Note: All my publications can also be found on Google Scholar
Tracking human population structure through time from whole genome sequences. PLOS Genetics. Published March 9, 2020.
Authors: Ke Wang, Iain Mathieson, Jared O’Connell, Stephan Schiffels
This paper describes our new method MSMC-IM, which can analyse migration rates and population structure through time from complete genome sequences. The method can be thought of as an extension to the MSMC method that we published in 2014.
Kinship-Based Social Inequality in Bronze Age Europe. Science. Published October 10, 2019.
Authors: Alissa Mittnik, Ken Massy, Corina Knipper, Fabian Wittenborn, Saskia Pfrengle, Nadine Carlichi-Witjes, Heidi Deeg, Anja Furtwängler, Michaela Harbeck, Kristin von Heyking, Catharina Kociumaka, Isil Kucukkalipci, Susanne Lindauer, Stephanie Metz, Anja Staskiewicz, Andreas Thiel, Joachim Wahl, Wolfgang Haak, Ernst Pernicka, Stephan Schiffels, Philipp W. Stockhammer, and Johannes Krause
This is an interdisciplinary paper which combines archaeology and genetics to a investigate social structure and ancestry in a microregion (the Southern German Lech-valley) during the Early Bronze Age. We analysed over 100 individuals genetically and based on isotopes and could reconstruct several large family pedigrees, up to five generations. We give insights into patterns of patrilocality and rules of inheritance of status.
Palaeo-Eskimo genetic ancestry and the peopling of Chukotka and North America. Nature. Published June 5, 2019.
Authors: P Flegontov, NE Altinisik, P Changmai, N Rohland, S Mallick, N Adamski, DA Bolnick, N Broomandkhoshbacht, F Candilio, BJ Culleton, O Flegontova, TM Friesen, C Jeong, TK Harper, D Keating, DJ Kennett, AM Kim, TC Lamnidis, AM Lawson, I Olalde, J Oppenheimer, B Potter, J Raff, RA Sattler, P Skoglund, K Stewardson, EJ Vajda, S Vasilyev, E Veselovskaya, MG Hayes, DH O'Rourke, J Krause, R Pinhasi, D Reich, S Schiffels
This is a big paper in which we summarise more than three years of work on the peopling history of North America. We analysed 48 ancient genomes, including three prehistoric Athabaskan individuals from Alaska, and find that those individuals as well as extant Athabaskans inherit a large proportion of their ancestry from so-called Paleo-Eskimos. We modelled this ancestry and its relationship to other North-American and Northeast-Asian human groups, and show how the Paleo-Eskimo migration shaped human ancestry throughout the American Arctic until today. I wrote a blog post about this work here
Ancient Fennoscandian genomes reveal origin and spread of Siberian ancestry in Europe. Nature Communications. Published November 27, 2018.
Authors: Thiseas C Lamnidis, Kerttu Majander, Choongwon Jeong, Elina Salmela, Anna Wessman, Vyacheslav Moiseyev, Valery Khartanovich, Oleg Balanovsky, Matthias Ongyerth, Antje Weihmann, Antti Sajantila, Janet Kelso, Svante Pääbo, Päivi Onkamo, Wolfgang Haak, Johannes Krause, Stephan Schiffels. Nature Communications.
In this paper, we characterise Northern European ancestry with ancient samples from Finland and Russia. We identified a genetic component that must have come into the region more than 3500 years ago, and which is present today in Saami, Fins and many other groups, primarily speaking Finno-Ugric, Saamic or other so-called Uralic languages.
Investigating Anglo-Saxon migration history with ancient and modern DNA. Tagungen Des Landesmuseums Für Vorgeschichte Halle. Published October 18, 2017.
In this article we co-analyse all ancient British individuals for which genome-wide data was published in 2016, which also serves as a review of what we learned about the Anglo-Saxon migration period from Genetics at this point.
Iron Age and Anglo-Saxon genomes from East England reveal British migration history. Nature Communications. Published January 19, 2016.
