora Kolska Horwitz, Lutz Klassen, Uffe Rasmussen, Jacob Kveiborg, Niels Nørkjær Johannsen, Daniel Makowiecki, Przemysław Makarowicz, Marcin Szeliga, Vasyl Ilchyshyn, Vitalii Rud, Jan Romaniszyn, Victoria E Mullin, Marta Verdugo, Daniel G Bradley, João L Cardoso, Maria J Valente, Miguel Telles Antunes, Carly Ameen, Richard Thomas, Arne Ludwig, Matilde Marzullo, Ornella Prato, Giovanna Bagnasco Gianni, Umberto Tecchiati, José Granado, Angela Schlumbaum, Sabine Deschler-Erb, Monika Schernig Mráz, Nicolas Boulbes, Armelle Gardeisen, Christian Mayer, Hans-Jürgen Döhle, Magdolna Vicze, Pavel A Kosintsev, René Kyselý, Lubomı́r Peške, Terry O’Connor, Elina Ananyevskaya, Irina Shevnina, Andrey Logvin, Alexey A Kovalev, Tumur-Ochir Iderkhangai, Mikhail V Sablin, Petr K Dashkovskiy, Alexander S Graphodatsky, Ilia Merts, Viktor Merts, Aleksei K Kasparov, Vladimir V Pitulko, Vedat Onar, Aliye Öztan, Benjamin S Arbuckle, Hugh McColl, Gabriel Renaud, Ruslan Khaskhanov, others
Nature Publishing Group UK London  ·  01 Jun 2024
Morten E. Allentoft, Martin Sikora, Anders Fischer, Karl-Göran Sjögren, Andrés Ingason, Ruairidh Macleod, Anders Rosengren, Bettina Schulz Paulsson, Marie Louise Schjellerup Jørkov, Maria Novosolov, Jesper Stenderup, T. Douglas Price, Morten Fischer Mortensen, Anne Birgitte Nielsen, Mikkel Ulfeldt Hede, Lasse Sørensen, Poul Otto Nielsen, Peter Rasmussen, Theis Zetner Trolle Jensen, Alba Refoyo-Martínez, Evan K. Irving-Pease, William Barrie, Alice Pearson, Bárbara Sousa da Mota, Fabrice Demeter, Rasmus A. Henriksen, Tharsika Vimala, Hugh McColl, Andrew Vaughn, Lasse Vinner, Gabriel Renaud, Aaron Stern, others
Nature  ·  18 Jan 2024
Morten E. Allentoft, Martin Sikora, Alba Refoyo-Martínez, Evan K. Irving-Pease, Anders Fischer, William Barrie, Andrés Ingason, Jesper Stenderup, Karl-Göran Sjögren, Alice Pearson, Bárbara Sousa da Mota, Bettina Schulz Paulsson, Alma Halgren, Ruairidh Macleod, Marie Louise Schjellerup Jørkov, Fabrice Demeter, Lasse Sørensen, Poul Otto Nielsen, Rasmus A. Henriksen, Tharsika Vimala, Hugh McColl, Ashot Margaryan, Melissa Ilardo, Andrew Vaughn, Morten Fischer Mortensen, Anne Birgitte Nielsen, Mikkel Ulfeldt Hede, Niels Nørkjær Johannsen, Peter Rasmussen, Lasse Vinner, Gabriel Renaud, Aaron Stern, others
Nature  ·  18 Jan 2024

2023

Annette Lien, Leonardo Pestana Legori, Louis Kraft, Peter Wad Sackett, Gabriel Renaud
Frontiers in Bioinformatics  ·  07 Dec 2023
Marcela Sandoval-Velasco, Anuradha Jagadeesan, Jazmín Ramos-Madrigal, María C Ávila-Arcos, Cesar A Fortes-Lima, Judy Watson, Erna Johannesdóttir, Diana I Cruz-Dávalos, Shyam Gopalakrishnan, J Víctor Moreno-Mayar, others
The American Journal of Human Genetics  ·  05 Nov 2023
Nicola Alexandra Vogel, Joshua Daniel Rubin, Mikkel Swartz, Juliette Vlieghe, Peter Wad Sackett, Anders Gorm Pedersen, Mikkel Winther Pedersen, Gabriel Renaud
Methods in Ecology and Evolution  ·  23 Sep 2023
Harold P Hodgins, Pengsheng Chen, Briallen Lobb, Xin Wei, Benjamin JM Tremblay, Michael J Mansfield, Victoria CY Lee, Pyung-Gang Lee, Jeffrey Coffin, Ana T Duggan, others
Nature Communications  ·  06 Sep 2023
Isabel Díaz-Pinés Cort, Joshua Daniel Rubin, Peter Wad Sackett, Gabriel Renaud
bioRxiv  ·  24 Jun 2023
Joshua Daniel Rubin, Nicola Alexandra Vogel, Shyam Gopalakrishnan, Peter Wad Sackett, Gabriel Renaud
PLOS Computational Biology  ·  07 Jun 2023

