Marie-France Sagot - researchr alias

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2011

Bacterial syntenies: an exact approach with gene quorumYves-Pol Deniélou, Marie-France Sagot, Frédéric Boyer, Alain Viari. bmcbi, 12:193, 2011. [doi]

EIC EditorialMarie-France Sagot. tcbb, 8(2):289-291, 2011. [doi]

EIC EditorialMarie-France Sagot. tcbb, 8(1):1, 2011. [doi]

2010

A note on the complexity of finding and enumerating elementary modesVicente Acuña, Alberto Marchetti-Spaccamela, Marie-France Sagot, Leen Stougie. biosystems, 99(3):210-214, 2010. [doi]

Repetition-free longest common subsequenceSaid Sadique Adi, Marília D. V. Braga, Cristina G. Fernandes, Carlos Eduardo Ferreira, Fábio Viduani Martinez, Marie-France Sagot, Marco A. Stefanes, Christian Tjandraatmadja, Yoshiko Wakabayashi. DAM, 158(12):1315-1324, 2010. [doi]

Cassis: detection of genomic rearrangement breakpointsChristian Baudet, Claire Lemaitre, Zanoni Dias, Christian Gautier, Eric Tannier, Marie-France Sagot. bioinformatics, 26(15):1897-1898, 2010. [doi]

MetExplore: a web server to link metabolomic experiments and genome-scale metabolic networksLudovic Cottret, David Wildridge, Florence Vinson, Michael P. Barrett, Hubert Charles, Marie-France Sagot, Fabien Jourdan. nar, 38(Web-Server-Issue):132-137, 2010. [doi]

Enumerating Chemical Organisations in Consistent Metabolic Networks: Complexity and AlgorithmsPaulo Vieira Milreu, Vicente Acuña, Etienne Birmelé, Pierluigi Crescenzi, Alberto Marchetti-Spaccamela, Marie-France Sagot, Leen Stougie, Vincent Lacroix. wabi 2010: 226-237 [doi]

Mod/Resc Parsimony InferenceIgor Nor, Danny Hermelin, Sylvain Charlat, Jan Engelstadter, Max Reuter, Olivier Duron, Marie-France Sagot. cpm 2010: 202-213 [doi]

Identifying SNPs without a Reference Genome by Comparing Raw ReadsPierre Peterlongo, Nicolas Schnel, Nadia Pisanti, Marie-France Sagot, Vincent Lacroix. spire 2010: 147-158 [doi]

EIC EditorialMarie-France Sagot. tcbb, 7(2):193-194, 2010. [doi]

2009

Modes and cuts in metabolic networks: Complexity and algorithmsVicente Acuña, Flavio Chierichetti, Vincent Lacroix, Alberto Marchetti-Spaccamela, Marie-France Sagot, Leen Stougie. biosystems, 95(1):51-60, 2009. [doi]

Multiple Alignment of Biological Networks: A Flexible ApproachYves-Pol Deniélou, Frédéric Boyer, Alain Viari, Marie-France Sagot. cpm 2009: 263-273 [doi]

Lossless filter for multiple repeats with bounded edit distancePierre Peterlongo, Gustavo Akio Tominaga Sacomoto, Alair Pereira do Lago, Nadia Pisanti, Marie-France Sagot. almob, 4, 2009. [doi]

New EIC EditorialMarie-France Sagot. tcbb, 6(1):3, 2009. [doi]

EIC EditorialMarie-France Sagot. tcbb, 6(2):177, 2009. [doi]

ISMB/ECCB 2009 StockholmMarie-France Sagot, B. J. Morrison McKay, Gene Myers. bioinformatics, 25(12):1570-1573, 2009. [doi]

EIC Editorial: Introducing New Associate EditorsMarie-France Sagot. tcbb, 6(3):369, 2009. [doi]

Assessing the Exceptionality of Coloured Motifs in NetworksSophie Schbath, Vincent Lacroix, Marie-France Sagot. ejbsb, 2009, 2009. [doi]

2008

Repetition-free longest common subsequenceSaid Sadique Adi, Marília D. V. Braga, Cristina G. Fernandes, Carlos Eduardo Ferreira, Fábio Viduani Martinez, Marie-France Sagot, Marco A. Stefanes, Christian Tjandraatmadja, Yoshiko Wakabayashi. endm, 30:243-248, 2008. [doi]

A multiple layer model to compare RNA secondary structuresJulien Allali, Marie-France Sagot. SPE, 38(8):775-792, 2008. [doi]

Exploring the Solution Space of Sorting by Reversals, with Experiments and an Application to EvolutionMarília D. V. Braga, Marie-France Sagot, Celine Scornavacca, Eric Tannier. tcbb, 5(3):348-356, 2008. [doi]

