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Towards creating longer genetic sequences with GANs: Generation in principal component space

 Antoine Szatkownik , Cyril Furtlehner , Guillaume Charpiat , Burak Yelmen , Flora Jay
MLCB 2023 - 18th Conference on Machine Learning in Computational Biology, Nov 2023, Seattle, United States
Communication dans un congrès hal-04419057v1

Determination of genetic relatedness from low-coverage human genome sequences using pedigree simulations

 Michael Martin , Flora Jay , Sergi Castellano , Montgomery Slatkin
Molecular Ecology, 2017, 26 (16), pp.4145 - 4157. ⟨10.1111/mec.14188⟩
Article dans une revue hal-01676698v1
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dnadna: a deep learning framework for population genetics inference

 Théophile Sanchez , Erik Madison Bray , Pierre Jobic , Jérémy Guez , Anne-Catherine Letournel , et al.
Bioinformatics, 2023, 39 (1), ⟨10.1093/bioinformatics/btac765⟩
Article dans une revue hal-03352910v4
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Impact of yeast cell cycle specificity on demography inference

 Louis Ollivier , Flora Jay , Fanny Pouyet
JOBIM (Journées Ouvertes en Biologie, Informatique et Mathématiques ) 2022, Jul 2022, Rennes, France
Poster de conférence hal-04393823v1
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Dimension reduction adapted to paleogenomics

 Séverine Liégeois , Olivier François , Flora Jay
Paris-Saclay Junior Conference on Data Science and Engineering, Sep 2018, Orsay, France
Poster de conférence hal-01978650v1
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Creating Artificial Human Genomes Using Generative Models

 Burak Yelmen , Aurelien Decelle , Linda Ongaro , Davide Marnetto , Francesco Montinaro , et al.
2019
Pré-publication, Document de travail hal-02413942v1

Understanding and inferring cultural transmission of reproductive success

 Jérémy Guez , Guillaume Achaz , François Bienvenu , Jean Cury , Bruno Toupance , et al.
Probabilistic Modeling in Genomics, Mar 2022, Oxford, United Kingdom
Poster de conférence hal-04016758v1

Modèles à variables latentes en génétique des populations

 Flora Jay , Michael G B Blum , Olivier François
Journal de la Société Française de Statistique, 2011, 152, pp.3-20
Article dans une revue hal-00861855v1

Forecasting changes in population genetic structure of alpine plants in response to global warming.

 Flora Jay , Stéphanie Manel , Nadir Alvarez , Eric y Durand , Wilfried Thuiller , et al.
Molecular Ecology, 2012, 21 (10), pp.2354-68. ⟨10.1111/j.1365-294X.2012.05541.x⟩
Article dans une revue istex hal-00775883v1
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An ABC method for whole-­genome sequence data: inferring paleolithic and neolithic human expansions

 Flora Jay , Simon Boitard , Frédéric Austerlitz​
2018
Pré-publication, Document de travail hal-01896856v1

Inferring demographic history from whole genome using Approximate Bayesian Computation

 Simon S. Boitard , Flora Jay , Frédéric Austerlitz
Annual meeting of the American Society of Human Genetics (ASHG), Oct 2014, San Diego, United States. 2014
Poster de conférence hal-02793071v1
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Combiner arbres phylogénétiques et visualisation d'ensembles

 Jean-Baptiste Lamy , Flora Jay
Atelier Visualisation d'informations, interaction et fouille de données, Jan 2020, Bruxelles, Belgique
Communication dans un congrès hal-02968296v1

End-to-End Deep Learning Approach for Demographic History Inference

 Théophile Sanchez , Guillaume Charpiat , Flora Jay
Human Evolution: Fossils, Ancient and Modern Genomes 2017, Nov 2017, Hinxton, Cambridge, United Kingdom
Poster de conférence hal-01823543v1

Predictions of native American population structure using linguistic covariates in a hidden regression framework.

 Flora Jay , Olivier François , Michael G B Blum
PLoS ONE, 2011, 6 (1), pp.e16227. ⟨10.1371/journal.pone.0016227⟩
Article dans une revue hal-00655073v1
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Deep convolutional and conditional neural networks for large-scale genomic data generation

 Burak Yelmen , Aurélien Decelle , Leila Lea Boulos , Antoine Szatkownik , Cyril Furtlehner , et al.
PLoS Computational Biology, 2023, 19 (10), pp.e1011584. ⟨10.1101/2023.03.07.530442⟩
Article dans une revue hal-04244818v1

Reconstructing Past History from Whole-Genomes: An ABC Approach Handling Recombining Data

