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Ligne 4 : Ligne 4 :
 
weighted csps. Journal of Artificial Intelligence Research, 35, 2009.
 
weighted csps. Journal of Artificial Intelligence Research, 35, 2009.
  
Matthieu Vignes and Florence Forbes. Gene clustering via integrated markov
+
M Vignes and F Forbes. Gene clustering via integrated markov
 
models combining individual and pairwise features. IEEE/ACM Transactions on
 
models combining individual and pairwise features. IEEE/ACM Transactions on
 
Computational Biology and Bioinformatics, 6(2):260-270, apr 2009.
 
Computational Biology and Bioinformatics, 6(2):260-270, apr 2009.
Ligne 35 : Ligne 35 :
 
Genome Research, A paraître, 2009.
 
Genome Research, A paraître, 2009.
  
Juliette Blanchet and Matthieu Vignes. A model-based approach to gene
+
J Blanchet and M Vignes. A model-based approach to gene
 
clustering with missing observation reconstruction in a markov random field
 
clustering with missing observation reconstruction in a markov random field
 
framework. Journal of Computational Biology, 16(3):475-486, mar 2009.
 
framework. Journal of Computational Biology, 16(3):475-486, mar 2009.
Ligne 42 : Ligne 42 :
 
thesis, Université Paul Sabatier, Toulouse, Toulouse, France, Juin 2009.
 
thesis, Université Paul Sabatier, Toulouse, Toulouse, France, Juin 2009.
  
Lionel Dupuy, Matthieu Vignes, Blair McKenzie, and Philip White. Meristematic
+
L Dupuy, M Vignes, B McKenzie, and P White. Meristematic
 
waves, a new approach to model root architecture dynamics. In Proceedings of
 
waves, a new approach to model root architecture dynamics. In Proceedings of
 
the 10th JOBIM, Nantes, June 2009.
 
the 10th JOBIM, Nantes, June 2009.
Ligne 58 : Ligne 58 :
 
13(1):130-154, 2008.
 
13(1):130-154, 2008.
  
Céline Noirot, Christine Gaspin, Thomas Schiex, and Jérôme Gouzy. LeARN: a
+
C Noirot, C Gaspin, T Schiex, and J Gouzy. LeARN: a
 
platform for detecting, clustering and annotating non-coding RNAs. BMC
 
platform for detecting, clustering and annotating non-coding RNAs. BMC
 
Bioinformatics, 9:21, 2008.
 
Bioinformatics, 9:21, 2008.
  
Brigitte Mangin, Pauline Garnier-Gere, and Christine Cierco-Ayrolles. The
+
B Mangin, P Garnier-Gere, and C Cierco-Ayrolles. The
 
estimator of the optimal measure of allelic association: Mean, variance and
 
estimator of the optimal measure of allelic association: Mean, variance and
 
probability distribution when the sample size tends to infinity. Statistical
 
probability distribution when the sample size tends to infinity. Statistical
Ligne 78 : Ligne 78 :
 
platform. Current Bioinformatics, 3(2):87-97, 5 2008.
 
platform. Current Bioinformatics, 3(2):87-97, 5 2008.
  
Olivier Filangi, Yoann Beausse, Anthony Assi, Ludovic Legrand, Jean-Marc
+
O Filangi, Y Beausse, A Assi, L Legrand, JM
Larré, Véronique Martin, Olivier Collin, Christophe Caron, Hugues Leroy, and
+
Larré, V Martin, O Collin, C Caron, H Leroy, and
David Allouche. Biomaj: a flexible framework for databanks synchronization and
+
D Allouche. Biomaj: a flexible framework for databanks synchronization and
 
processing. Bioinformatics, 24(16):1823-5, Aug 2008.
 
processing. Bioinformatics, 24(16):1823-5, Aug 2008.
  
Ligne 99 : Ligne 99 :
 
by reversals. Information Processing Letters, 106(3):90-95, 4 2008.
 
by reversals. Information Processing Letters, 106(3):90-95, 4 2008.
  
