SMILE Group "Stochastic Models for the Inference of Life Evolution" Center for Interdisciplinary Research in Biology (CIRB) Collège de France 11, place Marcelin Berthelot 75231 PARIS Cedex 05 Tel : +33 1 44 27 13 91 Email: amaury.lambert — a t — college-de-france.fr |
SMILE Group "Stochastic Models for the Inference of Life Evolution" Institut de Biologie de l’École Normale Supérieure (IBENS) École Normale Supérieure 46, rue d'Ulm 75230 PARIS Cedex 05 Tel : +33 1 44 32 23 62 Email: amaury.lambert — a t — ens.fr |
Position(s)
Research interests
A. Ecology, genetics
and evolution: phylogenetics, macro-evolution,
speciation, population genetics, molecular evolution, somatic
evolution
B. Probability
and stochastic processes: branching processes,
coalescent theory, excursion theory, Lévy processes,
measure-valued processes
Courses under my
responsibility
Oct 9, 16 and 23, 2020 - IICD
(Columbia U)
Three lectures on "Evolutionary
processes and patterns of biodiversity"
Gandon, S.,
Lambert, A., Day, T., Parsons, T. (2023)
The speed of vaccination rollout and the risk of pathogen
adaptation
Submitted
Lambert,
A., Uribe Bravo, G. (2023)
Totally ordered
measured trees and splitting trees with infinite variation II:
Prolific skeleton decomposition
Submitted
Johnston,
S.G.G., Lambert, A. (2023)
The coalescent structure
of branching processes: A unifying Poissonisation approach
Ann. Appl. Prob. (in press)
Freund, F.,
Kerdoncuff, E., Matuszewski, S., Lapierre, M., Hildebrandt, M.,
Jensen, J.D., Ferretti, L.,
Lambert, A., Sackton,
T.B., Achaz, G. (2023)
Interpreting the pervasive observation
of U-shaped Site Frequency Spectra
PLoS
Genetics 19(3):e1010677
Gamblin, J.,
Gandon, S., Blanquart, F., Lambert, A. (2023)
Bottlenecks can constrain and channel evolutionary paths
Genetics
224(2)
Overcast, I.,
Achaz, G., Aguilée, R., Andújar, C., Arribas, P., Creedy, T.J.,
Economo, E.P., Etienne, R.S., Gillespie, R., Jacquet, C., Jay, F.,
Kennedy, S., Krehenwinkel, H., Lambert, A., Meramveliotakis, E.,
Noguerales, V., Perez-Lamarque, B., Roderick, G., Rogers, H.,
Ruffley, M., Sanmartin, I., Vogler, A.P., Papadopoulou, A.,
Emerson, B.C., Morlon, H. (2023)
Toward a genetic theory of island biogeography: Inferring
processes from multi-dimensional community-scale data
Global
Ecology and Biogeography 32(1) 4-23
Pénisson, S.,
Lambert, A., Tomasetti, C. (2022)
Evaluating cancer etiology and risk with a mathematical model of
tumor evolution
Nature
Communications 13(7224)
Foutel-Rodier*,
F., Blanquart, F., Courau, P., Czuppon, P., Duchamps, J.,
Gamblin, J., Kerdoncuff, E., Kulathinal, R., Régnier, L., Vuduc,
L., Lambert**, A.,
Schertzer**, E. (2022)
From individual-based
epidemic models to McKendrick-von Foerster PDEs: A guide to
modeling and inferring COVID-19 dynamics
J. Math. Biol.
85(43)
Behdenna, A., Godfroid, M.,
Petot, P., Pothier,
J., Lambert, A., Achaz, G. (2022)
A minimal
yet flexible likelihood framework to assess correlated
evolution
Systematic
Biology 71(4) 823-838
Bienvenu,
F., Lambert, A.,
Steel, M. (2022)
Combinatorial and
stochastic properties of ranked tree-child networks
Rand. Struct.
Algo. 60(4) 653-689
Lambert,
A. (2021)
A
mathematical assessment of the efficiency of
quarantining and contact tracing in curbing the COVID-19
epidemic
Math. Mod.
Nat. Phen. 16(53)
Foutel-Rodier,
F., Lambert, A., Schertzer, E. (2021)
Exchangeable
coalescents, ultrametric spaces, nested interval-partitions:
A unifying approach
Ann. Appl. Prob.
