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Estimating the evolution history of species from genome sequences

Simon Boitard , Olivier Mazet , Bertrand Servin
Master. CIMI, Semestre mathématiques et informatique pour les sciences du vivant, 2017
Lectures hal-02786126v1
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Environmentally Mediated Social Dilemmas

Sylvie Estrela , Eric Libby , Jeremy van Cleve , Florence Débarre , Maxime Deforet et al.
Trends in Ecology and Evolution, 2018, 34 (1), pp.6-18. ⟨10.1016/j.tree.2018.10.004⟩
Journal articles hal-01941198v1
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Classification Ascendante Hiérarchique sous Contrainte de Contiguïté pour l’Analyse de données Hi-C

Nathanaël Randriamihamison
Génétique. Université Paul Sabatier - Toulouse III, 2021. Français. ⟨NNT : 2021TOU30108⟩
Theses tel-03424118v2
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Impact of model assumptions on demographic inferences: the case study of two sympatric mouse lemurs in northwestern Madagascar

Helena Teixeira , Jordi Salmona , Armando Arredondo , Beatriz Mourato , Sophie Manzi et al.
BMC Ecology and Evolution, 2021, 21 (1), ⟨10.1186/s12862-021-01929-z⟩
Journal articles hal-03412689v1
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Demographic inference using genetic data from a single individual: separating population size variation from population structure

Olivier Mazet , Willy Rodríguez , Lounès Chikhi
Theoretical Population Biology, 2015, 104, pp.46 - 58. ⟨10.1016/j.tpb.2015.06.003⟩
Journal articles hal-01087849v1

Lymphatic Vasculature Requires Estrogen Receptor- Signaling to Protect From Lymphedema

Florent Morfoisse , Florence Tatin , Benoit Chaput , Nicole Therville , Charlotte Vaysse et al.
Arteriosclerosis, Thrombosis, and Vascular Biology, 2018, 38 (6), pp.1346-1357. ⟨10.1161/ATVBAHA.118.310997⟩
Journal articles hal-01863214v1

Deleterious impact of feto-maternal MHC compatibility on the success of pregnancy in a macaque model

Alice Aarnink , Edward Mee , Nicolas Savy , Nicola Congy-Jolivet , Nicola Rose et al.
Immunogenetics, In press, 66 (2), pp.105 - 113. ⟨10.1007/s00251-013-0752-3⟩
Journal articles hal-01864282v1

Reconstitution of the Yeast RNA Polymerase III Transcription System with All Recombinant Factors

Cécile Ducrot , Olivier Lefebvre , Emilie Landrieux , Josee Guirouilh-Barbat , André Sentenac et al.
Journal of Biological Chemistry, 2006, 281 (17), pp.11685-11692. ⟨10.1074/jbc.M600101200⟩
Journal articles hal-03048199v1

Transformation and model choice for RNA-seq co-expression analysis

Andrea Rau , Cathy Maugis Rabusseau
Briefings in Bioinformatics, 2018, 19 (3), pp.425-436. ⟨10.1093/bib/bbw128⟩
Journal articles hal-02624483v1
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The Structure of a Gene Co-Expression Network Reveals Biological Functions Underlying eQTLs

Nathalie Villa-Vialaneix , Laurence Liaubet , Thibault Laurent , Pierre Cherel , Adrien Gamot et al.
PLoS ONE, 2013, pp.e60045
Journal articles hal-00817655v1

Exact calculation of the expected SFS in structured populations

Armando Arredondo , Josué M. Corujo , Camille Nous , Simon Boitard , Lounes Chikhi et al.
Preprints, Working Papers, ... hal-04096859v1
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Accounting for Linkage Disequilibrium in genome scans for selection without individual genotypes : the local score approach

Maria Inès M. I. Fariello Rico , Simon Boitard , Sabine Mercier , Magali San Cristobal
Methods in Ecology and Evolution, May 2017, Montpellier, France
Conference papers hal-02789038v1
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Mimicking human neuronal pathways in silico: an emergent model on the effective connectivity

Önder Gürcan , Kemal Türker , Jean-Pierre Mano , Carole Bernon , Oguz Dikenelli et al.
Journal of Computational Neuroscience, 2014, vol. 36 (n° 2), pp. 235-257. ⟨10.1007/s10827-013-0467-3⟩
Journal articles hal-01154249v1
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Using ASICS to quantify metabolites in 1D 1H NMR spectra: an application to perinatal survival in pigs

Gaëlle Lefort , Laurence Liaubet , Patrick Tardivel , Cécile Canlet , Marie Tremblay-Franco et al.
Journée des Plateformes BioInfo et BioStat du Génotoul, Jan 2018, Toulouse, France
Conference papers hal-02788399v1
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Reconstructing the demographic history of populations from genomic data

Willy Rodríguez
Applications [stat.AP]. INSA Toulouse, 2016. English. ⟨NNT : ⟩
Theses tel-01846075v1
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Sporadic and Familial Variants in NF1: An Explanation of the Wide Variability in Neurocognitive Phenotype?