Authors: Stephan Schiffels, Wolfgang Haak, Pirita Paajanen, Bastien Llamas, Elizabeth Popescu, Louise Loe, Rachel Clarke, Alice Lyons, Richard Mortimer, Duncan Sayer, Chris Tyler-Smith, Alan Cooper & Richard Durbin
This was the first paper to publish ancient genomes from Great Britain. We developed a new method, rarecoal, to analyse rare genetic variation to infer genetic ancestry with higher resolution than before. We could show that during the Anglo-Saxon migration period in England, continental European ancestry increased, as seen through an increased allele sharing with present-day Dutch and Danish people.
Genomic evidence for the Pleistocene and recent population history of Native Americans. Science. Published August 21, 2015.
Authors: Maanasa Raghavan, Matthias Steinrücken, Kelley Harris, Stephan Schiffels, Simon Rasmussen, Michael DeGiorgio, Anders Albrechtsen, Cristina Valdiosera, María C. Ávila-Arcos, Anna-Sapfo Malaspinas, Anders Eriksson, Ida Moltke, Mait Metspalu, Julian R. Homburger, Jeff Wall, Omar E. Cornejo, J. Víctor Moreno-Mayar, Thorfinn S. Korneliussen, Tracey Pierre, Morten Rasmussen, Paula F. Campos, Peter de Barros Damgaard, Morten E. Allentoft, John Lindo, Ene Metspalu, Ricardo Rodríguez-Varela, Josefina Mansilla, Celeste Henrickson, Andaine Seguin-Orlando, Helena Malmström, Thomas Stafford Jr., Suyash S. Shringarpure, Andrés Moreno-Estrada, Monika Karmin, Kristiina Tambets, Anders Bergström, Yali Xue, Vera Warmuth, Andrew D. Friend, Joy Singarayer, Paul Valdes, Francois Balloux, Ilán Leboreiro, Jose Luis Vera, Hector Rangel-Villalobos, Davide Pettener, Donata Luiselli, Loren G. Davis, Evelyne Heyer, Christoph P. E. Zollikofer, Marcia S. Ponce de León, Colin I. Smith, Vaughan Grimes, Kelly-Anne Pike, Michael Deal, Benjamin T. Fuller, Bernardo Arriaza, Vivien Standen, Maria F. Luz, Francois Ricaut, Niede Guidon, Ludmila Osipova, Mikhail I. Voevoda, Olga L. Posukh, Oleg Balanovsky, Maria Lavryashina, Yuri Bogunov, Elza Khusnutdinova, Marina Gubina, Elena Balanovska, Sardana Fedorova, Sergey Litvinov, Boris Malyarchuk, Miroslava Derenko, M. J. Mosher, David Archer, Jerome Cybulski, Barbara Petzelt, Joycelynn Mitchell, Rosita Worl, Paul J. Norman, Peter Parham, Brian M. Kemp, Toomas Kivisild, Chris Tyler-Smith, Manjinder S. Sandhu, Michael Crawford, Richard Villems, David Glenn Smith, Michael R. Waters, Ted Goebel, John R. Johnson, Ripan S. Malhi, Mattias Jakobsson, David J. Meltzer, Andrea Manica, Richard Durbin, Carlos D. Bustamante, Yun S. Song, Rasmus Nielsen, and Eske Willerslev
Inferring human population size and separation history from multiple genome sequences. Nature Genetics. Published June 22, 2014.
In this paper we describe MSMC, a new method to analyse past population sizes and separation processes from complete genome sequences. Since publication, it has become a widely used method, and this paper has been cited over 400 times (source: Google Scholar).
Emergent Neutrality in Adaptive Asexual Evolution. Genetics. Published December 1, 2011.
Authors: S Schiffels, GJ Szöllősi, V Mustonen, M Lässig
I wrote this paper during my PhD at the University of Cologne. It describes a theoretical investigation of a phenomenon we termed emergent neutrality, which occurs in adaptive evolutionary systems with finite recombination.