SMILE

Stochastic Models for the Inference of Life Evolution

Amaury Lambert

Permanent member

Amaury is full (math) professor at UPMC and is the official head of the SMILE group. He teaches math to math students of UPMC and to biology students of ENS. He is a specialist of stochastic models in ecology, in population genetics, and in evolution.

Planning des salles du Collège de France

Intranet du Collège de France

Visit Amaury Lambert's webpage.

Publications

Foutel-Rodier, F., Lambert, A., Schertzer, E. (2020)
Kingman's coalescent with erosion
Electronic Journal of Probability 25 33 pp.
Kerdoncuff, E., Lambert, A., Achaz, G. (2020)
Testing for population decline using maximal linkage disequilibrium blocks
Theoretical Population Biology 134 171 - 181
Bienvenu, F., Lambert, A., Steel, M. (2020)
Combinatorial and stochastic properties of ranked tree-child networks
arXiv:2007.09701
Bienvenu, F., Débarre, F., Lambert, A. (2019)
The split-and-drift random graph, a null model for speciation
Stochastic Processes and their Applications 129 2010-2048
Anciaux, Y., Lambert, A., Ronce, O., Roques, L., Martin, G. (2019)
Population persistence under high mutation rate: from evolutionary rescue to lethal mutagenesis
Evolution
Dinh, K., Jaksik, R., Kimmel, M., Lambert, A., Tavaré, S. (2019)
Statistical inference for the evolutionary history of cancer genomes
bioRxiv 722033
Manceau, M., Lambert, A. (2019)
The species problem from the modeler’s point of view
Bulletin of mathematical biology 81 878-898
Duchamps, J., Lambert, A. (2018)
Mutations on a random binary tree with measured boundary
Ann. Appl. Probab. 28 2141-2187
Blancas, A., Duchamps, J., Lambert, A., Siri-Jégousse, A. (2018)
Trees within trees: simple nested coalescents
Electron. J. Probab. 1-27
Parsons, T. L., Lambert, A., Day, T., Gandon, S. (2018)
Pathogen evolution in finite populations: slow and steady spreads the best
Journal of The Royal Society Interface 15 20180135
Lambert, A. (2018)
The coalescent of a sample from a binary branching process
Theoretical population biology 122 30-35
Lambert, A., Miró Pina, V., Schertzer, E. (2018)
Chromosome painting
arXiv:1807.09116
Dávila Felipe, M., Lambert, A. (2018)
Branching processes seen from their extinction time via path decompositions of reflected lévy processes
Electronic Journal of Probability 23
Maliet, O., Gascuel, F., Lambert, A. (2018)
Ranked tree shapes, nonrandom extinctions, and the loss of phylogenetic diversity
Systematic biology 67 1025-1040
Lambert, A., Schertzer, E. (2018)
Coagulation-transport equations and the nested coalescents
Probability Theory and Related Fields 1-71
Foutel-Rodier, F., Lambert, A., Schertzer, E. (2018)
Exchangeable coalescents, ultrametric spaces, nested interval-partitions: a unifying approach
arXiv:1807.05165
Achaz, G., Lambert, A., Schertzer, E. (2018)
The sequential loss of allelic diversity
Advances in Applied Probability 50 13-29
Marin, J., Achaz, G., Crombach, A., Lambert, A. (2018)
The genomic view of diversification
bioRxiv
Lambert, A., Uribe Bravo, G. (2018)
Totally ordered measured trees and splitting trees with infinite variation
Electronic Journal of Probability 23
Tomasetti, C., Durrett, R., Kimmel, M., Lambert, A., Parmigiani, G., Zauber, A., Vogelstein, B. (2017)
Role of stem-cell divisions in cancer risk
Nature 548
Lambert, A. (2017)
Random ultrametric trees and applications
ESAIM: Proceedings and Surveys 60 70-89
Lambert, A., Uribe Bravo, G. (2017)
The comb representation of compact ultrametric spaces
p-Adic Numbers, Ultrametric Analysis and Applications 9 22-38
Lambert, A. (2017)
Probabilistic models for the (sub)tree(s) of life
Brazilian Journal of Probability and Statistics 31 415-475
Alexander, H. K., Lambert, A., Stadler, T. (2016)
Quantifying age-dependent extinction from species phylogenies
65 35-50
Delaporte, C., Achaz, G., Lambert, A. (2016)
Mutational pattern of a sample from a critical branching population
Journal of Mathematical Biology 1-38
Lapierre, M., Blin, C., Lambert, A., Achaz, G., Rocha, E. P. C. (2016)
The impact of selection, gene conversion, and biased sampling on the assessment of microbial demography
Behdenna, A., Pothier, J., Abby, S. S., Lambert, A., Achaz, G. (2016)
Testing for independence between evolutionary processes
Systematic biology 65 812-823
Manceau, M., Lambert, A., Morlon, H. (2016)
A unifying comparative phylogenetic framework including traits coevolving across interacting lineages
Systematic biology 66 551-568
Dávila Felipe, M., Lambert, A. (2015)
Time reversal dualities for some random forests
ALEA Latin American Journal of Probability and Mathematical Statistics 12 399-426
Gascuel, F., Ferrière, R., Aguilée, R., Lambert, A. (2015)
How ecology and landscape dynamics shape phylogenetic trees
Systematic Biology 64 590-607
Lambert, A., Ma, C. (2015)
The coalescent in peripatric metapopulations
Journal of Applied Probability 52 538-557
Lambert, A., Morlon, H., Etienne, R. S. (2015)