Pierre Abad, Jérôme Gouzy, Jean-Marc Aury, Philippe Castagnone-Sereno, Etienne
+
P Abad, J Gouzy, JM Aury, P Castagnone-Sereno, EGJ Danchin, E Deleury, L Perfus-Barbeoch, V Anthouard,
G J Danchin, Emeline Deleury, Laetitia Perfus-Barbeoch, Véronique Anthouard,
+
F Artiguenave, VC Blok, MC Caillaud, PM Coutinho,
François Artiguenave, Vivian C Blok, Marie-Cécile Caillaud, Pedro M Coutinho,
+
C Dasilva, F De Luca, F Deau, M Esquibet, T
Corinne Dasilva, Francesca De Luca, Florence Deau, Magali Esquibet, Timothé
+
Flutre, JV Goldstone, N Hamamouch, T Hewezi, O
Flutre, Jared V Goldstone, Noureddine Hamamouch, Tarek Hewezi, Olivier
+
Jaillon, C Jubin, P Leonetti, M Magliano, TR Maier, GV
Jaillon, Claire Jubin, Paola Leonetti, Marc Magliano, Tom R Maier, Gabriel V
+
Markov, P McVeigh, G Pesole, J Poulain, M Robinson-Rechavi,
Markov, Paul McVeigh, Graziano Pesole, Julie Poulain, Marc Robinson-Rechavi,
+
E Sallet, B Ségurens, D Steinbach, T Tytgat, E
Erika Sallet, Béatrice Ségurens, Delphine Steinbach, Tom Tytgat, Edgardo
+
Ugarte, C van Ghelder, P Veronico, TJ Baum, M Blaxter,
Ugarte, Cyril van Ghelder, Pasqua Veronico, Thomas J Baum, Mark Blaxter,
+
T Bleve-Zacheo, EL Davis, JJ Ewbank, B Favery, E
Teresa Bleve-Zacheo, Eric L Davis, Jonathan J Ewbank, Bruno Favery, Eric
+
Grenier, B Henrissat, JT Jones, V Laudet, AG Maule, H
Grenier, Bernard Henrissat, John T Jones, Vincent Laudet, Aaron G Maule, Hadi
+
Quesneville, MN Rosso, T Schiex, G Smant, J Weissenbach,
Quesneville, Marie-Noëlle Rosso, Thomas Schiex, Geert Smant, Jean Weissenbach,
 
 
and Patrick Wincker. Genome sequence of the metazoan plant-parasitic nematode
 
and Patrick Wincker. Genome sequence of the metazoan plant-parasitic nematode
 
meloidogyne incognita. Nat Biotechnol, 26(8):909-15, Aug 2008.
 
meloidogyne incognita. Nat Biotechnol, 26(8):909-15, Aug 2008.
Ligne 119 : Ligne 118 :
 
motif localization. In Proc. of JOBIM'2007, Marseille, France, 2007.
 
motif localization. In Proc. of JOBIM'2007, Marseille, France, 2007.
  
Aparna Prasad, Thomas Schiex, Stephanie McKay, Brenda Murdoch, Zhiquan Wang,
+
A Prasad, T Schiex, S McKay, B Murdoch, Z Wang,
James E Womack, Paul Stothard, and Stephen S Moore. High resolution radiation
+
JE Womack, P Stothard, and SS Moore. High resolution radiation
 
hybrid maps of bovine chromosomes 19 and 29: comparison with the bovine genome
 
hybrid maps of bovine chromosomes 19 and 29: comparison with the bovine genome
 
sequence assembly. BMC Genomics, 8:310, 2007.
 
sequence assembly. BMC Genomics, 8:310, 2007.
Ligne 136 : Ligne 135 :
 
Artificial Intelligence Research, 29:421-489, 2007.
 
Artificial Intelligence Research, 29:421-489, 2007.
  
