Yvan Le Bras, Olivier Collin, Cyril Monjeaud, Vincent Lacroix, Eric Rivals, et al.. Colib’read on galaxy: a tools suite dedicated to biological information extraction from raw NGS reads. GigaScience, BioMed Central, 2016, 5 (1), ⟨10.1186/s13742-015-0105-2⟩. ⟨hal-01280238⟩

Justine Rudewicz, Hayssam Soueidan, Raluca Uricaru, Hervé Bonnefoi, Richard Iggo, et al.. MICADo - Looking for mutations in targeted PacBio cancer data: an alignment-free method. Frontiers in Genetics, Frontiers, 2016, ⟨10.3389/fgene.2016.00214⟩. ⟨hal-01409750⟩

Raluca Uricaru, Célia Michotey, Hélène Chiapello, Eric Rivals. YOC, A new strategy for pairwise alignment of collinear genomes. BMC Bioinformatics, BioMed Central, 2015, 16 (1), pp.16:111. ⟨10.1186/s12859-015-0530-3⟩. ⟨lirmm-01170968⟩

Patricia Thebault, Romain Bourqui, Benchimol William, Christine Gaspin, Pascal Sirand-Pugnet, et al.. Advantages of mixing bioinformatics and visualization approaches for analyzing sRNA-mediated regulatory bacterial networks.. Briefings in Bioinformatics, Oxford University Press (OUP), 2015, 16 (5), pp.1-11. ⟨10.1093/bib/bbu045⟩. ⟨hal-01090907⟩

Gaëtan Benoit, Claire Lemaitre, Dominique Lavenier, Erwan Drezen, Thibault Dayris, et al.. Reference-free compression of high throughput sequencing data with a probabilistic de Bruijn graph. BMC Bioinformatics, BioMed Central, 2015, 16 (1), ⟨10.1186/s12859-015-0709-7⟩. ⟨hal-01214682⟩

Raluca Uricaru, Guillaume Rizk, Vincent Lacroix, Elsa Quillery, Olivier Plantard, et al.. Reference-free detection of isolated SNPs. Nucleic Acids Research, Oxford University Press, 2014, 43 (2), pp.e11. ⟨10.1093/nar/gku1187⟩. ⟨hal-01083715⟩

Gustavo Sacomoto, Janice Kielbassa, Rayan Chikhi, Raluca Uricaru, Pavlos Antoniou, et al.. KISSPLICE: de-novo calling alternative splicing events from RNA-seq data. BMC Bioinformatics, BioMed Central, 2012, 13 (Suppl 6), pp.S5. ⟨10.1186/1471-2105-13-S6-S5⟩. ⟨hal-00784407⟩

Alban Mancheron, Raluca Uricaru, Eric Rivals. An Alternative Approach to Multiple Genome Comparison. Nucleic Acids Research, Oxford University Press, 2011, 39 (15), pp.e101. ⟨10.1093/nar/gkr177⟩. ⟨lirmm-00620931⟩

Raluca Uricaru, Alban Mancheron, Eric Rivals. Novel definition and algorithm for chaining fragments with proportional overlaps. Journal of Computational Biology, Mary Ann Liebert, 2011, 18 (9), pp.1141-1154. ⟨10.1089/cmb.2011.0126⟩. ⟨lirmm-00834143⟩

Eric Rivals, Alban Mancheron, Raluca Uricaru. Reliable Bacterial Genome Comparison Tools. ERCIM News, ERCIM, 2010, 82, pp.017-018. ⟨lirmm-00511509⟩

Tristan Braquelaire, Marie Gasparoux, Mathieu Raffinot, Raluca Uricaru. On the Shortest Common Superstring of NGS Reads. Theory and Applications of Models of Computation, Apr 2017, Bern, Switzerland. pp.97-111, ⟨10.1007/978-3-319-55911-7_8⟩. ⟨hal-02492119⟩

Raluca Uricaru, Alban Mancheron, Eric Rivals. Novel Definition and Algorithm for Chaining Fragments with Proportional Overlaps. RECOMB-CG: Comparative Genomics, Oct 2010, Ottawa, Canada. pp.161-172, ⟨10.1007/978-3-642-16181-0_14⟩. ⟨lirmm-00527915⟩

Alban Mancheron, Raluca Uricaru, Eric Rivals. Ehrlichia Ruminantium Genome Segmentations Reveal Novel Homologous Genes. ISCB Africa ASBCB Joint Conference on Bioinformatics of Infectious Diseases, Nov 2009, Bamako, Mali. ⟨lirmm-00491362⟩

Raluca Uricaru, Célia Michotey, Laurent Noé, Hélène Chiapello, Eric Rivals. Improved Sensitivity And Reliability Of Anchor Based Genome Alignment. JOBIM'09 : Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2009, Nantes, France. pp.31-36. ⟨lirmm-00407215⟩

Raluca Uricaru, Célia Michotey, Laurent Noé, Helene Chiapello, Eric Rivals. Improved sensitivity and reliability of anchor based genome alignment. JOBIM - Journées Ouvertes en Biologie Informatique Mathématiques2009 - Nantes :, Jun 2009, Nantes, France. 259 p. ⟨hal-02751358⟩

Raluca Uricaru, Laurent Brehelin, Eric Rivals. A new type of Hidden Markov Models to predict complex domain architecture in protein sequences. JOBIM: Journées Ouvertes Biologie, Informatique, Mathématiques, Jul 2007, Marseille, France. pp.97-102. ⟨lirmm-00195493⟩

Raluca Uricaru, Laurent Brehelin, Eric Rivals. A new type of Hidden Markov Models to predict complex motif organization in protein sequences. Integrative Post-Genomics, 2006, Lyon, pp.43. ⟨lirmm-00120171⟩

Justine Rudewicz, Hayssam Soueidan, Raluca Uricaru, Richard Iggo, Jonas Bergh, et al.. Looking for mutations in PacBio cancer data: an alignment-free method. JOBIM 2015, Jul 2015, Clermont-Ferrand, France. ⟨hal-01254846⟩

Susete Alves Carvalho, Raluca Uricaru, Jorge Duarte, Claire Lemaitre, Nathalie Rivière, et al.. Reference-free high-throughput SNP detection in pea: an example of discoSnp usage for a non-model complex genome. ECCB 2014, Sep 2014, Strasbourg, France. ⟨hal-01091184⟩

Gilles Boutet, J. Duarte, Susete Alves Carvalho, Clément Lavaud, Raluca Uricaru, et al.. SNP discovery in pea: a powerful tool for academic research and breeding. 6. International Food Legumes Research Conference (IFLRC VI), Jul 2014, Saskatook, Canada. 2014. ⟨hal-01208702⟩

Alban Mancheron, Raluca Uricaru, Eric Rivals. A Novel Approach for Comparative Genomics & Annotation Transfer. 2010. ⟨lirmm-00491326v2⟩

Tristan Braquelaire, Marie Gasparoux, Mathieu Raffinot, Raluca Uricaru. On improving the approximation ratio of the r-shortest common superstring problem. 2019. ⟨hal-02414032⟩

Gustavo Akio Tominaga Sacomoto, J. Kielbassa, Pavlos Antoniou, Rayan Chikhi, Raluca Uricaru, et al.. kisSplice, détection d'évènements d'épissages alternatifs dans les données RNA-seq. [Research Report] RR-7852, INRIA. 2011, pp.12. ⟨hal-00654249v2⟩

Raluca Uricaru. Algorithms for genome comparison applied to bacterial genomes. Bioinformatics [q-bio.QM]. Université Montpellier 2, 2010. English. ⟨tel-01084551⟩