Journal articles

• Schlichta N, Peischl S & Excoffier L (2022) The impact of genetic surfing on neutral genomic diversity. Molecular Biology and Evolution 39: msac249 [Abstract and pdf]
• Johri P, Aquadro CF, Beaumont M, Charlesworth B, Excoffier L, Eyre-Walker A, Keightley PD, Lynch M, McVean G, Payseur BA, Pfeifer SP, Stephan W & Jensen JD (2022) Recommendations for improving statistical inference in population genomics. PLoS Biology 20: e3001669 [Abstract and pdf]
• Marchi N, Winkelbach L, Schulz I, Brami M, Hofmanova Z, Blocher J, Reyna-Blanco CS, Diekmann Y, Thiery A, Kapopoulou A, Link V & et al. (2022) The genomic origins of the world’s first farmers. Cell 185: 1842–1859 [Abstract and pdf]
• Moinet A, Schlichta F, Peischl S & Excoffier L (2022) Strong neutral sweeps occurring during a population contraction. Genetics 220: 1-10 [Abstract and pdf]
• Excoffier L, Marchi N, Marques DA, Matthey-Doret R, Gouy A & Sousa VC (2021) fastsimcoal2: demographic inference under complex evolutionary scenarios. Bioinformatics 37: 4882-4885 [Abstract and pdf]
• Foote AD, Hooper R, Alexander A, Baird RW, Baker CS, Ballance L, Barlow J, Brownlow A, Collins T, Constantine R, Dalla Rosa L & et al. (2021) Runs of homozygosity in killer whale genomes provide a global record of demographic histories. Molecular Ecology 30: 6162–6177 [Abstract and pdf]
• Moinet A, Peischl S & Excoffier L (2021) Strong neutral sweeps occurring during a population contraction. bioRxiv [Abstract]
• Foote AD, Gilbert MTP, Gopalakrishnan S, Louis M, Martin MD, Morin PA, Nykänen M, Scharff-Olsen CH & Excoffier L (2021) Evidence of long-term purging of mutation load in killer whale genomes. bioRxiv [Abstract and pdf]
• Johri P, Riall K, Becher H, Excoffier L, Charlesworth B & Jensen JD (2021) The Impact of Purifying and Background Selection on the Inference of Population History: Problems and Prospects. Molecular Biology and Evolution 38: 2986-3003 [Abstract and pdf]
• Choin J, Mendoza-Revilla J, Arauna LR, Cuadros-Espinoza S, Cassar O, Larena M, Ko AM-S, Harmant C, Laurent R, Verdu P Laval G, Boland A, Olaso R, Deleuze J-F, Valentin F, Ko Y-C, Jakobsson M, Gessain A, Excoffier L, Stoneking M, Patin E & Quintana-Murci L (2021) Genomic insights into population history and biological adaptation in Oceania. Nature 592: 583–589 [Abstract and pdf]
• Armstrong EE, Khan A, Taylor RW, Gouy A, Greenbaum G, Thiéry A, Kang JTL, Redondo SA, Prost S, Barsh G, Kaelin C, Phalke S, Chugani A, Gilbert M, Miquelle D, Zachariah A, Borthakur U, Reddy A, Louis E, Ryder OA, Jhala YV, Petrov D, Excoffier L, Hadly E & and Ramakrishnan U (2021) Recent evolutionary history of tigers highlights contrasting roles of genetic drift and selection. Molecular Biology and Evolution 38: 2366-2379 [Abstract and pdf]
• Marques D, Lucek K, Sousa VC, Excoffier L & Seehausen O (2021) Reply to “Re-evaluating the evidence for facilitation of stickleback speciation by admixture in the Lake Constance basin”. Nature Communications 12: 2807 [Abstract and pdf]
• Yilmaz B, Mooser C, Keller I, Li H, Zimmermann J, Bosshard L, Fuhrer T, Gomez de Agüero M, Trigo NF, Tschanz-Lischer H, Limenitakis JP, Hardt W-D, McCoy KD, Stecher B, Excoffier L, Sauer U, Ganal-Vonarburg SC & Macpherson AJ (2021) Long-term evolution and short-term adaptation of microbiota strains and sub-strains in mice. Cell Host & Microbe 29: 650-663 [Abstract and pdf]
• Marchi N, Schlichta F & Excoffier L (2021) Demographic inference. Current Biology 31: R267–R281 [Abstract and pdf]
• McGee MD, Borstein SR, Meier JM, Marques DA, Mwaiko S, Taabu A, Kishe MA, OMeara B, Bruggmann R, Excoffier L & Seehausen O (2020) The ecological and genomic basis of explosive adaptive radiation. Nature 86: 75–79 [Abstract and pdf]
• Marchi N & Excoffier L (2020) Gene flow as a simple cause for an excess of high‐frequency‐derived alleles Evolutionary Applications 13: 2254-2263 [Abstract and pdf]
• Gouy A & Excoffier L (2020) Polygenic patterns of adaptive introgression in modern humans are mainly shaped by response to pathogens. Molecular Biology and Evolution 37: 1420-1433 [Abstract and pdf]
• Bosshard L, Peischl S, Ackermann M & Excoffier L (2020) Dissection of the mutation accumulation process during bacterial range expansions. BMC Genomics 21: 253 [Abstract and pdf]
• Gilbert KJ, Pouyet F, Excoffier L & Peischl S (2020) Transition from Background Selection to Associative Overdominance Promotes Diversity in Regions of Low Recombination. Current Biology 30: 101-107 [Abstract and pdf]
• Bosshard L, Peischl S, Ackermann M & Excoffier L (2019) Mutational and selective processes involved in evolution during bacterial range expansions. Molecular Biology and Evolution 36: 2313-2327 [Abstract and pdf]
• Kuhlwilm M, Han S, Sousa VC, Excoffier L & Marques-Bonet T (2019) Ancient admixture from an extinct ape lineage into bonobos. Nature Ecology & Evolution 3: 957–965 [Abstract and pdf]
• Foote AD , Martin MD , Louis M, Pacheco G, Robertson KM , Sinding M-KH , Amaral AR , Baird RW , Baker CS , Ballance L, Barlow J & et al. (2019) Killer whale genomes reveal a complex history of recurrent admixture and vicariance. Molecular Ecology 28: 3427–3444 [pdf]
• Sikora M, Pitulko V, Sousa V, Allentoft ME, Vinner L, Rasmussen S, Margaryan A, de Barros Damgaard P, de la Fuente Castro C, Renaud G, Yang M & et al. (2019) The population history of northeastern Siberia since the Pleistocene. Nature 570: 182-188 [pdf]
• Currat M, Arenas M, S Quilodran CS, Excoffier L & Ray N (2019) SPLATCHE3: simulation of serial genetic data under spatially explicit evolutionary scenarios 5 including long-distance dispersal. Bioinformatics btz311 [Abstract and pdf]
• Gilbert KJ, Peischl S & Excoffier L (2018) Mutation load dynamics during environmentally-driven range shifts. PLoS Genetics 14(9): e1007450 [Abstract and pdf]
• Pouyet F*, Aeschbacher S*, Thiéry A & Excoffier L (2018) Background selection and biased gene conversion affect more than 95% of the human genome and bias demographic inferences. eLife 7: e36317 [Abstract and pdf]
• Meier JI, Marques DA, Wagner CE, Excoffier L & Seehausen O (2018) Genomics of Parallel Ecological Speciation in Lake Victoria Cichlids. Molecular Biology and Evolution 35: 1489-1506 [Abstract and pdf]