31(5) 2046-2090
Lambert, A., Miro Pina, V.,
Schertzer, E. (2021)
Chromosome painting:
how recombination mixes ancestral colors
Ann. Appl. Prob.
31(2) 826-864
Lambert, A. (2020)
Manceau*,
M., Marin*, J., Morlon, H., Lambert, A. (2020)
Model-based inference of
punctuated molecular evolution
Mol. Biol. Evol.
37(11) 3308-3323
Marin,
J., Achaz, G., Crombach, A., Lambert, A.
(2020)
The genomic view of
diversification
J. Evol. Biol. 33
1387-1404
Cluzel,
N., Lambert, A.,
Maday, Y., Turinici, G., Danchin, A. (2020)
Biochemical
and statistical lessons from the evolution of the SARS-CoV-2
virus: paths for novel antiviral warfare
C.R. Acad. Sci.
Biologies 343(2) 177-209
Kerdoncuff,
E., Lambert, A., Achaz, G. (2020)
Testing for population
decline using maximal linkage disequilibrium blocks
Theoret. Popul. Biol. 134 171-181
Doulcier,
G., Lambert, A., De Monte, S. Rainey, P.B. (2020)
Eco-evolutionary dynamics
of nested Darwinian populations and the emergence of
community-level heredity
eLife 9:e53433
Day, T., Parsons, T.L., Lambert, A.,
Gandon, S. (2020)
The Price equation and evolutionary epidemiology
Philosophical
Transactions B 375: 20190357
Foutel-Rodier,
F., Lambert, A., Schertzer, E. (2020)
Kingman's coalescent
with erosion
Elec. J. Prob.
25 (56)
Đinh,
K.D., Jaksik, R., Kimmel, M., Lambert, A., Tavaré, S. (2020)
Statistical inference for
the evolutionary history of cancer genomes
Stat. Sci.
35(1), 129-144
Lambert,
A., Schertzer, E. (2020)
Coagulation-transport
equations and the nested coalescents
Probab. Theory Relat. Fields 176(1), 77-147
Read it online
Anciaux,
Y., Lambert, A., Ronce, O., Roques, L., Martin, G. (2019)
Population persistence
under high mutation rate: from evolutionary rescue to lethal
mutagenesis
Evolution 73(8)
1517-1532
Manceau,
M., Lambert, A. (2019)
The species problem from the modeler's point of view
Bull. Math
Biol. 81(3) 878-898
Read it online
Achaz, G., Lambert, A., Schertzer, E. (2018)
Lambert,
A., Uribe Bravo, G. (2018)
Totally ordered
measured trees and splitting trees with infinite variation
Elec. J. Prob. 23(120)
1-41
Parsons,
T.L., Lambert, A., Day, T., Gandon, S. (2018)
Pathogen evolution in
finite populations: slow and steady spreads the best
J. Roy. Soc.
Interface 15 (147) 20180135
Maliet, O., Gascuel, F., Lambert, A. (2018)
Dávila
Felipe, M., Lambert, A. (2018)
Branching processes
seen from their extinction time via path decompositions of
reflected Lévy processes
Elec. J. Prob.
23(98) 1-30
Blancas,
A., Duchamps, J.J.,
Lambert, A., Siri-Jégousse, A. (2018)
Trees within trees:
Simple nested coalescents
Elec. J. Prob.
23(94) 1-27
Aguilée*,
R., Gascuel*, F., Lambert**,
A., Ferrière**, R. (2018)
Clade
diversification dynamics and the biotic and abiotic controls of
speciation and extinction rates
Nature Communications 9 3013
Lambert, A. (2018)
Lambert,
A. (2018)
Random ultrametric
trees and applications
ESAIM:
Proceedings & Surveys 60 70-89
Lambert,
A. (2017)
Probabilistic
models for the (sub)Tree(s) of Life
Brazil. J. Probab.
Statist. 31(3)
415-475
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 E13-E14
Manceau,
M., Lambert, A., Morlon, H. (2017)
A unifying comparative
phylogenetic framework including traits coevolving across
interacting lineages
Systematic Biology 66(4) 551–568
Lapierre, M., Lambert, A., Achaz, G. (2017)
Lambert,
A., Uribe Bravo, G. (2017)
The comb
representation of compact ultrametric spaces
p-Adic Numb. Ultrametric Anal. Appl.
9(1) 22-38
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
Mol.