Enumerating Precursor Sets of Target Metabolites in a Metabolic NetworkLudovic Cottret, Paulo Vieira Milreu, Vicente Acuña, Alberto Marchetti-Spaccamela, Fábio Viduani Martinez, Marie-France Sagot, Leen Stougie. wabi 2008: 233-244 [doi]

Efficient representation and ::::P::::-value computation for high-order Markov motifsPaulo G. S. da Fonseca, Katia S. Guimarães, Marie-France Sagot. eccb 2008: 160-166 [doi]

EditorialKatia S. Guimarães, Marie-France Sagot. jda, 6(2):163, 2008. [doi]

An Introduction to Metabolic Networks and Their Structural AnalysisVincent Lacroix, Ludovic Cottret, Patricia Thébault, Marie-France Sagot. tcbb, 5(4):594-617, 2008. [doi]

Precise detection of rearrangement breakpoints in mammalian chromosomesClaire Lemaitre, Eric Tannier, Christian Gautier, Marie-France Sagot. bmcbi, 9, 2008. [doi]

A small trip in the untranquil world of genomes: A survey on the detection and analysis of genome rearrangement breakpointsClaire Lemaitre, Marie-France Sagot. TCS, 395(2-3):171-192, 2008. [doi]

Indexing Gapped-Factors Using a TreePierre Peterlongo, Julien Allali, Marie-France Sagot. ijfcs, 19(1):71-87, 2008. [doi]

Lossless filter for multiple repetitions with Hamming distancePierre Peterlongo, Nadia Pisanti, Frédéric Boyer, Alair Pereira do Lago, Marie-France Sagot. jda, 6(3):497-509, 2008. [doi]

2007

The Solution Space of Sorting by ReversalsMarília D. V. Braga, Marie-France Sagot, Celine Scornavacca, Eric Tannier. isbra 2007: 293-304 [doi]

All maximal-pairs in step-leap representation of melodic sequenceEmilios Cambouropoulos, Maxime Crochemore, Costas S. Iliopoulos, Manal Mohamed, Marie-France Sagot. isci, 177(9):1954-1962, 2007. [doi]

Efficient Learning of Bayesian Network ClassifiersAlexandra M. Carvalho, Arlindo L. Oliveira, Marie-France Sagot. ausai 2007: 16-25 [doi]

Evolution under Reversals: Parsimony and Conservation of Common IntervalsYoan Diekmann, Marie-France Sagot, Eric Tannier. tcbb, 4(2):301-309, 2007. [doi]

The maximum agreement forest problem: Approximation algorithms and computational experimentsEstela Maris Rodrigues, Marie-France Sagot, Yoshiko Wakabayashi. TCS, 374(1-3):91-110, 2007. [doi]

Advances in Bioinformatics and Computational Biology, Second Brazilian Symposium on Bioinformatics, BSB 2007, Angra dos Reis, Brazil, August 29-31, 2007, ProceedingsMarie-France Sagot, Maria Emilia Telles Walter, editors, Volume 4643 of Lecture Notes in Computer Science, Springer, 2007.

Advances on sorting by reversalsEric Tannier, Anne Bergeron, Marie-France Sagot. DAM, 155(6-7):881-888, 2007. [doi]

2006

2005

A New Distance for High Level RNA Secondary Structure ComparisonJulien Allali, Marie-France Sagot. tcbb, 2(1):3-14, 2005. [doi]

A Multiple Graph Layers Model with Application to RNA Secondary Structures ComparisonJulien Allali, Marie-France Sagot. spire 2005: 348-359 [doi]

A Pattern Extraction Algorithm for Abstract Melodic Representations that Allow Partial Overlapping of Intervallic CategoriesEmilios Cambouropoulos, Maxime Crochemore, Costas S. Iliopoulos, Manal Mohamed, Marie-France Sagot. ismir 2005: 167-174 [doi]

A highly scalable algorithm for the extraction of CIS-regulatory regionsAlexandra M. Carvalho, Ana T. Freitas, Arlindo L. Oliveira, Marie-France Sagot. apbc 2005: 273-282 [doi]

A first approach to finding common motifs with gapsCostas S. Iliopoulos, James A. M. McHugh, Pierre Peterlongo, Nadia Pisanti, Wojciech Rytter, Marie-France Sagot. ijfcs, 16(6):1145-1154, 2005. [doi]

Reaction Motifs in Metabolic NetworksVincent Lacroix, Cristina G. Fernandes, Marie-France Sagot. wabi 2005: 178-191 [doi]

Lossless Filter for Finding Long Multiple Approximate Repetitions Using a New Data Structure, the Bi-factor ArrayPierre Peterlongo, Nadia Pisanti, Frédéric Boyer, Marie-France Sagot. spire 2005: 179-190 [doi]

Bases of Motifs for Generating Repeated Patterns with Wild CardsNadia Pisanti, Maxime Crochemore, Roberto Grossi, Marie-France Sagot. tcbb, 2(1):40-50, 2005. [doi]

