Publications
2024
A.P.Z. Mota, G.D. Koutsovoulos, L. Perfus-Barbeoch et al. Unzipped genome assemblies of polyploid root-knot nematodes reveal unusual and clade-specific telomeric repeats. Nature Communications 15, 773 (2024). https://doi.org/10.1038/s41467-024-44914-y
2022
J. Labory, D. Pratella, J. Singh, J.-E. Yao, S. Ait-El-Mkadem Saadi S, S. Bannwarth, V. Paquis-Fluckinger, and S. Bottini. A Comprehensive overview of autoencoder algorithms to leverage the diagnosis of complex diseases. Research Aspects in Biological Sciences Vol. 9 (book chapter), 2022.
J. Labory, G. Le Bideau, D. Pratella, J.-E. Yao, S. Ait-El-Mkadem Saadi, S. Bannwarth, L. El-Hami, V. Paquis-Fluckinger, and S. Bottini. ABEILLE: a novel method for ABerrant Expression Identification empLoying machine Learning from RNA-sequencing data. Bioinformatics, 2022.
D. Pratella, V. Duboc, M. Milanesio, J. Boudjarane, S. Descombes, V. Paquis-Flucklinger, S. Bottini. GenomeMixer and TRUST: novel bioinformatics tools to improve reliability of Non-Invasive Prenatal Testing (NIPT) for fetal aneuploidies. Computational and Structural Biotechnology Journal, in press, 2022. https://doi.org/10.1016/j.csbj.2022.02.014.
V. Duboc, D. Pratella, M. Milanesio, J. Boudjarane, S. Descombes, V. Paquis-Flucklinger, S. Bottini. NiPTUNE: an automated pipeline for noninvasive prenatal testing in an accurate, integrative and flexible framework. Briefings in Bioinformatics, Volume 23, Issue 1, January 2022, bbab380, https://doi.org/10.1093/bib/bbab380.
2021
C. Bouveyron, J. Jacques, A. Schmutz, F. Simões and S. Bottini, Co-Clustering of Multivariate Functional Data for the Analysis of Air Pollution in the South of France. The Annals of Applied Statistics, in press, 2021.
D. Pratella, S. Ait-El-Mkadem Saadi, S. Bannwarth, V. Paquis-Fluckinger, and S. Bottini. A Survey of Autoencoder Algorithms to Pave the Diagnosis of Rare Diseases. International journal of molecular sciences, 2021.
2020
J. Labory, M. Fierville, S. Ait-El-Mkadem, S. Bannwarth, V. Paquis-Flucklinger, and S. Bottini. Multi-Omics approaches to improve mitochondrial disease diagnosis: challenges, advances and perspectives. Frontiers in Molecular Biology, 2020.
M. Corneli, C. Bouveyron, P. Latouche : Co-Clustering of Ordinal Data via Latent Continuous Random Variables and Not Missing at Random Entries. Journal of Computational and Graphical Statistics, March 2020.
L. Vanni, M. Corneli, D. Longrée, D. Mayaffre, F. Precioso. Key Passages : From statistics to Deep Learning. D. Fioredistella Iezzi; D. Mayaffre; Michelangelo Misuraca. Text Analytics. Advances and Challenges, Springer, pp.41-54, 2020, 978-3-030-52679-5. ⟨10.1007/978-3-030-52680-1_4⟩. ⟨hal-03099658⟩.
L. Vanni, M. Corneli, D. Longrée, D. Mayaffre, F. Precioso. Hyperdeep : deep learning descriptif pour l'analyse de données textuelles. JADT 2020 - 15èmes Journées Internationales d'Analyse statistique des Données Textuelles, June 2020, Toulouse, France. ⟨hal-02926880⟩