Elisa Marques, Simon de Givry, Paul Stothard, Brenda Murdoch, Zhiquan Wang,
+
E Marques, S de Givry, P Stothard, B Murdoch, Z Wang,
James Womack, and Stephen S Moore. A high resolution radiation hybrid map of
+
J Womack, and SS Moore. A high resolution radiation hybrid map of
 
bovine chromosome 14 identifies scaffold rearrangement in the latest bovine
 
bovine chromosome 14 identifies scaffold rearrangement in the latest bovine
 
assembly. BMC Genomics, 8:254, 2007.
 
assembly. BMC Genomics, 8:254, 2007.
Ligne 148 : Ligne 147 :
 
of IJCAI-07, pages 68-73, Hyderabad, India, 2007.
 
of IJCAI-07, pages 68-73, Hyderabad, India, 2007.
  
Judith Burstin, Pascal Marget, Myriam Huart, Annie Moessner, Brigitte Mangin,
+
J Burstin, P Marget, M Huart, A Moessner, B Mangin,
Christiane Duchene, Bruno Desprez, Nathalie Munier-Jolain, and Gerard Duc.
+
C Duchene, B Desprez, N Munier-Jolain, and G Duc.
 
Developmental genes have pleiotropic effects on plant morphology and source
 
Developmental genes have pleiotropic effects on plant morphology and source
 
capacity, eventually impacting on seed protein content and productivity in
 
capacity, eventually impacting on seed protein content and productivity in
Ligne 158 : Ligne 157 :
 
Theoretical Population Biology, 71(3):380-391, 2007.
 
Theoretical Population Biology, 71(3):380-391, 2007.
  
Sandrine Boisset, Thomas Geissmann, Eric Huntzinger, Pierre Fechter, Nadia
+
S Boisset, T Geissmann, E Huntzinger, P Fechter, N
Bendridi, Maria Possedko, Clément Chevalier, Anne Catherine Helfer, Yvonne
+
Bendridi, M Possedko, Ct Chevalier, ACe Helfer, Y
Benito, Alain Jacquier, Christine Gaspin, François Vandenesch, and Pascale
+
Benito, A Jacquier, C Gaspin, F Vandenesch, and P
 
Romby. Staphylococcus aureus RNAIII coordinately represses the synthesis of
 
Romby. Staphylococcus aureus RNAIII coordinately represses the synthesis of
 
virulence factors and the transcription regulator Rot by an antisense
 
virulence factors and the transcription regulator Rot by an antisense
Ligne 169 : Ligne 168 :
 
Bioinformatics, 4(1):4-16, 2007.
 
Bioinformatics, 4(1):4-16, 2007.
  
Sébastien Aubourg, Marie-Laure Martin-Magniette, Véronique Brunaud, Ludivine
+
S Aubourg, ML Martin-Magniette, V Brunaud, L
Taconnat, Frédérique Bitton, Sandrine Balzergue, Pauline E Jullien, Mathieu
+
Taconnat, F Bitton, S Balzergue, P E Jullien, M
Ingouff, Vincent Thareau, Thomas Schiex, Alain Lecharny, and Jean-Pierre
+
Ingouff, V Thareau, T Schiex, An Lecharny, and JP
 
Renou. Analysis of CATMA transcriptome data identifies hundreds of novel
 
Renou. Analysis of CATMA transcriptome data identifies hundreds of novel
 
functional genes and improves gene models in the Arabidopsis genome. BMC
 
functional genes and improves gene models in the Arabidopsis genome. BMC
Ligne 232 : Ligne 231 :
 
2006.
 
2006.
  
