Comparison and benchmark of deep learning methods for non-coding RNA classification. - Creux, Constance; Zehraoui, Farida; Radvanyi, François; Tahi, Fariza (PLoS Comput. Biol., 2024)

Prediction of Secondary Structure for Long Non-Coding RNAs using a Recursive Cutting Method based on Deep Learning. - Omnes, Loïc; Angel, Eric; Bartet, Pierre; Radvanyi, François; Tahi, Fariza (2023)

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

Assessing reproducibility of matrix factorization methods in independent transcriptomes. - Cantini, Laura; Kairov, Ulykbek; Reyniès, Aurélien de; Barillot, Emmanuel; Radvanyi, François; Zinovyev, Andrei Yu. (Bioinform., 2019)

SegCorr a statistical procedure for the detection of genomic regions of correlated expression. - Delatola, Eleni Ioanna; Lebarbier, Emilie; Mary-Huard, Tristan; Radvanyi, François; Robin, Stéphane; Wong, Jennifer (BMC Bioinform., 2017)

CoRegNet: reconstruction and integrated analysis of co-regulatory networks. - Nicolle, Rémy; Radvanyi, François; Elati, Mohamed (Bioinform., 2015)

Pepper: cytoscape app for protein complex expansion using protein-protein interaction networks. - Winterhalter, Charles; Nicolle, Rémy; Louis, A.; To, Cuong; Radvanyi, François; Elati, Mohamed (Bioinform., 2014)

HMCan: a method for detecting chromatin modifications in cancer samples using ChIP-seq data. - Ashoor, Haitham; Hérault, Aurélie; Kamoun, Aurélie; Radvanyi, François; Bajic, Vladimir B.; Barillot, Emmanuel; Boeva, Valentina (Bioinform., 2013)

Integrative Modelling of the Influence of MAPK Network on Cancer Cell Fate Decision. - Grieco, Luca; Calzone, Laurence; Bernard-Pierrot, Isabelle; Radvanyi, François; Kahn-Perlès, Brigitte; Thieffry, Denis (PLoS Comput. Biol., 2013)

Network Transformation of Gene Expression for Feature Extraction. - Nicolle, Rémy; Elati, Mohamed; Radvanyi, François (2012)

Gene List significance at-a-glance with GeneValorization. - Brancotte, Bryan; Biton, Anne; Bernard-Pierrot, Isabelle; Radvanyi, François; Reyal, Fabien; Boulakia, Sarah Cohen (Bioinform., 2011)

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

Fouille de données pour l'extraction de grands réseaux de régulation génétique. - Elati, Mohamed; Radvanyi, François; Rouveirol, Céline (Tech. Sci. Informatiques, 2007)

Computation of recurrent minimal genomic alterations from array-CGH data. - Rouveirol, Céline; Stransky, Nicolas; Hupé, Philippe; Rosa, Philippe La; Viara, Eric; Barillot, Emmanuel; Radvanyi, François (Bioinform., 2006)

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

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

ITTACA: a new database for integrated tumor transcriptome array and clinical data analysis. - Elfilali, Adil; Lair, Séverine; Verbeke, Catia; Rosa, Philippe La; Radvanyi, François; Barillot, Emmanuel (Nucleic Acids Res., 2006)

Identifying genes from up-down properties of microarray expression series. - Willbrand, Karen; Radvanyi, François; Nadal, Jean-Pierre; Thiery, Jean-Paul; Fink, Thomas M. A. (Bioinform., 2005)

Apprentissage de signatures de facteurs de transcription à partir de données d'expression. - Elati, Mohamed; Rouveirol, Céline; Radvanyi, François (2005)

Analysis of array CGH data: from signal ratio to gain and loss of DNA regions. - Hupé, Philippe; Stransky, Nicolas; Thiery, Jean-Paul; Radvanyi, François; Barillot, Emmanuel (Bioinform., 2004)

Local Pattern Discovery in Array-CGH Data. - Rouveirol, Céline; Radvanyi, François (2004)

Selecting biomedical data sources according to user preferences. - Boulakia, Sarah Cohen; Lair, Séverine; Stransky, Nicolas; Graziani, Stéphane; Radvanyi, François; Barillot, Emmanuel; Froidevaux, Christine (2004)

Bayesian Hierarchical Model for Identifying Changes in Gene Expression from Microarray Experiments. - Broët, Philippe; Richardson, Sylvia; Radvanyi, François (J. Comput. Biol., 2002)