AMIGene: Annotation of MIcrobial Genes. - Stéphanie Bocs; Stéphane Cruveiller; David Vallenet; Grégory Nuel; Claudine Médigue (Nucleic Acids Res., 2003)

SPA: simple web tool to assess statistical significance of DNA patterns. - Hugues Richard; Grégory Nuel (Nucleic Acids Res., 2003)

LD-SPatt: Large Deviations Statistics for Patterns on Markov Chains. - Grégory Nuel (J. Comput. Biol., 2004)

seq++: analyzing biological sequences with a range of Markov-related models. - Vincent Miele; Pierre-Yves Bourguignon; David Robelin; Grégory Nuel; Hugues Richard (Bioinform., 2005)

S-SPatt: simple statistics for patterns on Markov chains. - Grégory Nuel (Bioinform., 2005)

Effective p-value computations using Finite Markov Chain Imbedding (FMCI): application to local score and to pattern statistics. - Grégory Nuel (Algorithms Mol. Biol., 2006)

Pattern statistics on Markov chains and sensitivity to parameter estimation. - Grégory Nuel (Algorithms Mol. Biol., 2006)

Waiting Time Distribution for Pattern Occurrence in a Constrained Sequence: an Embedding Markov Chain Approach. - Grégory Nuel (Discret. Math. Theor. Comput. Sci., 2008)

Counting Patterns in Degenerated Sequences. - Grégory Nuel (PRIB, 2009)

Kerfdr: a semi-parametric kernel-based approach to local false discovery rate estimation. - Mickaël Guedj; Stéphane Robin; Alain Celisse; Grégory Nuel (BMC Bioinform., 2009)

Exact distribution of a pattern in a set of random sequences generated by a Markov source: applications to biological data. - Grégory Nuel; Leslie Regad; Juliette Martin; Anne-Claude Camproux (Algorithms Mol. Biol., 2010)

Mining protein loops using a structural alphabet and statistical exceptionality. - Leslie Regad; Juliette Martin; Grégory Nuel; Anne-Claude Camproux (BMC Bioinform., 2010)

Features Extraction Using Free Score of Words for Classifying Conotoxin Superfamily. - Nazar Zaki; Piers Campbell; Stefan Wolfsheimer; Grégory Nuel (SNPD, 2011)

Conotoxin Protein Classification Using Free Scores of Words and Support Vector Machines. - Nazar Zaki; Stefan Wolfsheimer; Grégory Nuel; Sawsan Khuri (BMC Bioinform., 2011)

Exact Computation of Kullback-Leibler Distance for Hidden Markov Trees and Models - Vittorio Perduca; Grégory Nuel (CoRR, 2011)

Joint estimation of causal effects from observational and intervention gene expression data. - Andrea Rau; Florence Jaffrézic; Grégory Nuel (BMC Syst. Biol., 2013)

Fast estimation of posterior probabilities in change-point analysis through a constrained hidden Markov model. - The Minh Luong; Yves Rozenholc; Grégory Nuel (Comput. Stat. Data Anal., 2013)

Measuring the Influence of Observations in HMMs Through the Kullback-Leibler Distance. - Vittorio Perduca; Grégory Nuel (IEEE Signal Process. Lett., 2013)

Sparse approaches for the exact distribution of patterns in long state sequences generated by a Markov source. - Grégory Nuel; Jean-Guillaume Dumas (Theor. Comput. Sci., 2013)

Fast estimation of the Integrated Completed Likelihood criterion for change-point detection problems with applications to Next-Generation Sequencing data. - Alice Cleynen; The Minh Luong; Guillem Rigaill; Grégory Nuel (Signal Process., 2014)

Introduction. - Philippe Leray 001; Grégory Nuel (Rev. d'Intelligence Artif., 2015)

Estimation d'effets causaux dans les réseaux de régulation génique. Vers la grande dimension. - Gilles Monneret; Florence Jaffrézic; Andrea Rau; Grégory Nuel (Rev. d'Intelligence Artif., 2015)

Improving Note Segmentation in Automatic Piano Music Transcription Systems with a Two-State Pitch-Wise HMM Method. - Dorian Cazau; Yuancheng Wang; Olivier Adam; Qiao Wang; Grégory Nuel (ISMIR, 2017)

Computing Individual Risks Based on Family History in Genetic Disease in the Presence of Competing Risks. - Grégory Nuel; Alexandra Lefebvre; Olivier Bouaziz (Comput. Math. Methods Medicine, 2017)

Investigation on the use of Hidden-Markov Models in automatic transcription of music. - Dorian Cazau; Grégory Nuel (CoRR, 2017)

Calibration of a two-state pitch-wise HMM method for note segmentation in Automatic Music Transcription systems. - Dorian Cazau; Yuancheng Wang; Olivier Adam; Qiao Wang; Grégory Nuel (CoRR, 2017)

A sum-product algorithm with polynomials for computing exact derivatives of the likelihood in Bayesian networks. - Alexandra Lefebvre; Grégory Nuel (PGM, 2018)

Gaussian Sum-Product Networks Learning in the Presence of Interval Censored Data. - Pierre Clavier; Olivier Bouaziz; Grégory Nuel (PGM, 2020)

Polyhedral-based Modeling and Algorithms for Tolerancing Analysis. - Vincent Delos; Denis Teissandier; Alexander Malyshev; Grégory Nuel; Sonia C. García (Comput. Aided Des., 2021)

A Flexible Smoother Adapted to Censored Data With Outliers and Its Application to SARS-CoV-2 Monitoring in Wastewater. - Marie Courbariaux; Nicolas Cluzel; Siyun Wang; Vincent Maréchal; Laurent Moulin; Sébastien Wurtzer; Jean-Marie Mouchel; Yvon Maday; Grégory Nuel (Frontiers Appl. Math. Stat., 2022)

Gaussian Mixture Models in R. - Bastien Chassagnol; Antoine Bichat; Cheïma Boudjeniba; Pierre-Henri Wuillemin; Mickaël Guedj; David Gohel; Grégory Nuel; Etienne Becht (R J., 2023)

A review on the Adaptive-Ridge Algorithm with several extensions. - Rémy Abergel; Olivier Bouaziz; Grégory Nuel (Stat. Comput., 2024)

Spline regression with automatic knot selection. - Vivien Goepp; Olivier Bouaziz; Grégory Nuel (Comput. Stat. Data Anal., 2025)