2022

Gabriel Renaud, Maibritt Nørgaard, Johan Lindberg, Henrik Grönberg, Bram De Laere, Jørgen Bjerggaard Jensen, Michael Borre, Claus Lindbjerg Andersen, Karina Dalsgaard Sørensen, Lasse Maretty, and others
eLife  ·  27 Jul 2022
Morten E. Allentoft, Martin Sikora, Alba Refoyo-Martı́nez, Evan K. Irving-Pease, Anders Fischer, William Barrie, Andrés Ingason, Jesper Stenderup, Karl-Göran Sjögren, Alice Pearson, Barbara Mota, Bettina Schulz Paulsson, Alma Halgren, Ruairidh Macleod, Marie Louise Schjellerup Jørkov, Fabrice Demeter, Maria Novosolov, Lasse Sørensen, Poul-Otto Nielsen, Rasmus H.A. Henriksen, Tharsika Vimala, Hugh McColl, Ashot Margaryan, Melissa Ilardo, Andrew Vaughn, Morten Fischer Mortensen, Anne Birgitte Nielsen, Mikkel Ulfeldt Hede, Peter Rasmussen, Lasse Vinner, Gabriel Renaud, Aaron Stern, and others
bioRxiv  ·  05 May 2022
Nikolas Hallberg Thuesen, Michael Schantz Klausen, Shyam Gopalakrishnan, Thomas Trolle, Gabriel Renaud
Frontiers in Immunology  ·  08 Nov 2022
Harold P Hodgins, Pengsheng Chen, Briallen Lobb, Benjamin JM Tremblay, Michael J Mansfield, Victoria CY Lee, Pyung-Gang Lee, Jeffrey Coffin, Xin Wei, Ana T Duggan, Alexis E Dolphin, Gabriel Renaud, Min Dong, Doxey Andrew C
bioRxiv  ·  30 Jun 2022

2020

Ashot Margaryan, Daniel J Lawson, Martin Sikora, Fernando Racimo, Simon Rasmussen, Ida Moltke, Lara M Cassidy, Emil Jørsboe, Andrés Ingason, Mikkel W Pedersen, Thorfinn Korneliussen, Helene Wilhelmson, Magdalena Buś, Peter Barros Damgaard, Rui Martiniano, Gabriel Renaud, Claude Bhérer, J. Vı́ctor Moreno-Mayar, and others
Nature  ·  16 Sep 2020

2019

J Vı́ctor Moreno-Mayar, Thorfinn Sand Korneliussen, Jyoti Dalal, Gabriel Renaud, Anders Albrechtsen, Rasmus Nielsen, Anna-Sapfo Malaspinas
Bioinformatics  ·  26 Aug 2019
Gabriel Renaud, Kristian Hanghøj, Thorfinn Sand Korneliussen, Eske Willerslev, Ludovic Orlando
Genetics  ·  01 Jul 2019

2017

2016

Gabriel Renaud, Kristian Hanghøj, Eske Willerslev, Ludovic Orlando
Bioinformatics  ·  21 Nov 2016
Gabriel Renaud*, Fernando Racimo*, Montgomery Slatkin
PLoS Genetics  ·  06 Apr 2016

2015

Gabriel Renaud, Viviane Slon, Ana T. Duggan, Janet Kelso
Genome Biology  ·  12 Oct 2015
Gabriel Renaud, Udo Stenzel, Tomislav Maricic, Victor Wiebe, Janet Kelso
Bioinformatics  ·  01 Mar 2015

2014

Gabriel Renaud, Udo Stenzel, Janet Kelso
Nucleic Acids Research  ·  13 Oct 2014