Biol. Evol. 33(7) 1711-1725
Behdenna,
A., Pothier, J., Abby,
S., Lambert, A., Achaz, G. (2016)
Testing for independence between evolutionary processes
Systematic Biology 65 (5) 812-823
Delaporte,
C., Achaz, G., Lambert, A. (2016)
Mutational pattern of
a sample from a critical branching population
J.
Math. Biol. 73(3) 627-664
Read it online
Alexander,
H.K., Lambert, A., Stadler, T. (2016)
Quantifying age-dependent extinction from species phylogenies
Systematic
Biology 65(1) 35-50
Dávila
Felipe, M., Lambert, A. (2015)
Time-reversal
dualities for some random forests
ALEA, Lat. Am. J. Probab. Math. Stat. 12(1) 399-426
Lambert,
A., Ma, C. (2015)
The coalescent in
peripatric metapopulations
J. Appl.
Prob. 52(2) 538-557
Gascuel,
F., Ferrière, R., Aguilée,
R., Lambert, A. (2015)
How ecology and landscape dynamics shape phylogenetic trees
Systematic
Biology 64(4) 590-607
Régnier,
C.*, Achaz, G.*, Lambert, A., Cowie, R.H., Bouchet, P.,
Fontaine, B. (2015)
Mass extinction in poorly known taxa
PNAS
112(25) 7761-7766
Manceau,
M., Lambert, A., Morlon, H. (2015)
Phylogenies support out-of-equilibrium models of biodiversity
Ecology Letters
18(4) 347-356
Lambert,
A., Simatos, F. (2015)
Asymptotic behavior of
local times of compound Poisson processes with drift in the
infinite variance case
J.
Theoret. Probab. 28(1) 41-91
Martin,
G., Lambert, A. (2015)
A simple, semi-deterministic approximation to the distribution
of selective sweeps in large populations
Theoret.
Popul. Biol. 101 40-46
Lambert,
A., Morlon, H., Etienne,
R.S. (2015)
The reconstructed tree
in the lineage-based model of protracted speciation
J. Math.
Biol. 70(1) 367-397
Etienne,
R.S., Morlon,
H., Lambert, A. (2014)
Estimating the duration of speciation from phylogenies
Evolution
68(8) 2430-2440
Lambert, A. (2014)
Lambert,
A., Alexander, H.K., Stadler, T. (2014)
Phylogenetic analysis
accounting for age-dependent death and sampling with
applications to epidemics
J.
Theoret. Biol.
352 60-70
Lambert,
A., Stadler, T. (2013)
Birth-death models and
coalescent point processes: The shape and probability of
reconstructed phylogenies
Theoret.
Popul. Biol. 90 113-128
Bansaye,
V., Lambert, A. (2013)
New approaches to
source–sink metapopulations decoupling demography and
dispersal
Theoret.
Popul. Biol. 88 31-46
Lambert, A., Simatos, F., Zwart,
B. (2013)
Scaling limits via
excursion theory: Interplay between Crump-Mode-Jagers
branching processes and Processor-Sharing queues
Ann. Appl. Prob.
23(6) 2357-2381
Lambert,
A., Steel, M. (2013)
Predicting the loss of
phylogenetic diversity under non-stationary diversification
models
J.
Theoret. Biol. 337 111-124
Aguilée, R., Claessen, D.,
Lambert, A. (2013)
Adaptive radiation driven by the interplay of eco-evolutionary
and landscape dynamics.
Evolution
67(5) 1291-1306
Lambert,
A., Trapman, P. (2013)
Splitting trees stopped
when the first clock rings and Vervaat's transformation
J. Appl. Prob.
50(1) 208-227
Champagnat, N., Lambert, A. (2013)
Splitting trees with
neutral Poissonian mutations II: Largest and oldest families
Stoch. Proc.
Appl. 123(4) 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(1) 99–144
Champagnat,
N., Lambert, A., Richard, M. (2012)
Birth and death processes
with neutral mutations
Int. J. Stoch.
Anal. Article ID 569081
Champagnat, N., Lambert, A. (2012)
Splitting trees with
neutral Poissonian mutations I: Small families
Stoch. Proc.
Appl. 122(3) 1003-1033
Puillandre, N., Lambert, A., Brouillet, S., Achaz, G.
(2012)
ABGD, Automatic Barcode Gap Discovery for primary species
delimitation
Mol.
Ecol. 21(8) 1864-1877
Aguilée, A., Lambert, A., Claessen, D.