Steven B Cannon, Lieven Sterck, Stephane Rombauts, Shusei Sato, Foo Cheung,
+
SB Cannon, L Sterck, S Rombauts, S Sato, F Cheung,
Jérôme Gouzy, Xiaohong Wang, Joann Mudge, Jayprakash Vasdewani, Thomas Schiex,
+
J Gouzy, X Wang, J Mudge, J Vasdewani, T Schiex,
Manuel Spannagl, Erin Monaghan, Christine Nicholson, Sean J Humphray, Heiko
+
M Spannagl, E Monaghan, C Nicholson, SJ Humphray, H
Schoof, Klaus F X Mayer, Jane Rogers, Francis Quétier, Giles E Oldroyd,
+
Schoof, KFX Mayer, J Rogers, F Quétier, GE Oldroyd,
Frédéric Debellé, Douglas R Cook, Ernest F Retzel, Bruce A Roe, Christopher D
+
F Debellé, DR Cook, EF Retzel, BA Roe, CD
Town, Satoshi Tabata, Yves Van de Peer, and Nevin D Young. Legume genome
+
Town, S Tabata, Y Van de Peer, and ND Young. Legume genome
 
evolution viewed through the medicago truncatula and lotus japonicus genomes.
 
evolution viewed through the medicago truncatula and lotus japonicus genomes.
 
Proc Natl Acad Sci U S A, 103(40):14959-64, Oct 2006.
 
Proc Natl Acad Sci U S A, 103(40):14959-64, Oct 2006.
Ligne 248 : Ligne 247 :
 
Linkage disequilibrium interval mapping of quantitative trait loci. BMC
 
Linkage disequilibrium interval mapping of quantitative trait loci. BMC
 
Genomics, 7:54, 2006.
 
Genomics, 7:54, 2006.
 +
 +
G Blanc, A Charcosset, B Mangin, A Gallais, and L Moreau.  Connected populations for detecting quantitative trait loci and testing for epistasis: an application in maize. TAG, 113:206-224, 2006.
  
 
<h1>2005</h1>
 
<h1>2005</h1>
Ligne 269 : Ligne 270 :
 
mapping in multi-cross design. Bioinformatics, 21(1):128-30, 2005.
 
mapping in multi-cross design. Bioinformatics, 21(1):128-30, 2005.
  
Sylvain Foissac and Thomas Schiex. Integrating alternative splicing detection
+
S Foissac and T Schiex. Integrating alternative splicing detection
 
into gene prediction. BMC Bioinformatics, 6:25, 2005.
 
into gene prediction. BMC Bioinformatics, 6:25, 2005.
  
Ligne 276 : Ligne 277 :
 
05, pages 84-89, Edinburgh, Scotland, 2005.
 
05, pages 84-89, Edinburgh, Scotland, 2005.
  
Simon de Givry, Martin Bouchez, Patrick Chabrier, Denis Milan, and Thomas
+
S de Givry, M Bouchez, P Chabrier, D Milan, and T
 
Schiex. Carthagene: multipopulation integrated genetic and radiation hybrid
 
Schiex. Carthagene: multipopulation integrated genetic and radiation hybrid
 
mapping. Bioinformatics, 21(8):1703-4, Apr 2005.
 
mapping. Bioinformatics, 21(8):1703-4, Apr 2005.
  
Béatrice Clouet-d'Orval, Christine Gaspin, and Annie Mougin. Two different
+
B Clouet-d'Orval, C Gaspin, and A Mougin. Two different
 
mechanisms for tRNA ribose methylation in Archaea: a short survey.
 
mechanisms for tRNA ribose methylation in Archaea: a short survey.
 
Biochimie, 87(9-10):889-95, Sep-Oct 2005.
 
Biochimie, 87(9-10):889-95, Sep-Oct 2005.

Version du 22 septembre 2009 à 07:11

2009

M Zytnicki, C Gaspin, S de Givry, and T Schiex. Bound arc consistency for weighted csps. Journal of Artificial Intelligence Research, 35, 2009.

M Vignes and F Forbes. Gene clustering via integrated markov models combining individual and pairwise features. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 6(2):260-270, apr 2009.

G Verfaillie and T Schiex. Constraint Satisfaction Problems, chapter 6, pages 265-320. Number ISBN 978-1-84821-116-2. ISTE-Wiley, 2009.

M Sanchez, D Allouche, S de Givry, and T Schiex. Algorithme des poupées russes exploitant une décomposition arborescente. In Yves Deville, editor, Actes des Cinquièmes Journées Francophones de Programmation par Contraintes, Orléans, 2009.