• Pfeifer SP, Laurent S, Sousa VC, Linnen CR, Foll M, Excoffier L, Hoekstra HE & Jensen JD (2018) The evolutionary history of Nebraska deer mice: local adaptation in the face of strong gene flow. Molecular Biology and Evolution 35: 792-806 [Abstract and pdf]
• Peischl S, Dupanloup I, Foucal A, Jomphe M, Bruat V, Grenier JC, Gouy A, Gilbert KJ, Gbeha E, Bosshard L, Hip-Ki E, Agbessi M, Hodgkinson A, Vezina H, Awadalla P & Excoffier L (2018) Relaxed Selection During a Recent Human Expansion. Genetics 208: 763-777 [Abstract and pdf]
• Popadin K, Peischl S, Garieri M, Sailani MR, Letourneau A, Santoni F, Lukowski SW, Bazykin GA, Nikolaev S, Meyer D, Excoffier L, Reymond A & Antonarakis SE (2018) Slightly deleterious genomic variants and transcriptome perturbations in Down syndrome embryonic selection. Genome Research 28: 1-10 [Abstract and pdf]
• Sikora Martin, Seguin-Orlando Andaine, Sousa Vitor C, Albrechtsen Anders, Korneliussen Thorfinn, Ko Amy, Rasmussen Simon, Dupanloup Isabelle, Nigst Philip R, Bosch Marjolein D, Renaud Gabriel, Allentoft Morten E, Margaryan Ashot, Vasilyev Sergey V, Veselovskaya Elizaveta V, Borutskaya Svetlana B, Deviese Thibaut, Comeskey Dan, Higham Tom, Manica Andrea, Foley Robert, Meltzer David J, Nielsen Rasmus, Excoffier Laurent, Lahr Marta Mirazon, Orlando Ludovic & Willerslev Eske (2017) Ancient genomes show social and reproductive behavior of early Upper Paleolithic foragers. Science 358: 659-662 [Abstract and pdf]
• Bosshard L, Dupanloup I, Tenaillon O, Bruggmann R, Ackermann M, Peischl S & Excoffier L (2017) Accumulation of deleterious mutations during bacterial range expansions. Genetics 207: 669-684 [Abstract and pdf]
• Gouy A, Daub JT & Excoffier L (2017) Detecting gene subnetworks under selection in biological pathways. Nucleic Acids Research 45(16): e149 [Abstract and pdf]
• Daub JT, Moretti S, Davydov II, Excoffier L & Robinson-Rechavi M (2017) Detection of pathways affected by positive selection in primate lineages ancestral to humans. Molecular Biology and Evolution 34: 1391-1402 [Abstract and pdf]
• Amorim CEG, Hofer T, Ray N, Foll M, Ruiz-Linares A & Excoffier L (2017) Long-distance dispersal suppresses introgression of local alleles during range expansions. Heredity 2: 135-142 [Abstract and pdf]
• Meier JI, Marques DA, Mwaiko S, Wagner CE, Excoffier L & Seehausen O (2017) Ancient hybridization fuels rapid cichlid fish adaptive radiations Nature Communications 8: 14363 [Abstract and pdf]
• Marques DA, Lucek K, Haesler MP, Feller AF, Meier JA, Wagner CE, Excoffier L & Seehausen O (2017) Genomic landscape of early ecological speciation initiated by selection on nuptial colour. Molecular Ecology 26: 7-24 [Abstract]
• Meier J, Sousa VC, Marques DA, Selz OM, Wagner CE, Excoffier L & Seehausen O (2017) Demographic modeling with whole genome data reveals parallel origin of similar Pundamilia cichlid species after hybridization. Molecular Ecology 26: 123–141 [Abstract and pdf]
• de Manuel M, Kuhlwilm M, Frandsen P, Sousa VC, Desai T, Prado-Martinez J, Hernandez-Rodriguez J, Dupanloup I, Lao O, Hallast P, Schmidt JM & et al. (2016) Chimpanzee genomic diversity reveals ancient admixture with bonobos. Science 354: 477-481 [Abstract and pdf]
• Malaspinas AS, Westaway MC, Muller C, Sousa VC, Lao O, Alves I, Bergstrom A, Athanasiadis G, Cheng JY, Crawford JE, Heupink TH & et al. (2016) A genomic history of Aboriginal Australia. Nature 538: 207-214 [Abstract and pdf]
• Peischl S, Dupanloup I, Bosshard L & Excoffier L (2016) Genetic surfing in human populations: from genes to genomes. Current Opinion in Genetics and Development 41: 53-61 [Abstract and pdf]
• Foote AD, Vijay N, Ávila-Arcos MC, Baird RW, Durban JW, Fumagalli M, Gibbs RA, Bradley Hanson M, Korneliussen TS, Martin MD, Robertson KM, Sousa VC, Vieira FG, Vinař T, Wade P, Worley KC, Excoffier L, Morin PA, Gilbert MTP & Wolf JBW (2016) Genome-culture coevolution promotes rapid divergence of killer whale ecotypes. Nature Communications 7: 11693 [Abstract and pdf]
• Henn BM, Botigue LR, Peischl S , Dupanloup I, Lipatov M , Maples BK , Martin AR , Musharoff S, Cann H , Snyder M , Excoffier L , Kidd JM & Bustamante CD (2016) Distance from Sub-Saharan Africa Predicts Mutational Load in Diverse Human Genomes. PNAS 113: E440-9 [Abstract and pdf]
• Alves I, Arenas M, Currat M, Sramkova Hanulova A, Sousa VC, Ray N & Excoffier L (2016) Long distance dispersal shaped patterns of human genetic diversity in Eurasia. Molecular Biology and Evolution 33: 946–958 [Abstract and pdf]
• Marques DA , Lucek K, Meier JI Mwaiko S Wagner CE , Excoffier L & Seehausen O (2016) Genomics of Rapid Incipient Speciation in Sympatric Threespine Stickleback. PLoS Genetics 12: e1005887 [Abstract and pdf]
• Botigue LR, Henn BM , Peischl S , Dupanloup I, Lipatov M , Maples BK , Martin AR , Yee MC, Cann H , Snyder M , Excoffier L , Kidd JM & Bustamante CD (2015) The Out of Africa expansion affected accumulation of deleterious alleles in human genomes. American Journal of Physical Anthropology 156: 90-91
• Daub JT, Dupanloup I Robinson-Rechavi M & Excoffier L (2015) Inference of evolutionary forces acting on human biological pathways. Genome Biology and Evolution 7: 1546–1558 [Abstract and pdf]
• Peischl S & Excoffier L (2015) Expansion load: recessive mutations and the role of standing genetic variation. Molecular Ecology 24: 2084-2094 [Abstract and pdf]
• Amorim CEG, Daub J, Salzano FM, Foll M & Excoffier L (2015) Detection of Convergent Genome-Wide Signals of Adaptation to Tropical Forests in Humans. PLoS One 10: e0121557 [Abstract and pdf]
• Peischl S, Kirkpatrick M & Excoffier L (2015) Expansion load and the evolutionary dynamics of a species range. American Naturalist 185: E81-E93 [Abstract and pdf]
• Schubert M, Jonsson H, Chang D, Der Sarkissian C, Ermini L, Ginolhac A, Albrechtsen A, Dupanloup I, Foucal A, Petersen B, Fumagalli M & et al. (2014) Prehistoric genomes reveal the genetic foundation and cost of horse domestication. Proceedings of the National Academy of Sciences, USA 111(52): E5661-9
• Perry GH, Foll M, Grenier JC, Patin E, Nedelec Y, Pacis A, Barakatt M, Gravel S, Xiang Zhou, Nsobya S, Excoffier L, Quintana-Murci L, Dominy NJ & Barreiro LB (2014) Adaptive, convergent origins of the pygmy phenotype in African rainforest hunter-gatherers. Proceedings of the National Academy of Sciences, USA 111: E3596-3603 [Abstract and pdf]