(2011)
Ecological speciation in dynamic landscapes
J.
Evol. Biol. 24 2663-2677
Tully,T., Lambert, A. (2011)
The evolution of post-reproductive lifespan as an insurance
against developmental indeterminacy
Evolution
65 3013–3020
Aguilée, A., de Becdelièvre, B., Lambert,
A., Claessen, D. (2011)
Under
which conditions is character displacement a likely outcome
of secondary contact?
J. Biol.
Dyn. 5 135-146
Lambert, A. (2011)
Species
abundance distributions in neutral models with immigration or
mutation and general lifetimes
J. Math.
Biol. 63 57-72
Lambert, A. (2010)
Population
genetics, ecology and the size of populations
J. Math.
Biol. 60 469-472
Lambert, A. (2010)
The contour of splitting trees is a Lévy
process
Ann. Probab. 38
348–395
Caballero, M.E., Lambert, A., Uribe Bravo,
G. (2009)
Proof(s) of the Lamperti representation of
continuous-state branching processes
Probab. Surveys
6 62-89
Lambert, A. (2009)
The allelic partition for coalescent point
processes
Markov
Proc. Relat. Fields. 15 359-386
Cattiaux, P., Collet, P., Lambert, A.,
Martinez, S., Méléard, S., San Martin, J. (2009)
Quasi-stationary distributions and diffusion
models in population dynamics
Ann. Probab. 37
1926-1969
Aguilée, R., Claessen, D., Lambert, A.
(2009)
Allele fixation in a dynamic metapopulation:
Founder effects vs refuge effects
Theoret.
Pop. Biol. 76 105-117
Champagnat, N., Lambert, A. (2008)
Adaptive dynamics in logistic branching
populations
Banach Center Publ.
80 235-244
Lambert, A. (2008)
Population Dynamics and Random Genealogies
Stoch.
Models 24 45-163
Raquin, A.L., F. Depaulis, A. Lambert, N.
Galic, P. Brabant and I. Goldringer (2008)
Experimental estimation of mutation rates in a
wheat population with a gene genealogy approach
Genetics
179 2195-2211
Gonzalez, A., Lambert, A., Ricciardi, A.
(2008)
When does ecosystem engineering cause invasion
and species replacement?
Oikos 117 1247-1257
Chapron, G., Miquelle, D.G., Lambert, A.,
Goodrich, J. M., Legendre, S., Clobert, J. (2008)
The impact on tigers of poaching versus prey
depletion
J.
Appl. Ecology. 45 1667-1674
Champagnat, N., Lambert, A. (2007)
Evolution of discrete populations and the
canonical diffusion of adaptive dynamics
Ann. Appl.
Prob. 17 102-155
Lambert, A. (2007)
Quasistationary
distributions and the continuous-state branching process
conditioned to be never extinct
Elec. J. Prob.
12 420-446
Lambert, A. (2007)
Processus de branchement, génétique des
populations et généalogies aléatoires
Habilitation à diriger des recherches, Université Pierre et Marie
Curie (Univ Paris 06)
Lambert, A. (2006)
Probability of fixation under weak selection: a
branching process unifying approach
Theoret.
Pop. Biol. 69 419-441
Lambert, A. (2005)
The branching process with logistic growth
Ann. Appl.
Prob. 15 1506-1535
Initial manuscript
Lambert, A. (2003)
Coalescence times for the branching process
Adv. Appl.
Prob. 35 1071-1089
Lambert, A. (2002)
The genealogy of continuous-state branching
processes with immigration
Probab. Theory
Relat. Fields 122 42-70
Lambert, A. (2001)
The
joint law of ages and residual lifetimes for two schemes of
regenerative sets
Elec. J. Prob.
6 1-23
Lambert,
A. (2001)
Arbres, excursions et processus de Lévy
complètement asymétriques
PhD dissertation, Université Pierre et Marie Curie
Lambert, A. (2000)
Completely asymmetric Lévy processes confined
in a finite interval
Ann. Inst. H. Poincaré 36 251-274
...And for those who read Russian...
Chapron, G, Miquelle, D.G., Goodrich, J.
M., Lambert, A., Legendre, S., Clobert, J. (2005)
The effect of poaching on tigers in the Russian
Far East
Chapter 25 pp.191-195 in Tigers of Sikhote-Alin Zapovednik:
ecology and conservation, by Miquelle, D.G., J.G. Goodrich, and
E.N. Smirnov (eds.)