M Sanchez, D Allouche, S de Givry, and T Schiex. Russian doll search with tree decomposition. In Proc. of IJCAI'09, Pasadena (CA), USA, 2009.

J Gouzy, S Carrere, and T Schiex. Framedp: sensitive peptide detection on noisy matured sequences. Bioinformatics, Jan 2009.

A Favier, S de Givry, and P Jégou. Comptage de solutions en exploitant la structure du graphe de contraintes. In Yves Deville, editor, Actes des Cinquièmes Journées Francophones de Programmation par Contraintes, Orléans, 2009.

A Favier, S de Givry, and P Jégou. Exploiting problem structure for solution counting. In CP, 2009.

T Faraut, S de Givry, C Hitte, Y Lahlib-Mansais, M Morisson, D Milan, T Schiex, B Servin, A Vignal, F Galibert, and M Yerle. Contributions of radiation hybrids to genome mapping in domestic animals. Cytogenetic and Genome Research, A paraître, 2009.

J Blanchet and M Vignes. A model-based approach to gene clustering with missing observation reconstruction in a markov random field framework. Journal of Computational Biology, 16(3):475-486, mar 2009.

A Kozomara. Prédiction de gènes d'ARN dans les séquences génomiques. PhD thesis, Université Paul Sabatier, Toulouse, Toulouse, France, Juin 2009.

L Dupuy, M Vignes, B McKenzie, and P White. Meristematic waves, a new approach to model root architecture dynamics. In Proceedings of the 10th JOBIM, Nantes, June 2009.

2008

M Zytnicki. Localisation d'ARN non-codants par réseaux de contraintes pondérées. PhD thesis, Université Paul Sabatier, Toulouse, 2008.

M Zytnicki, C Gaspin, and T Schiex. DARN! a soft constraint solver for RNA motif localization. Constraints, 13(1):91-109, 2008.

M Sanchez, S de Givry, and T Schiex. Mendelian error detection in complex pedigrees using weighted constraint satisfaction techniques. Constraints, 13(1):130-154, 2008.

C Noirot, C Gaspin, T Schiex, and J Gouzy. LeARN: a platform for detecting, clustering and annotating non-coding RNAs. BMC Bioinformatics, 9:21, 2008.

B Mangin, P Garnier-Gere, and C Cierco-Ayrolles. The estimator of the optimal measure of allelic association: Mean, variance and probability distribution when the sample size tends to infinity. Statistical Applications in Genetics and Molecular Biology, 7(1), 2008.

J Larrosa, F Heras, and S de Givry. A logical approach to efficient max-sat solving. Artificial Intelligence, 172(2-3), 2008.

F Heras, J Larrosa, S de Givry, and T Schiex. 2006 and 2007 max-sat evaluations: Contributed instances. Journal of Satisfiability, Boolean Modeling and Computation, 4:239-250, 2008.

S Foissac, J Gouzy, S Rombauts, C Mathé, J Amselem, L Sterk, Y van de Peer, P Rouzé, and T Schiex. Genome annotation in plants and fungi: Eugène as a model platform. Current Bioinformatics, 3(2):87-97, 5 2008.

O Filangi, Y Beausse, A Assi, L Legrand, JM Larré, V Martin, O Collin, C Caron, H Leroy, and D Allouche. Biomaj: a flexible framework for databanks synchronization and processing. Bioinformatics, 24(16):1823-5, Aug 2008.

MC Cooper, S de Givry, M Sanchez, T Schiex, and M Zytnicki. Cohérence d'arc virtuelle pour csp pondérés. In Actes des Quatrièmes Journées Francophones de Programmation par Contraintes, Nantes, 2008.

MC Cooper, S de Givry, M Sanchez, T Schiex, and M Zytnicki. Virtual arc consistency for weighted csp. In Proc. of AAAI'2008, Chicago, USA, 2008.