Perfect Sorting by ReversalsMarie-France Sagot, Eric Tannier. cocoon 2005: 42-51 [doi]

2004

Novel Tree Edit Operations for RNA Secondary Structure ComparisonJulien Allali, Marie-France Sagot. wabi 2004: 412-425 [doi]

A parallel algorithm for the extraction of structured motifsAlexandra M. Carvalho, Arlindo L. Oliveira, Ana T. Freitas, Marie-France Sagot. SAC 2004: 147-153 [doi]

Efficient Extraction of Structured Motifs Using Box-LinksAlexandra M. Carvalho, Ana T. Freitas, Arlindo L. Oliveira, Marie-France Sagot. spire 2004: 267-268 [doi]

Longest Repeats with a Block of Don t CaresMaxime Crochemore, Costas S. Iliopoulos, Manal Mohamed, Marie-France Sagot. latin 2004: 271-278 [doi]

Longest Motifs with a Functionally Equivalent Central BlockMaxime Crochemore, Raffaele Giancarlo, Marie-France Sagot. spire 2004: 298-209 [doi]

A First Approach to Finding Common Motifs With GapsCostas S. Iliopoulos, James A. M. McHugh, Pierre Peterlongo, Nadia Pisanti, Wojciech Rytter, Marie-France Sagot. stringology 2004: 88-97 [doi]

Sorting by Reversals in Subquadratic TimeEric Tannier, Marie-France Sagot. cpm 2004: 1-13 [doi]

2003

Orphan gene finding - an exon assembly approachPhilippe Blayo, Pierre Rouzé, Marie-France Sagot. TCS, 290(3):1407-1431, 2003.

A Basis of Tiling Motifs for Generating Repeated Patterns and Its Complexity for Higher QuorumNadia Pisanti, Maxime Crochemore, Roberto Grossi, Marie-France Sagot. mfcs 2003: 622-631 [doi]

2002

Further Thoughts on the Syntenic Distance between GenomesNadia Pisanti, Marie-France Sagot. algorithmica, 34(2):157-180, 2002. [doi]

Occurrence Probability of Structured Motifs in Random SequencesStéphane Robin, Jean-Jacques Daudin, Hugues Richard, Marie-France Sagot, Sophie Schbath. jcb, 9(6):761-774, 2002.

2001

Computational Biology, First International Conference on Biology, Informatics, and Mathematics, JOBIM 2000, Montpellier, France, May 3-5, 2000, Selected PapersOlivier Gascuel, Marie-France Sagot, editors, Volume 2066 of Lecture Notes in Computer Science, Springer, 2001.

Some Approximation Results for the Maximum Agreement Forest ProblemEstela Maris Rodrigues, Marie-France Sagot, Yoshiko Wakabayashi. random 2001: 159-169 [doi]

2000

Algorithms for Extracting Structured Motifs Using a Suffix Tree with an Application to Promoter and Regulatory Site Consensus IdentificationLaurent Marsan, Marie-France Sagot. jcb, 7(3-4):345-362, 2000.

Extracting structured motifs using a suffix tree - algorithms and application to promoter consensus identificationLaurent Marsan, Marie-France Sagot. recomb 2000: 210-219 [doi]

1998

Spelling Approximate Repeated or Common Motifs Using a Suffix TreeMarie-France Sagot. latin 1998: 374-390 [doi]

Identifying satellites in nucleic acid sequencesMarie-France Sagot, Eugene W. Myers. recomb 1998: 234-242 [doi]

Identifying Satellites and Periodic Repetitions in Biological SequencesMarie-France Sagot, Eugene W. Myers. jcb, 5(3):539-554, 1998.

1997

Flexible Identification of Structural Objects in Nucleic Acid Sequences: Palindromes, Mirror Repeats, Pseudoknots and Triple HelicesMarie-France Sagot, Alain Viari. cpm 1997: 224-246

Multiple Sequence Comparison - A Peptide Matching ApproachMarie-France Sagot, Alain Viari, Henry Soldano. TCS, 180(1-2):115-137, 1997. [doi]

1996

A Double Combinatorial Approach to Discovering Patterns in Biological SequencesMarie-France Sagot, Alain Viari. cpm 1996: 186-208

1995

Finding flexible patterns in a text: an application to three-dimensional molecular matchingMarie-France Sagot, Alain Viari, Joël Pothier, Henry Soldano. bioinformatics, 11(1):59-70, 1995.

Multiple Sequence Comparison: A Peptide Matching ApproachMarie-France Sagot, Alain Viari, Henry Soldano. cpm 1995: 366-385

A Distance-Based Block Searching AlgorithmMarie-France Sagot, Alain Viari, Henry Soldano. ismb 1995: 322-331