• Fischer MC, Foll M, Heckel G & Excoffier L (2014) Continental-Scale Footprint of Balancing and Positive Selection in a Small Rodent (Microtus arvalis) PLoS One 9: e112332 [Abstract and pdf]
• Foll M, Gaggiotti O, Daub JT, Vatsiou A & Excoffier L (2014) Widespread Signals of Convergent Adaptation to High Altitude in Asia and America. American Journal of Human Genetics 95: 394–407 [Abstract and pdf]
• Sousa V , Peischl S & Excoffier L (2014) Impact of range expansions on current human genomic diversity. Current Opinion in Genetics and Development 29: 22-30 [Abstract]
• Mona S, Ray N, Arenas M & Excoffier L (2014) Genetic consequences of habitat fragmentation during a range expansion. Heredity 112: 291-299 [Abstract and pdf]
• Lischer HEL, Excoffier L & Heckel G (2014) Ignoring heterozygous sites biases phylogenomic estimates of divergence times: implications for the evolutionary history of Microtus voles. Molecular Biology and Evolution 31: 817-831 [Abstract and pdf]
• Excoffier L, Dupanloup I, Huerta-Sanchez E, Sousa VC & Foll M (2013) Robust demographic inference from genomic and SNP data. PLOS Genetics 9: e1003905 [Abstract and pdf]
• Peischl S, Dupanloup I, Kirkpatrick M & Excoffier L (2013) On the accumulation of deleterious mutations during range expansions. Molecular Ecology 22: 5972-5982 [Abstract and pdf]
• Martinkova M, Barnett R, Cucchi T, Struchen R, Pascal M, Pascal M, Fischer MC, Higham T, Brace S, Ho SYW, Quere JP, OHiggins J, Excoffier L, Heckel G, Hoelzel AR, Dobney KM & Searle JB (2013) Divergent evolutionary processes associated with colonization of offshore islands. Molecular Ecology 22: 5205-5220 [Abstract and pdf]
• Daub JT, Hofer T, Cutivet E, Dupanloup I, Quintana-Murci L, Robinson-Rechavi M & Excoffier L (2013) Evidence for Polygenic Adaptation to Pathogens in the Human Genome Molecular Biology And Evolution 30 (7): 1544-1558 [Abstract]
• Arenas M, Francois O, Currat M, Ray N & Excoffier L (2013) Influence of Admixture and Paleolithic Range Contractions on Current European Diversity Gradients. Molecular Biology and Evolution 30: 57-61 [Abstract and pdf]
• Reich D, Patterson N, Campbell D, Tandon A, Mazieres S, Ray N, Parra MV, Rojas W, DuqueMesa N, Velez ID, Garcia L F & et al. (2012) Reconstructing Native American population history Nature 488 : 370-374 [Abstract and pdf]
• Kormann U, Gugerli F, Ray N, Excoffier L & Bollmann K (2012) Parsimony-based pedigree analysis and individual-based landscape genetics suggest topography to restrict dispersal and connectivity in the endangered capercaillie. Biological conservation 152: 241-252
• Widmer I, dal Grande F, Excoffier L, Holderegger R, Keller C, Mikryukov V S & Scheidegger C (2012) European phylogeography of the epiphytic lichen fungus Lobaria pulmonaria and its green algal symbiont. Molecular Ecology 21: 5827-5844 [Abstract and pdf]
• Pimenoff VN Laval G, Comas D, Palo JU, Gut I, Cann H, Excoffier L & Sajantila A (2012) Similarity in recombination rate and linkage disequilibrium at CYP2C and CYP2D cytochrome P450 gene regions among Europeans indicates signs of selection and no advantage of using tagSNPs in population isolates. Pharmacogenetics and Genomics 22: 846-857 [Abstract and pdf]
• Slatkin M & Excoffier L (2012) Serial Founder Effects During Range Expansion: A Spatial Analog of Genetic Drift. Genetics 191: 171-181 [Abstract and pdf]
• Alves I, Sramkova Hanulova A, Foll M & Excoffier L (2012) Genomic data reveals a complex making of humans. PLoS Genetics 8: e1002837 [Abstract and pdf]
• Caetano S, Currat M, Pennington RT, Prado D, Excoffier L & Naciri Y (2012) Recent colonization of the Galapagos by the tree Geoffroea spinosa Jacq. (Leguminosae). Molecular Ecology 21: 2743-2760 [Abstract and pdf]
• Hofer T, Foll M & Excoffier L (2012) Evolutionary Forces shaping genomic Islands of Population Differentiation in Humans. BMC Genomics 13: 107 [Abstract and pdf]
• Lischer HEL & Excoffier L (2012) PGDSpider: An automated data conversion tool for connecting population genetics and genomics programs. Bioinformatics 28 (2): 298-299 [Abstract and pdf]
• Arenas M, Ray N, Currat M & Excoffier L (2012) Consequences of Range Contractions and Range Shifts on Molecular Diversity. Molecular Biology and Evolution 29: 207-218 [Abstract and pdf]
• Moreau C, Bherer C, Vezina H, Jomphe M, Labuda D & Excoffier L (2011) Deep Human Genealogies Reveal a Selective Advantage to Be on an Expanding Wave Front. Science 334: 1148-1150 [Abstract and pdf]
• Currat M & Excoffier L (2011) Strong reproductive isolation between humans and Neanderthals inferred from observed patterns of introgression. Proceedings of the National Academy of Sciences USA 108: 15129-34 [Abstract and pdf]
• Excoffier L & Foll M (2011) fastsimcoal: a continuous-time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios. Bioinformatics 27: 1332-1334 [Abstract and pdf]
• Laurent S, Werzner A, Excoffier L & Stephan W (2011) Approximate Bayesian analysis of Drosophila melanogaster polymorphism data reveals a recent colonization of Southeast Asia. Molecular Biology and Evolution 28: 2041-2051 [Abstract and pdf]
• Bittner D, Cossins A R, Segner H, Excoffier L & Largiader CR (2011) Identification of Candidate Genes and Physiological Pathways Involved in Gonad Deformation in Whitefish (Coregonus spp.) from Lake Thun, Switzerland. Int. J. Environ. Res. Public Health 8 : 2706-2733 [Abstract and pdf]
• Fischer MC, Foll M, Excoffier L & Heckel G (2011) Enhanced AFLP genome scans detect local adaptation in high-altitude populations of a small rodent (Microtus arvalis). Molecular Ecology 20: 1450-1462 [Abstract and pdf]
• Ray N, Currat M, Foll M & Excoffier L (2010) SPLATCHE2: a spatially-explicit simulation framework for complex demography, genetic admixture and recombination. Bioinformatics 26: 2993-2994 [Abstract and pdf]
• Bittner D, Excoffier L & Largiader CR (2010) Patterns of morphological changes and hybridization between sympatric whitefish morphs (Coregonus spp.) in a Swiss lake: a role for eutrophication? . Molecular Ecology 19: 2152-2167 [Abstract and pdf]