 Flora Jay , Simon Boitard , Fréderic Austerlitz
Human Heredity, 2016, 81 (4), pp.224-224
Article dans une revue hal-01602483v1
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Inference of population genetic structure from temporal samples of DNA

 Olivier François , Séverine Liégeois , Benjamin Demaille , Flora Jay
2019
Pré-publication, Document de travail hal-02413974v1
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Deep learning for population size history inference: Design, comparison and combination with approximate Bayesian computation

 Théophile Sanchez , Jean Cury , Guillaume Charpiat , Flora Jay
Molecular Ecology Resources, 2020, ⟨10.1111/1755-0998.13224⟩
Article dans une revue hal-02942328v1
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Creating artificial human genomes using generative neural networks

 Burak Yelmen , Aurélien Decelle , Linda Ongaro , Davide Marnetto , Corentin Tallec , et al.
PLoS Genetics, 2021, ⟨10.1371/journal.pgen.1009303⟩
Article dans une revue hal-03149930v1
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Simulation-based Benchmarking of Ancient Haplotype Inference for Detecting Population Structure

 Jazeps Medina Tretmanis , Flora Jay , María Ávila-Arcos , Emilia Huerta-Sanchez
2023
Pré-publication, Document de travail hal-04244011v1

Topological comparison of coalescent tree inference tools.

 Ferdinand Petit , Jérémy Guez , Fanny Pouyet , Bruno Toupance , Evelyne Heyer , et al.
Congress of the European Society for Evolutionary Biology, Aug 2022, Prague (Czech Republic), Czech Republic
Communication dans un congrès hal-03970653v1
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Variations de la taille d’une population : estimation à partir de génomes entiers.

 Simon Boitard , Willy Rodríguez , Flora Jay , Stefano Mona , Frédéric Austerlitz
GDR AIEM, Nov 2016, Montpellier, France
Communication dans un congrès hal-01605807v1
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Inferring Population Size History from Large Samples of Genome-Wide Molecular Data - An Approximate Bayesian Computation Approach.

 Simon Boitard , Willy Rodríguez , Flora Jay , Stefano Mona , Frederic Austerlitz
conférence Jaques Monod "Coalescence des approches théoriques et expérimentales en génomique évolutive et biologie des systèmes", 2016, Roscoff, France
Communication dans un congrès hal-01604024v1
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Demographic history and genetic structure in pre-Hispanic Central Mexico

 Viridiana Villa-Islas , Alan Izarraras-Gomez , Maximilian Larena , Elizabeth Mejía Perez Campos , Marcela Sandoval-Velasco , et al.
Science, 2023, 380 (6645), ⟨10.1126/science.add6142⟩
Article dans une revue hal-04244008v1
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Fast Inference of Individual Admixture Coefficients Using Geographic Data

 Kevin Caye , Flora Jay , Olivier J.J. Michel , Olivier François
Annals of Applied Statistics, 2018, 12 (1), pp.586-608. ⟨10.1214/17-AOAS1106⟩
Article dans une revue hal-01676712v1

Anisotropic Isolation by Distance: The Main Orientations of Human Genetic Differentiation.

 Flora Jay , Per Sjödin , Mattias Jakobsson , Michael G B Blum
Molecular Biology and Evolution, 2012, epub ahead of print. ⟨10.1093/molbev/mss259⟩
Article dans une revue hal-00775881v1

An Approximate Bayesian Computation approach to reconstruct demography from sequence data

 Simon S. Boitard , Flora Jay , Frédéric Austerlitz
Annual Meeting Society for Molecular Biology and Evolution (SMBE), Jul 2015, Vienne, Austria
Communication dans un congrès hal-02799621v1
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The MUC19 gene in Denisovans, Neanderthals, and Modern Humans: An Evolutionary History of Recurrent Introgression and Natural Selection

 Fernando Villanea , David Peede , Eli Kaufman , Valeria Añorve-Garibay , Kelsey Witt , et al.
2023
Pré-publication, Document de travail hal-04244022v1

SPI-DNA: End-to-end Deep Learning Approach for Demographic History Inference

 Théophile Sanchez , Guillaume Charpiat , Flora Jay
Paris-Saclay Junior Conference on Data Science and Engineering, Sep 2017, Orsay, France
Communication dans un congrès hal-01679385v1
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POPS: A Software for Prediction of Population Genetic Structure Using Latent Regression Models Olivier François Eric Y. Durand

 Flora Jay , Olivier François , Eric y Durand , Michael Gb Blum
Journal of Statistical Software, 2015, 68 (9), ⟨10.18637/jss.v068.i09⟩
Article dans une revue hal-01256474v1
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