Maëlle Biotteau , Sébastien Dejean , Sandrine Lelong , Stéphanie Iannuzzi , Nathalie Faure-Marie et al.
Frontiers in Neurology, 2020, 11, pp.368. ⟨10.3389/fneur.2020.00368⟩
Journal articles hal-02614595v1
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Temporal Dynamics of Host Molecular Responses Differentiate Symptomatic and Asymptomatic Influenza A Infection.

Yongsheng Huang , Aimee K. Zaas , Arvind Rao , Nicolas Dobigeon , Peter J. Woolf et al.
PLoS Genetics, 2011, 7 (8), pp.1-17. ⟨10.1371/journal.pgen.1002234⟩
Journal articles hal-03545137v1
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De-anonymizing Genomic Databases Using Phenotypic Traits

Mathias Humbert , Kévin Huguenin , Joachim Hugonot , Erman Ayday , Jean-Pierre Hubaux et al.
15th Privacy Enhancing Technologies Symposium (PETS), Jun 2015, Philadelphia, PA, United States. pp.99-114, ⟨10.1515/popets-2015-0020⟩
Conference papers hal-01151960v1
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Heterogeneity in effective size across the genome: effects on the Inverse Instantaneous Coalescence Rate (IICR) and implications for demographic inference under linked selection

Simon Boitard , Armando Arredondo , Lounès Chikhi , Olivier Mazet
Rencontres Alphy/AIEM, UMR6553 ECOBIO, Mar 2022, Rennes, France
Conference papers hal-03649541v1

Clustering of co-expressed genes

Andrea Rau , Marie-Laure Magniette , Cathy Maugis-Rabusseau
Model Choice and Model Aggregation, Editions Technip, 372 p., 2017, 9782710811770
Book sections hal-02789928v1

A genetic linkage map of the rat derived from recombinant inbred strains.

M Pravenec , D Gauguier , J J Schott , J Buard , V Kren et al.
Mammalian Genome, 1996, 7 (2), pp.117-27. ⟨10.1007/s003359900031⟩
Journal articles istex hal-01160656v1
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Phenotypic Trait Variation as a Response to Altitude-Related Constraints in Arabidopsis Populations

Harold Duruflé , Philippe Ranocha , Duchesse Lacour Mbadinga Mbadinga , Sébastien Dejean , Maxime Bonhomme et al.
Frontiers in Plant Science, 2019, 10, pp.430. ⟨10.3389/fpls.2019.00430⟩
Journal articles hal-02115698v1

The multi-actor PPILOW European project: a participative approach to co-build innovations for welfare improvement in organic pig and poultry farms

Cristina Micheloni , An Jamart , Martina Re , Laura van Vooren , Jarkko Niemi et al.
Organic World Congress 2021, IFOAM, Sep 2021, Rennes, France. pp.42-43
Conference papers hal-03629772v1
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Inferring number of populations and changes in connectivity under the n-island model

Armando Arredondo , Beatriz Mourato , Khoa Nguyen , Simon Boitard , Willy Rodríguez et al.
Heredity, 2021, 126 (6), pp.896-912. ⟨10.1101/2020.09.03.282251⟩
Journal articles hal-03086685v1
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Clustering transformed compositional data using K-means, with applications in gene expression and bicycle sharing system data

Antoine Godichon-Baggioni , Cathy Maugis-Rabusseau , Andrea Rau
Preprints, Working Papers, ... hal-02789763v1

hca: an Arabidopsis mutant exhibiting unusual cambial activity and altered vascular patterning

Christophe Pineau , Amandine Freydier , Philippe Ranocha , Alain Jauneau , Simon Turner et al.
Plant Journal, 2005, 44 (2), pp.271-289. ⟨10.1111/j.1365-313X.2005.02526.x⟩
Journal articles hal-02678609v1
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Handling missing rows in multi-omics data integration: multiple imputation in multiple factor analysis framework

Valentin Voillet , Philippe Besse , Laurence Liaubet , Magali San Cristobal , Ignacio González et al.
BMC Bioinformatics, 2016, 17, 16 p. ⟨10.1186/s12859-016-1273-5⟩
Journal articles hal-02636549v1

TGF-β1 and GDF5 Act Synergistically to Drive the Differentiation of Human Adipose Stromal Cells toward Nucleus Pulposus -like Cells

Pauline Colombier , Johann Clouet , Cécile Boyer , Maëva Ruel , Gaëlle Bonin et al.
STEM CELLS, 2016, 34 (3), pp.653-667. ⟨10.1002/STEM.2249⟩
Journal articles hal-03048645v1

PPILOW: innovations for improving animal welfare and human well-being in low-input outdoor and organic poultry and pig production systems

Lucia Rocchi , Anne Collin , Giuditta Meloni , Claire Bonnefous , Martina Re et al.
One Welfare World Conference, 2021, One Welfare CIC, Sep 2021, Online meeting, Spain. pp.46
Conference papers hal-03632430v1
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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 , Frédéric Austerlitz et al.
PLoS Genetics, 2016, 12 (3), pp.e1005877. ⟨10.1371/journal.pgen.1005877⟩
Journal articles hal-01310742v1