• Estoup A, Baird SJE, Ray N, Currat M, Cornuet J-M, Santos F, Beaumont MA & Excoffier L (2010) Combining genetic, historical and geographical data to reconstruct the dynamics of bioinvasions: application to the cane toad Bufo marinus. Molecular Ecology Resources 10: 886-901 [Abstract]
• Yang NN, Mazieres S, Bravi C, Ray N: Wang S, Burley MW, Bedoya G, Rojas W, Parra MV, Molina JA, Gallo C, Poletti G, Hill K, Hurtado AM, Petzl-Erler ML, Tsuneto LT, Klitz W, Barrantes R, Llop E, Rothhammer F, Labuda D, Salzano FM, Bortolini MC, Excoffier L, Dugoujon JM & Ruiz-Linares A (2010) Contrasting Patterns of Nuclear and mtDNA Diversity in Native American Populations.. Annals of Human Genetics 6: 525-538 [Abstract and pdf]
• Henle K, Kunin W, Schweiger O, Schmeller D S, Grobelnik V, Matsinos Y, Pantis J, Penev L, Potts S G, Ring I, Simila J, Tzanopoulos J, van den Hove S, Baguette M, Clobert J, Excoffier L, Framstad E, Grodzinska-Jurczak M, Lengyel S, Marty P, Moilanen A, Porcher E, Storch D, Steffan-Dewenter I, Sykes M T, Zobel M & Settele J (2010) Securing the Conservation of Biodiversity across Administrative Levels and Spatial, Temporal, and Ecological Scales - Research Needs and Approaches of the SCALES Project. Gaia 19: 187-193 [Abstract]
• Ray N & Excoffier L (2010) A first step towards inferring levels of long-distance dispersal during past expansions. Molecular Ecology Resources 10: 902-914 [Abstract and pdf]
• Foll M, Fischer MC, Heckel G & Excoffier L (2010) Estimating population structure from AFLP amplification intensity. Molecular Ecology 19: 4638-4647 [Abstract and pdf]
• Peter BM, Wegmann D & Excoffier L (2010) Distinguishing between population bottleneck and population subdivision by a Bayesian model choice procedure. Molecular Ecology 19: 4648-4660 [Abstract and pdf]
• Fink S, Fischer MC, Excoffier L & Heckel G (2010) Genomic scans support repetitive continental colonization events during the rapid radiation of voles (Rodentia: Microtus): the utility of AFLPs versus mitochondrial and nuclear sequence markers. Systematic Biology 59: 548-572 [Abstract and pdf]
• Wegmann D & Excoffier L (2010) Bayesian Inference of the Demographic History of Chimpanzees. Molecular Biology and Evolution 27: 1425-35 [Abstract]
• Francois O, Currat M, Ray N, Han E, Excoffier L & Novembre J (2010) Principal Component Analysis under Population Genetic Models of Range Expansion and Admixture. Molecular Biology and Evolution 27: 1257-68 [Abstract]
• Wegmann D, Leuenberger C , Neuenschwander S & Excoffier L (2010) ABCtoolbox: a versatile toolkit for approximate Bayesian computations. BMC Bioinformatics 11: 116 [Abstract and pdf]
• Excoffier L & Lischer HEL (2010) Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Molecular Ecology Resources 10: 564-567 [Abstract and pdf]
• Ray N, Wegmann D, Fagundes NJR, Wang S, Ruiz-Linares A & Excoffier L (2010) A statistical evaluation of models for the initial settlement of the American continent emphasizes the importance of gene flow with Asia. Molecular Biology and Evolution 27: 337-345 [Abstract and pdf]
• Beaumont MA, Nielsen R, Robert C, Hey J, Gaggiotti O, Knowles L, Estoup A, Panchal M, Corander J, Hickerson M, Sisson SA, Fagundes N, Chikhi L, Beerli P, Vitalis R, Cornuet JM, Huelsenbeck J, Foll M, Yang Z, Rousset F, Balding D & Excoffier L (2010) In defence of model-based inference in phylogeography. Molecular Ecology 19: 436-446 [Abstract]
• Wegmann D, Leuenberger C & Excoffier L (2009) Efficient Approximate Bayesian Computation Coupled With Markov Chain Monte Carlo Without Likelihood. Genetics 182: 1207-1218 [Abstract and pdf]
• Poloni S, Naciri Y, Bucho R, Niba R , Kervaire B, Excoffier L, Langaney A & Sanchez-Mazas A (2009) Genetic Evidence for Complexity in Ethnic Differentiation and History in East Africa. Annals of Human Genetics 73: 582-600 [Abstract and pdf]
• Ray N & Excoffier L (2009) Inferring past demography using spatially-explicit population genetic models. Human Biology 81(2-3): 141-157 [Abstract and pdf]
• Excoffier L, Hofer T & Foll M (2009) Detecting loci under selection in a hierarchically structured population. Heredity 103: 285-298 [Abstract and pdf]
• Excoffier L, Foll M & Petit RJ (2009) Genetic Consequences of Range Expansions. Annual Review in Ecology, Evolution, and Systematics 40: 481-501 [Abstract and pdf]
• Makrythanasis P, Kapranov P, Bartoloni L, Reymond A, Deutsch S, Guigo R, Denoeud F, Drenkow J, Rossier C, Ariani F, Capra V, Excoffier L, Renieri A, Gingeras TR & Antonarakis SE (2009) Variation in Novel Exons (RACEfrags) of the MECP2 Gene in Rett Syndrome Patients and Controls. Human Mutations 9: E866 - E879 [Abstract and pdf]
• Petit RJ & Excoffier L (2009) Gene flow and species delimitation . Trends in Ecology and Evolution 24: 386-93 [Abstract and pdf]
• Soland-Reckeweg G, Heckel G, Neumann P & Fluri P & Excoffier L (2009) Gene flow in admixed populations and implications for the conservation of the Western honeybee, Apis mellifera. Journal of Insect Conservation 3: 317-328 [pdf]
• Hofer T, Ray N, Wegmann D & Excoffier L (2009) Large allele frequency differences between human continental groups are more likely to have occurred by drift during range expansions than by selection. Annals of Human Genetics 73: 95-108 [pdf]
• Wegmann D, Dupanloup I & Excoffier L (2008) Width of Gene Expression Profile Drives Alternative Splicing. PLoS ONE 3(10): e3587 [pdf]
• Giger T, Excoffier L, Amstutz U, Day P J, Champigneulle A, Hansen M M, Kelso J & Largiader C R (2008) Population transcriptomics of life-history variation in the genus Salmo. Molecular Ecology 17(13): 3095-3108 [Abstract and pdf]
• Currat M, Ruedi M, Petit RJ & Excoffier L (2008) The hidden side of invasions: massive introgression by local genes. Evolution 62(8): 1908-1920 [Abstract and pdf]
• Excoffier L & Ray N (2008) Surfing during population expansions promotes genetic revolutions and structuration. Trends in Ecology and Evolution 23(7): 347-351 [Abstract and pdf]
• Ruedi M, Walter S, Fischer MC, Scaravelli D, Excoffier L & Heckel G (2008) Italy as a major Ice Age refuge area for the bat Myotis myotis (Chiroptera: Vespertilionidae) in Europe. Molecular Ecology 17: 1801-1814 [Abstract and pdf]
