VAMP: Visualization and analysis of array-CGH, transcriptome and other molecular profiles. - Philippe La Rosa; Eric Viara; Philippe Hupé; Gaëlle Pierron; Stéphane Liva; Pierre Neuvial; Isabel Brito 002; Séverine Lair; Nicolas Servant; Nicolas Robine; Elodie Manié; Caroline Brennetot; et al. (Bioinform., 2006)

Spatial normalization of array-CGH data. - Pierre Neuvial; Philippe Hupé; Isabel Brito 002; Stéphane Liva; Elodie Manié; Caroline Brennetot; François Radvanyi; Alain Aurias; Emmanuel Barillot (BMC Bioinform., 2006)

CAPweb: a bioinformatics CGH array Analysis Platform. - Stéphane Liva; Philippe Hupé; Pierre Neuvial; Isabel Brito 002; Eric Viara; Philippe La Rosa; Emmanuel Barillot (Nucleic Acids Res., 2006)

LICORN: learning cooperative regulation networks from gene expression data. - Mohamed Elati; Pierre Neuvial; Monique Bolotin-Fukuhara; Emmanuel Barillot; François Radvanyi; Céline Rouveirol (Bioinform., 2007)

Contributions to the statistical analysis of microarray data. (Contributions à l'analyse statistique des données de puces à ADN). - Pierre Neuvial (2009)

TumorBoost: Normalization of allele-specific tumor copy numbers from a single pair of tumor-normal genotyping microarrays. - Henrik Bengtsson; Pierre Neuvial; Terence P. Speed (BMC Bioinform., 2010)

Parent-specific copy number in paired tumor-normal studies using circular binary segmentation. - Adam B. Olshen; Henrik Bengtsson; Pierre Neuvial; Paul T. Spellman; Richard A. Olshen; Venkatraman E. Seshan (Bioinform., 2011)

CalMaTe: a method and software to improve allele-specific copy number of SNP arrays for downstream segmentation. - Maria Ortiz-Estevez; Ander Aramburu; Henrik Bengtsson; Pierre Neuvial; Angel Rubio (Bioinform., 2012)

Asymptotic results on adaptive false discovery rate controlling procedures based on kernel estimators. - Pierre Neuvial (J. Mach. Learn. Res., 2013)

Performance evaluation of DNA copy number segmentation methods. - Morgane Pierre-Jean; Guillem Rigaill; Pierre Neuvial (Briefings Bioinform., 2015)

tmle.npvi: targeted, integrative search of associations between DNA copy number and gene expression, accounting for DNA methylation. - Antoine Chambaz; Pierre Neuvial (Bioinform., 2015)

Performance of a blockwise approach in variable selection using linkage disequilibrium information. - Alia Dehman; Christophe Ambroise; Pierre Neuvial (BMC Bioinform., 2015)

Adjacency-constrained hierarchical clustering of a band similarity matrix with application to genomics. - Christophe Ambroise; Alia Dehman; Pierre Neuvial; Guillem Rigaill; Nathalie Villa-Vialaneix (Algorithms Mol. Biol., 2019)

Contributions to statistical inference from genomic data. (Contributions à l'inférence statistique pour des données génomiques). - Pierre Neuvial (2020)

Applicability and Interpretability of Ward's Hierarchical Agglomerative Clustering With or Without Contiguity Constraints. - Nathanaël Randriamihamison; Nathalie Vialaneix; Pierre Neuvial (J. Classif., 2021)

Identification of deregulation mechanisms specific to cancer subtypes. - Magali Champion; Julien Chiquet; Pierre Neuvial; Mohamed Elati; François Radvanyi; Etienne Birmelé (J. Bioinform. Comput. Biol., 2021)

Notip: Non-parametric true discovery proportion control for brain imaging. - Alexandre Blain; Bertrand Thirion; Pierre Neuvial (NeuroImage, 2022)

Powerful and interpretable control of false discoveries in two-group differential expression studies. - Nicolas Enjalbert-Courrech; Pierre Neuvial (Bioinform., 2022)

False Discovery Proportion control for aggregated Knockoffs. - Alexandre Blain; Bertrand Thirion; Olivier Grisel; Pierre Neuvial (NeurIPS, 2023)

A comprehensive review and benchmark of differential analysis tools for Hi-C data. - Elise Jorge; Sylvain Foissac; Pierre Neuvial; Matthias Zytnicki; Nathalie Vialaneix (Briefings Bioinform., 2025)