VARNA: Interactive drawing and editing of the RNA secondary structure von Darty, Kévin, Denise, Alain, Ponty, Yann

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Finding recurrent RNA structural networks with fast maximal common subgraphs of edge-colored graphs von Soulé, Antoine, Reinharz, Vladimir, Sarrazin-Gendron, Roman, Denise, Alain, Waldispühl, Jérôme

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CoMetGeNe: mining conserved neighborhood patterns in metabolic and genomic contexts von Zaharia, Alexandra, Labedan, Bernard, Froidevaux, Christine, Denise, Alain

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Mechanisms for U2AF to define 3′ splice sites and regulate alternative splicing in the human genome von Shao, Changwei, Yang, Bo, Wu, Tongbin, Huang, Jie, Tang, Peng, Zhou, Yu, Zhou, Jie, Qiu, Jinsong, Jiang, Li, Li, Hairi, Chen, Geng, Sun, Hui, Zhang, Yi, Denise, Alain, Zhang, Dong-Er, Fu, Xiang-Dong

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On the predictibility of A-minor motifs from their local contexts von Gianfrotta, Coline, Reinharz, Vladimir, Lespinet, Olivier, Barth, Dominique, Denise, Alain

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GARN: Sampling RNA 3D Structure Space with Game Theory and Knowledge-Based Scoring Strategies von Boudard, Mélanie, Bernauer, Julie, Barth, Dominique, Cohen, Johanne, Denise, Alain

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GenRGenS: software for generating random genomic sequences and structures von Ponty, Yann, Termier, Michel, Denise, Alain

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Average complexity of the Jiang–Wang–Zhang pairwise tree alignment algorithm and of a RNA secondary structure alignment algorithm von Herrbach, Claire, Denise, Alain, Dulucq, Serge

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Mining for recurrent long-range interactions in RNA structures reveals embedded hierarchies in network families von Reinharz, Vladimir, Soulé, Antoine, Westhof, Eric, Waldispühl, Jérôme, Denise, Alain

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Optimisation Problems for Pairwise RNA Sequence and Structure Comparison: A Brief Survey von Denise, Alain, Rinaudo, Philippe

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On the predictibility of A-minor motifs from their local contexts von Gianfrotta, Coline, Reinharz, Vladimir, Lespinet, Olivier, Barth, Dominique, Denise, Alain

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Towards a computational model for −1 eukaryotic frameshifting sites von Bekaert, Michaël, Bidou, Laure, Denise, Alain, Duchateau-Nguyen, Guillemette, Forest, Jean-Paul, Froidevaux, Christine, Hatin, Isabelle, Rousset, Jean-Pierre, Termier, Michel

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Automated motif extraction and classification in RNA tertiary structures von Djelloul, Mahassine, Denise, Alain

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Rare Events and Conditional Events on Random Strings von Régnier, Mireille, Denise, Alain

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A unifying rank aggregation framework to suitably and efficiently aggregate any kind of rankings von Andrieu, Pierre, Cohen-Boulakia, Sarah, Couceiro, Miguel, Denise, Alain, Pierrot, Adeline

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Efficient, robust and effective rank aggregation for massive biological datasets von Andrieu, Pierre, Brancotte, Bryan, Bulteau, Laurent, Cohen-Boulakia, Sarah, Denise, Alain, Pierrot, Adeline, Vialette, Stéphane

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BRASERO: A Resource for Benchmarking RNA Secondary Structure Comparison Algorithms von d’Aubenton-Carafa, Yves, Chauve, Cédric, Saule, Cédric, Allali, Julien, Denise, Alain, Drevet, Christine, Ferraro, Pascal, Gautheret, Daniel, Herrbach, Claire, Leclerc, Fabrice, de Monte, Antoine, Ouangraoua, Aida, Sagot, Marie-France, Termier, Michel, Thermes, Claude, Touzet, Hélène

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A meta-approach for improving the prediction and the functional annotation of ortholog groups von Pereira, Cécile, Denise, Alain, Lespinet, Olivier

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Rank aggregation with ties: experiments and analysis von Brancotte, Bryan, Yang, Bo, Blin, Guillaume, Cohen-Boulakia, Sarah, Denise, Alain, Hamel, Sylvie

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GARN2: coarse-grained prediction of 3D structure of large RNA molecules by regret minimization von Boudard, Mélanie, Barth, Dominique, Bernauer, Julie, Denise, Alain, Cohen, Johanne

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