• Wang S, Ray N, Rojas W, Parra M V, Bedoya G, Gallo C, Poletti G, Mazzotti G, Hill K, Hurtado A M, Camrena B, Nicolini H, Klitz W, Barrantes R, Molina J A, Freimer N, Bortolini M C, Salzano F M, Petzl-Erler M L, Tsuneto L T, Dipierri J E, Alfaro E L, Bailliet G, Bianchi N O, Llop E, Rothhammer F, Excoffier L & Ruiz-Linares A (2008) Geographic patterns of genome admixture in Latin American Mestizos. PLoS Genetics 4(3): e1000037 [Abstract and pdf]
• Neuenschwander S, Largiader CR, Ray N, Currat M, Vonlanthen P & Excoffier L (2008) Colonization history of the Swiss Rhine basin by the bullhead (Cottus gobio): Inference under a Bayesian spatially explicit framework. Molecular Ecology 17(3): 757-772 [Abstract and pdf]
• Fagundes N J R, Ray N, Beaumont M, Neuenschwander S, Salzano F M, Bonatto S L & Excoffier L (2008) Ancient lineages and assimilation: A reply to Garrigan and Hammer. Proceedings of the National Academy of Sciences USA 105: E4 [Abstract and pdf]
• Fink S, Excoffier L & Heckel G (2007) High variability and non-neutral evolution in the mammalian avpr1a gene. BMC Evolutionary Biology 7: 176 [Abstract and pdf]
• Fagundes N J R, Ray N, Beaumont M, Neuenschwander S, Salzano F M, Bonatto S L & Excoffier L (2007) Statistical evaluation of alternative models of human evolution. Proceedings of the National Academy of Sciences USA 104: 17614-17619 [Abstract]
• Vonlanthen P, Excoffier L, Bittner D & Persat H Neuenschwander S Largiader CR (2007) Genetic analysis of potential postglacial watershed crossing in central Europe by the bullhead (Cottus gobio L.). Molecular Ecology [Abstract]
• Pawlowski J , Fahrni J , Lecroq B , Longet D , Cornelius N, Excoffier L, Cedhagen T & Gooday AJ (2007) Bipolar gene flow in deep-sea benthic foraminifera. Molecular Ecology 16: 4089-4096 [Abstract and pdf]
• Schweizer M, Excoffier L & Heckel G (2007) Fine-scale genetic structure and dispersal patterns in the common vole Microtus arvalis. Molecular Ecology 16: 2463-2473 [Abstract and pdf]
• Giger T, Excoffier L, Day PJR, Champigneulle A, Hansen MM, Powell R & Largiader CR (2006) Life history shapes gene expression in salmonids. Current Biology 16: R281-R282 [Abstract and pdf]
• Wegmann D, Currat M & Excoffier L (2006) Molecular Diversity After A Range Expansion In Heterogeneous Environments. Genetics 174: 2009-2020 [Abstract and pdf]
• Fink S, Excoffier L & Heckel G (2006) Mammalian monogamy is not controlled by a single gene. Proceedings of the National Academy of Sciences USA 103: 10956-10960 [Abstract and pdf]
• Berthier P, Excoffier L & Ruedi M (2006) Recurrent replacement of mtDNA and cryptic hybridization between two sibling bat species Myotis myotis and Myotis blythii. Proceedings of the Royal Society B: Biological Sciences 273: 3101-3109 [Abstract]
• Excoffier L & Heckel G (2006) Computer programs for population genetics data analysis: a survival guide. Nature Reviews Genetics 7: 745-758 [Abstract]
• Excoffier L (2006) Neandertal Genetic Diversity: A Fresh Look from Old Samples. Current Biology 16(16): R650-R652 [Abstract]
• Klopfstein S, Currat M & Excoffier L (2006) The fate of mutations surfing on the wave of a range expansion. Mol. Biol. Evol. 23: 482-490 [Abstract and pdf]
• Currat M, Excoffier L, Maddison W, Otto SP, Ray N, Whitlock MC & Yeaman S (2006) Comment on 'Ongoing Adaptive Evolution of ASPM, a Brain Size Determinant in Homo sapiens' and 'Microcephalin, a Gene Regulating Brain Size, Continues to Evolve Adaptively in Humans'. Science 313(5784): 172 [pdf]
• Drake JA, Bird C, Nemesh J, Thomas DJ, Newton-Cheh C, Reymond A, Excoffier L, Attar H, Antonarakis S, Dermitzakis ET & Hirschhorn JN (2006) Conserved noncoding sequences are selectively constrained and not mutation cold spots. Nature Genetics 38: 223-227 [Abstract and pdf]
• Excoffier L (2005) Editorial. Human Genomics 2(3): 155-7
• Ray N, Currat M, Berthier P & Excoffier L (2005) Recovering the geographic origin of early modern humans by realistic and spatially explicit simulations. Genome Research 15(8): 1161-7 [Abstract and pdf]
• Hamilton G, Stoneking M & Excoffier L (2005) Molecular analysis reveals tighter social regulation of immigration in patrilocal populations than in matrilocal populations. Proc. Natl. Acad. Sci. USA 102(21): 7476-80 [Abstract and pdf]
• Heckel G, Burri R, Fink S, Desmet J-F & Excoffier L (2005) Genetic structure and colonization processes in European populations of the common vole Microtus arvalis. Evolution 59(10): 2231-2242 [pdf]
• Excoffier L, Laval G & Schneider S (2005) Arlequin (version 3.0): An integrated software for population genetics data analysis. Evol. Bioinformatics Online 1: 47-50 [pdf]
• Excoffier L, Estoup A & Cornuet J-M (2005) Bayesian Analysis of an Admixture Model With Mutations and Arbitrarily Linked Markers. Genetics 169(3): 1727-1738 [Abstract and pdf]
• Hamilton G, Currat M, Ray N, Heckel G, Beaumont M & Excoffier L (2005) Bayesian estimation of recent migration rates after a spatial expansion. Genetics 170: 409-417 [Abstract and pdf]
• Currat M & Excoffier L (2005) The effect of the Neolithic expansion on European molecular diversity. Proc. Roy. Soc. B 272: 679-688 [Abstract and pdf]
• Keller I, Excoffier L & Largiader C R (2005) Estimation of effective population size and detection of a recent population decline coinciding with habitat fragmentation in a ground beetle. J. Evol. Biol. 18(1): 90-100
• Currat M, Ray N & Excoffier L (2004) SPLATCHE: a program to simulate genetic diversity taking into account environmental heterogeneity Molecular Ecology Notes 4(1): 139-142
• Fink S, Excoffier L & Heckel G (2004) Mitochondrial gene diversity in the common vole Microtus arvalis shaped by historical divergence and local adaptations. Molecular Ecology 13 (11): 3501-3514 [Abstract and pdf]
• Excoffier L (2004) Patterns of DNA sequence diversity and genetic structure after a range expansion: lessons from the infinite-island model. Molecular Ecology 13(4): 853-64 [Abstract and pdf]
• Currat M & Excoffier L (2004) Modern humans did not admix with Neanderthals during their range expansion into Europe. PLoS Biology 2(12): 2264-2274 [Abstract and pdf]
• Nicod J-C, Wang Y Z, Excoffier L & Largiader C R (2004) Low levels of mitochondrial DNA variation among central and southern European Esox lucius populations. J. Fish Biology 64(5): 1442-1449
• Laval G & Excoffier L (2004) SIMCOAL 2.0 A program to simulate genomic diversity over large recombining regions in a subdivided population with a complex history. Bioinformatics 20(15): 2485-2487 [Abstract and pdf]