The reconstructed tree in the lineage-based model of protracted speciation
Journal of Mathematical Biology 70 367-397
Martin, G., Lambert, A. (2015)
A simple, semi-deterministic approximation to the distribution of selective sweeps in large populations
Theoretical Population Biology 101 40-46
Lambert, A., Simatos, F. (2015)
Asymptotic behavior of local times of compound poisson processes with drift in the infinite variance case
Journal of Theoretical Probability 28 41-91
Manceau, M., Lambert, A., Morlon, H. (2015)
Phylogenies support out-of-equilibrium models of biodiversity
Ecology Letters 18 347-356
Martin, G., Lambert, A. (2015)
A simple, semi-deterministic approximation to the distribution of selective sweeps in large populations
Theoretical Population Biology 101 40-46
Regnier, C., Achaz, G., Lambert, A., Cowie, R. H., Bouchet, P., Fontaine, B. (2015)
Mass extinction in poorly known taxa
Proceedings of the National Academy of Sciences of the United States of America 112 7761-7766
Etienne, R. S., Morlon, H., Lambert, A. (2014)
Estimating the duration of speciation from phylogenies
Evolution; International Journal of Organic Evolution 68 2430-2440
Lambert, A., Alexander, H. K., Stadler, T. (2014)
Phylogenetic analysis accounting for age-dependent death and sampling with applications to epidemics
Journal of Theoretical Biology 352 60-70
Lambert, A., Simatos, F. (2014)
The weak convergence of regenerative processes using some excursion path decompositions
Ann. Inst. Henri Poincaré 50 492-511
Aguilée, R., Claessen, D., Lambert, A. (2013)
Adaptive radiation driven by the interplay of eco-evolutionary and landscape dynamics
Evolution 67 1291-1306
Bansaye, V., Lambert, A. (2013)
Past, growth and persistence of source-sink metapopulations
Theoretical Population Biology 88 31-46
Champagnat, N., Lambert, A. (2013)
Splitting trees with neutral poissonian mutations ii: largest and oldest families
Stochastic Processes and their Applications 123 1368-1414
Chapron, G., Wielgus, R., Lambert, A. (2013)
Overestimates of maternity and population growth rates in multi-annual breeders
Eur. J. Wildlife Res. 59 237-243
Lambert, A., Popovic, L. (2013)
The coalescent point process of branching trees
Ann. Appl. Prob. 23 99-144
Lambert, A., Stadler, T. (2013)
Birth–death models and coalescent point processes: the shape and probability of reconstructed phylogenies
Theoretical Population Biology 90 113-128
Lambert, A., Steel, M. (2013)
Predicting the loss of phylogenetic diversity under non-stationary diversification models
Journal of Theoretical Biology 337 111-124
Lambert, A., Trapman, P. (2013)
Splitting trees stopped when the first clock rings and vervaat's transformation
Journal of Applied Probability 50 208-227
Champagnat, N., Lambert, A. (2012)
Splitting trees with neutral poissonian mutations i: small families
Stochastic Processes and their Applications 122 1003-1033
Champagnat, N., Lambert, A., Richard, M. (2012)
Birth and death processes with neutral mutations
International Journal of Stochastic Analysis 2012 1-20
Puillandre, N., Lambert, A., Brouillet, S., Achaz, G. (2012)
Abgd automatic barcode gap discovery for primary species delimitation
Molecular Ecology 21 1864-1877
Aguilée, R., Lambert, A., Claessen, D. (2011)
Ecological speciation in dynamic landscapes
Journal of Evolutionary Biology 24 2663-2677
Aguilée, R., de Becdelièvre, B., Lambert, A., Claessen, D. (2011)
Under which conditions is character displacement a likely outcome of secondary contact?
Journal of Biological Dynamics 5 135-146
Lambert, A. (2010)
Population genetics, ecology and the size of populations
Journal of Mathematical Biology 60 469-472
Lambert, A. (2010)
The contour of splitting trees is a lévy process
The Annals of Probability 38 348-395
Aguilée, R., Claessen, D., Lambert, A. (2009)
Allele fixation in a dynamic metapopulation: founder effects vs refuge effects
Theoretical Population Biology 76 105-117
Caballero, M., Lambert, A., Uribe Bravo, G. (2009)
Proof(s) of the lamperti representation of continuous-state branching processes
Probab. Surveys 6 62-89
Cattiaux, P., Collet, P., Lambert, A., Martínez, S., Méléard, S., Martín, J. S. (2009)
Quasi-stationary distributions and diffusion models in population dynamics
The Annals of Probability 37 1926-1969
Lambert, A. (2009)
The allelic partition for coalescent point processes
Markov Proc. Relat. Fields 15 359-386
Chapron, G., Miquelle, D., Lambert, A., Goodrich, J., Legendre, S., Clobert, J. (2008)
The impact on tigers of poaching versus prey depletion.
J. Appl. Ecology 45 1667-1674
Gonzalez, A., Lambert, A., Ricciardi, A. (2008)
When does ecosystem engineering cause invasion and species replacement?
Oikos 117 1247-1257
Lambert, A. (2008)
Population dynamics and random genealogies
Stochastic Models 24 45-163
Raquin, A., Depaulis, F., Lambert, A., Galic, N., Brabant, P., Goldringer, I. (2008)
Experimental estimation of mutation rates in a wheat population with a gene genealogy approach
Genetics 179 2195-2211