• Excoffier L (2004) Special issue: analytical methods in phylogeography and genetic structure. Mol. Ecol. 13(4): 727
• Excoffier L & Hamilton G (2003) Comment on 'Genetic Structure of Human Populations'. Science 300(5627): 1877b- [pdf]
• Excoffier L, Laval G & Balding D (2003) Gametic phase estimation over large genomic regions using an adaptive window approach. Human Genomics 1(1): 7-19 [Abstract and pdf]
• Ray N, Currat M & Excoffier L (2003) Intra-deme molecular diversity in spatially expanding populations. Molecular Biology and Evolution 20(1): 76-86 [Abstract and pdf]
• Excoffier L (2003) Human diversity: our genes tell where we live. Current Biology 13(4): R134-6 [Abstract and pdf]
• Dupanloup I, Poloni ES, Schneider S, Excoffier L & Langaney A (2002) Genetique, linguistique et histoire des peuplements humains. Langage 146: 80-90
• Excoffier L (2002) Reconstructing the demography of prehistoric human populations from molecular data. Evol. Anthrop. 11: 166-170
• Cann H M, de Toma C, Cazes L, Legrand M-F, Morel V, Piouffre L, Bodmer J, Bodmer W F, Bonne-Tamir B, Cambon-Thomsen A, Chen Z & et al. (2002) A Human Genome Diversity Cell Line Panel. Science 296(5566): 261b-262 [Abstract and pdf]
• Excoffier L (2002) Human demographic history: refining the recent African origin model. Curr. Op. Genet. Dev. 12: 675-682 [Abstract and pdf]
• Currat M, Trabuchet G, Rees D, Perrin P, Harding R M, Clegg J B, Langaney A & Excoffier L (2002) Molecular Analysis of the beta-Globin Gene Cluster in the Niokholo Mandenka Population Reveals a Recent Origin of the betaS Senegal Mutation. Am. J. Hum. Genet. 70(1): 207-223
• Petit E, Balloux F & Excoffier L (2002) Mammalian population genetics: why not Y?. Trends Ecol. Evol. 17(1): 28-33
• Dupanloup I, Schneider S & Excoffier L (2002) A simulated annealing approach to define the genetic structure of populations. Mol. Ecol. 11(12): 2571-81
• Luikart G, Gielly L, Excoffier L, Vigne J D, Bouvet J & Taberlet P (2001) Multiple maternal origins and weak phylogeographic structure in domestic goats. Proc. Natl. Acad. Sci. USA 98(10): 5927-5932
• Kayser M, Krawczak M, Excoffier L, Dieltjes P, Corach D, Caglia A, Gehrig C, Bernini LF, Jespersen J, Bakker E, Roewer L & de Knijff P (2001) Extensive analysis of Y chromosome Y microsatellite haplotypes from globally dispersed human populations. Am. J. Hum. Genet. 68: 978-989
• Castella V, Ruedi M & Excoffier L (2001) Contrasted pattern of nuclear and mitochondrial genetic structure among nursery colonies of the bat Myotis myotis. J. Evol. Biol. 14: 708-720
• Dupanloup I, Schneider S, Langaney A & Excoffier L (2000) Inferring the impact of linguistic boundaries on population differentiation: application to the Afro-Asiatic-Indo-European case. Eur. J. Hum. Genet. 8(10): 750-6
• Dupanloup de Ceuninck I, Schneider S, Langaney A & Excoffier L (2000) Inferring the impact of linguistic boundaries on population differentiation: application to the Afro-Asiatic-Indo-European case. Eur. J. Hum. Genet. 8(10): 750-6
• Sanchez-Mazas A, Djoulah S, Busson M, Le Monnier de Gouville I, Poirier J C, Dehay C, Charron D, Excoffier L, Schneider S, Langaney A, Dausset J & Hors J (2000) A linkage disequilibrium map of the MHC region based on the analysis of 14 loci haplotypes in 50 French families. Eur. J. Hum. Genet. 8(1): 33-41
• Castella V, Ruedi M, Excoffier L, Ibanez C, Arlettaz R & Hausser J (2000) Is the Gibraltar strait a barrier to gene flow for the bat Myotis myotis (Chiroptera: Vespertilionidae)?. Mol. Ecol. 9(11): 1761-72
• Gaggiotti O & Excoffier L (2000) A simple method of removing the effect of a bottleneck and unequal population sizes on pairwise genetic distances. Proc. Roy. Soc. B 267: 81-87
• Belledi M, Casalotti R, Conterio F, Mikerezi I, Poloni ES, Tagliavini J & Excoffier L (2000) Maternal and paternal lineages in the Albanian population: A comparison with other Caucasoid populations. Europ. J. Hum. Genet. 8: 480-486
• Excoffier L, Novembre J & Schneider S (2000) SIMCOAL: A general coalescent program for the simulation of molecular data in interconnected populations with arbitrary demography. J. Heredity 91: 506-510
• Flint J, Bond J, Rees D C, Boyce A J, Roberts-Thomson J M, Excoffier L, Clegg J B, Beaumont M A, Nichols R A & Harding R M (1999) Minisatellite mutational processes reduce F(st) estimates. Hum. Genet. 105(6): 567-76
• Excoffier L & Schneider S (1999) Why hunter-gatherer populations do not show sign of Pleistocene demographic expansions. Proc. Natl. Acad. Sci. USA 96: 10597-10602
• Excoffier L & Yang Z (1999) Substitution rate variation among sites in the mitochondrial hypervariable region I of humans and chimpanzees. Mol. Biol. Evol. 16: 1357-1368
• Petit E, Excoffier L & Mayer F (1999) No evidence of bottleneck in the post-glacial recolonization of Europe by the Noctule bat (Nyctalus noctula). Evolution 53: 1247-1258
• Schneider S & Excoffier L (1999) Estimation of demographic parameters from the distribution of pairwise differences when the mutation rates vary among sites: Application to human mitochondrial DNA. Genetics 152(3): 1079-1089
• Bertorelle G & Excoffier L (1998) Inferring admixture proportions from molecular data. Mol. Biol. Evol. 15(10): 1298-311
• Excoffier L & Slatkin M (1998) Incorporating genotypes of relatives into a test of linkage disequilibrium. Am. J. Hum. Genet. 162: 171-180
• Passarino G, Semino O, Quintana-Murci L, Excoffier L, Hammer M & Santachiara-Benerecetti AS (1998) Different genetic components of the Ethiopian population identified by mtDNA and Y-chromosome polymorphisms. Am. J. Hum. Genet. 62: 420-434
• Poloni E S, Semino O, Passarino G, Santachiara-Benerecetti A S, Dupanloup I, Langaney A & Excoffier L (1997) Human genetic affinities for Y-chromosome P49a,f/TaqI haplotypes show strong correspondence with linguistics. Am. J. Hum. Genet. 61(5): 1015-35
• Poloni ES, Passarino G, Santachiara-Benerecetti AS, Semino O, Langaney A & Excoffier L (1997) Human genetic affinities for Y chromosome p49a,f/Taq I haplotypes show strong correspondence with linguistics. Am. J. Hum. Genet. 61: 1015-1035
• Excoffier L (1997) Ce que nous dit la g�n�alogie des g�nes. La Recherche 302: 82-89
• Aris-Brosou S & Excoffier L (1996) The impact of population expansion and mutation rate heterogeneity on DNA sequence polymorphism. Mol. Biol. Evol. 13(3): 494-504
• Barbujani G, Stenico M, Excoffier L & Nigro L (1996) Human mtDNA sequence variation across linguistic and geographic boundaries in Italy. Hum. Biol. 68: 201-215
• Michalakis Y & Excoffier L (1996) A generic estimation of population subdivision using distances between alleles with special reference for microsatellite loci. Genetics 142: 1061-1064
• Slatkin M & Excoffier L (1996) Testing for linkage disequilibrium in genotypic data using the EM algorithm. Heredity 76: 377-383
• Stewart N & Excoffier L (1996) Assessing population genetic structure and variability with RAPD data: Application to 'Vaccinium macrocarpon' (American cranberry). J. Evol. Biol. 9: 153-171
• Sanchez-Mazas A, Dard P, Langaney L & Excoffier L (1995) Selective neutrality tested on HLA. Europ. J. Immunogenetics (22): 131
• Chen Y-S, Torroni A, Excoffier L, Santachiara-Benerecetti AS & Wallace DC (1995) Analysis of mtDNA variation in African populations reveals the most ancient of all human continent-specific haplogroup. Am. J. Hum. Genet. 57: 133-149
• Excoffier L & Slatkin M (1995) Maximum-likelihood estimation of molecular haplotype frequencies in a diploid population. Mol. Biol. Evol. 12(5): 921-927
• Graven L, Passarino G, Semino O, Boursot P, Santachiara-Benerecetti AS, Langaney A & Excoffier L (1995) Evolutionary correlation between control region sequence and RFLP diversity pattern in the mitochondrial genome of a Senegalese sample. Mol. Biol. Evol. 12(2): 334-345
• Martinson JJ, Excoffier L, Langaney A & Clegg JB (1995) High diversity of a-globin haplotypes in a Senegalese population, including many previously unreported variants. Am. J. Hum. Genet. 57: 1186-1198
• Sanchez-Mazas A, Buetler-Brunner E, Excoffier L, Ghanem N, Ben Salem M, Breguet G, Dard P, Pellegrini B, Tikkanen J, Langaney A, Lefranc G & Buetler R (1994) New data for AG haplotype frequencies in Caucasoid populations and the selective neutrality of the AG polymorphism. Hum. Biol. 66(1): 27-48
• Excoffier L & Smouse P (1994) Using allele frequencies and geographic subdivision to reconstruct gene genealogies within a species. Molecular variance parsimony. Genetics 136: 343-359
• Grundschober C, Sanchez-Mazas A, Excoffier L, Langaney L, Jeannet M & Tiercy J-M (1994) HLA-DPB1 DNA polymorphism in the Swiss population: Linkage disequilibrium with other HLA loci and population genetic affinities. Europ. J. Immunogenetics 21: 143-157
• Laurent L, Lescure J, Excoffier L, Bowen B, Domingo M, Kornaraki L, Hadjichristophorou M & Trabuchet G (1993) Etude genetique des relations entre la population M�diterran�enne et la population Atlantique de tortue marine Caouanne, Caretta caretta. C. R. Acad. Sci. Paris 316: 1233-1239
• Tiercy J-M, Sanchez-Mazas A, Excoffier L, Shi-Isaac X, Jeannet M, Mach B & Langaney A (1992) HLA-DR polymorphism in a Senegalese Mandenka population: DNA oligotyping and population genetics of DRB1 specificities. Am. J. Hum. Genet. 51: 592-608
• Dard P, Schreiber Y, Excoffier L, Sanchez-Mazas A, Shi-Isaac X, Epelbouin A, Langaney A & Jeannet M (1992) Polymorphisme des loci de classe I: HLA-A, -B, et -C, dans la population Mandenka du S�n�gal Oriental. C. R. Acad. Sci. Paris. 314: 573-578
• Excoffier L (1992) Commentaire. Pour La Science 171: 33
• Excoffier L, Smouse P & Quattro J (1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes: Application to human mitochondrial DNA restriction data. Genetics 131: 479-491
• Excoffier L, Smouse P & Quattro J (1991) Regional divergence of human mtDNA types. Am. J. Phys. Anthrop. Suppl. 12: 71
• Excoffier L (1991) Reply to Stoneking. J. Mol. Evol. 31: 347-350
• Excoffier L, Harding R, Sokal R, Pellegrini B & Sanchez-Mazas A (1991) Spatial differentiation of RH and GM haplotype frequencies in sub-Saharan Africa and its relation to linguistic affinities. Hum.Biol. 63: 273-297
• Excoffier L (1990) Evolution of human mitochondrial DNA: evidence for departures from a pure neutral model of populations at equilibrium. J.Mol.Evol. 30: 125-139
• Excoffier L & Roessli D (1990) Origine et �volution de l'ADN mitochondrial humain: Le paradigme perdu. Bull. M�m. Soc. d'Anthrop. Paris. 1: 25-42
• Excoffier L & Langaney A (1989) Origin and differentiation of human mitochondrial DNA. Am.J.Hum.Genet. 44: 73-85
• Excoffier L & Langaney A (1988) Phylog�nies des types d‘ADN mitochondriaux humains. Probl�mes m�thodologiques et principaux r�sultats. C. R. Acad. Sci. Paris. 307: 541-546
• Bierens de Haan D, Leski M, Excoffier L, Carpentier N, Irl� C & Jeannet M (1988) Effect of inhibitory factors to HLA-DR antibodies before transplantation on kidney graft survival. Transplantation 46: 581-584
• Excoffier L, Pellegrini B, Sanchez-Mazas A, Simon C & Langaney A (1987) Genetics and history of Sub-Saharan Africa. Y. Phys. Anthrop. 30: 151-194
• Sanchez-Mazas A, Excoffier L & Langaney A (1986) Measure and representation of the genetic similarity between populations by the percentage of isoactive genes. Teoria II 4: 143-154

Book sections

• Currat M, Quilodran CS & Excoffier L (2022) Simulations of Human Dispersal and Genetic Diversity. In 'Evolution of the Human Genome II. Human Evolution Viewed from Genomes' edited by Naruya Saitou. Springer Japan. Pp. 231-256. [Abstract and pdf]
• Currat M, Quilodran C & Excoffier L (2021) Simulations of Human Dispersal and Genetic Diversity. In 'Evolution of the Human Genome II' edited by Saitou N. Springer Japan KK. Pp. 231-255. [Abstract and pdf]
• Arenas M, Mona S, Trochet A, Sramkova Hanulova A, Currat M, Ray N, Chikhi L, Rasteiro R, Schmeller DS , Excoffier L & (2014) The scaling of genetic diversity in a changing and fragmented world. In 'Scaling in ecology and conservation' edited by Henle K et al & . Pensoft Publishers. Pp. 55-60. [Abstract and pdf]
• Excoffier L, Quilodran CS & Currat M (2014) Models of hybridization during range expansions and their application to recent human evolution. In 'Cultural Developments in the Eurasian Paleolithic and the Origin of Anatomically Modern Humans' edited by Derevianko AP & Shunkov M. Dept. of the Institute of Archaeology and Ethnography SB RAS. Pp. 122-137.
• Excoffier L, Ray N & Currat M (2008) Where was Paradise? A simulation study of the spread of early modern humans in heterogeneous environments. In 'Simulations, Genetics and Human Prehistory' edited by Matsumura S, Forster P & Renfrew C. (McDonald Institute Monographs.) Cambridge: McDonald Institute for Archaeological Research. Pp. 9-18.
• Ray N, Currat M & Excoffier L (2008) Incorporating environmental heterogeneity in spatially-explicit simulations of human genetic diversity. In 'Simulations, Genetics and Human Prehistory' edited by Matsumura S, Forster P & Renfrew C. (McDonald Institute Monographs.) Cambridge: McDonald Institute for Archaeological Research. Pp. 103-117.
• Currat M, Ray N & Excoffier L (2008) Genetic simulations of population interactions during past human expansions in Europe. In 'Simulations, Genetics and Human Prehistory' edited by Matsumura S, Forster P & Renfrew C. (McDonald Institute Monographs.) Cambridge: McDonald Institute for Archaeological Research. Pp. 37-47.
• Giger T, Amstutz U, Excoffier L, Day PJR, Champigneulle A, Powell R & Largiad�r CR (2007) The Genetic Basis of Smoltification: Functional Genomics Tools Facilitate the Search for Needle in the Haystack. In 'Sea Trout: Biology, Conservation & Management' edited by G Harris & Milner N. Blackwell. Pp. 183-195.
• Excoffier L (2007) Analysis of Population Subdivision. In 'Handbook of Statistical Genetics, 3rd Edition' edited by Balding D, Bishop M & Cannings C. John Wiley & Sons, Ltd. Pp. 980-1020.
• Excoffier L (2003) Analysis of Population Subdivision. In 'Handbook of Statistical Genetics, 2nd Edition' edited by Balding D, Bishop M & Cannings C. John Wiley & Sons, Ltd. Pp. 713-750.
• Dupanloup de Ceuninck I, Schneider S & Excoffier L (2000) Inferring the impact of linguistic boundaries on population differentiation: a new approach. In 'Archaeogenetics: DNA and the population prehistory of Europe' edited by Renfrew C & Boyle K. McDonald Insitute Monographs. Pp. 325-331.
• Excoffier L & Schneider L (2000) The demography of human populations inferred from patterns of mitochondrial DNA diversity. In 'Archaeogenetics: DNA and the population prehistory of Europe' edited by Renfrew C & Boyle K. McDonald Institute Monographs. Pp. 101-108.
• Excoffier L & Schneider S (2000) Inferring past human demographic expansions from mitochondrial DNA diversity. In 'IIAS International Symposium on #Biodiversity#' edited by Iwatsuki K. International Institute for Advanced Studies. Pp. 53-58.
• Dupanloup I, Schneider S, Barbujani G & Excoffier L (2000) Inferring the impact of linguistic boundaries on population differentiation and the location of genetic barriers - a new approach. In 'Archaeogenetics: DNA and the population prehistory of Europe' edited by Renfrew C & Boyle K. McDonald Institute Monographs. Pp. 325-31.
• Barbujani G & Excoffier L (1999) The history and geography of human genetic diversity. In 'Evolution in Health and Disease' edited by Stearns S. Oxford University Press. Pp. 27-40.
• Hill AVS, Sanchez-Mazas A, Barbujani G, Dunston G, Excoffier L, Hancock J, Klein J, Meyer U, Motulsky A, Presciuttini S, Wishart W & Langaney A (1999) Human Genetic Variation and its Impact on Public Health and Medicine. In 'Evolution in Health and Disease' edited by Stearns S. Oxford University Press. Pp. 62-74.
• Tiercy J-M, Sanchez-Mazas A, Excoffier L & Langaney A (1998) Senegalese Normal. In 'HLA 1997' edited by Terasaki PI & Gjertson DW. UCLA Tissue Typing Laboratory. Pp. 177.
• Ivanova R, Djoulah S, Sch�chter F, Loste MN, Hors J, Naoumova E, Excoffier L, Sanchez-Mazas A, Dausset J, Lepage V & Charron D (1997) Mitochondrial DNA (mtDNA) and HLA genetics studies in the French population. In 'Proceedings of the 12th International Histocompatibility Workshop and Conference' edited by Charron D. EDK. Pp. 205-206.
• Excoffier L, Poloni ES, Santachiara-Benerecetti AS, Semino O & Langaney A (1996) The molecular diversity of the Niokholo Mandenkalu from Eastern Senegal: An insight into West Africa genetic history. In 'Molecular Biology and Human Diversity' edited by Boyce AJ & Mascie-Taylor CGN. Cambridge University Press. Pp. 141-155.
• Dard P, Sanchez-Mazas A, Tiercy J-M, Magzoub M, Verduyn W, Goumaz C, Jeannet M, Pellegrini B, Excoffier L & Langaney A (1992) Joint Report: HLA-A, -B, and DR differentiations among North and West African populations. In 'HLA 1991' edited by al Tsuji et. Oxford University Press. Pp. 632-636.
• Roessli D, Excoffier L & Langaney A (1988) Visage et Racisme. In 'Le Visage' edited by BCyrulnik. Eshel. Pp. 145-160.