S Bouveret, S de Givry, F Heras, J Larrosa, E Rollon, M Sanchez, T Schiex, G Verfaillie, and M Zytnicki. Max-csp competition 2007: toolbar/toulbar2 solver brief description. In C; Roussel O van Dongen, MRC; Lecoutre, editor, Proceedings of the Second International CSP Solver Competition, pages 19-21, 2008.

S Bérard, C Chauve, and C Paul. A more efficient algorithm for perfect sorting by reversals. Information Processing Letters, 106(3):90-95, 4 2008.

P Abad, J Gouzy, JM Aury, P Castagnone-Sereno, EGJ Danchin, E Deleury, L Perfus-Barbeoch, V Anthouard, F Artiguenave, VC Blok, MC Caillaud, PM Coutinho, C Dasilva, F De Luca, F Deau, M Esquibet, T Flutre, JV Goldstone, N Hamamouch, T Hewezi, O Jaillon, C Jubin, P Leonetti, M Magliano, TR Maier, GV Markov, P McVeigh, G Pesole, J Poulain, M Robinson-Rechavi, E Sallet, B Ségurens, D Steinbach, T Tytgat, E Ugarte, C van Ghelder, P Veronico, TJ Baum, M Blaxter, T Bleve-Zacheo, EL Davis, JJ Ewbank, B Favery, E Grenier, B Henrissat, JT Jones, V Laudet, AG Maule, H Quesneville, MN Rosso, T Schiex, G Smant, J Weissenbach, and Patrick Wincker. Genome sequence of the metazoan plant-parasitic nematode meloidogyne incognita. Nat Biotechnol, 26(8):909-15, Aug 2008.

2007

M Zytnicki, C Gaspin, and T Schiex. DARN! a soft constraint solver for RNA motif localization. In Proc. of JOBIM'2007, Marseille, France, 2007.

A Prasad, T Schiex, S McKay, B Murdoch, Z Wang, JE Womack, P Stothard, and SS Moore. High resolution radiation hybrid maps of bovine chromosomes 19 and 29: comparison with the bovine genome sequence assembly. BMC Genomics, 8:310, 2007.

C Pralet, T Schiex, and G Verfaillie. Algorithmes et complexités génériques pour différents cadres de décision séquentielle dans l'incertain. Revue d'Intelligence Artificielle, 21:459-488, 2007.

C Pralet, G Verfaillie, and T Schiex. Un cadre graphique et algébrique pour les problèmes de décision incluant incertitudes, faisabilités et utilités. Revue d'Intelligence Artificielle, 21(3), 2007.

C Pralet, G Verfaillie, and T Schiex. An algebraic graphical model for decision with uncertainties, feasibilities, and utilities. Journal of Artificial Intelligence Research, 29:421-489, 2007.

E Marques, S de Givry, P Stothard, B Murdoch, Z Wang, J Womack, and SS Moore. A high resolution radiation hybrid map of bovine chromosome 14 identifies scaffold rearrangement in the latest bovine assembly. BMC Genomics, 8:254, 2007.

T Faraut, S de Givry, P Chabrier, T Derrien, F Galibert, C Hitte, and T Schiex. A comparative genome approach to marker ordering. Bioinformatics, 23(2):e50-6, Jan 2007.

MC Cooper, S de Givry, and T Schiex. Optimal soft arc consistency. In Proc. of IJCAI-07, pages 68-73, Hyderabad, India, 2007.

J Burstin, P Marget, M Huart, A Moessner, B Mangin, C Duchene, B Desprez, N Munier-Jolain, and G Duc. Developmental genes have pleiotropic effects on plant morphology and source capacity, eventually impacting on seed protein content and productivity in pea. Plant Physiology, 144(2):768-781, jun 2007.

S Boitard and P Loisel. Probability distribution of haplotype frequencies under the two-locus Wright-Fisher model by diffusion approximation. Theoretical Population Biology, 71(3):380-391, 2007.

S Boisset, T Geissmann, E Huntzinger, P Fechter, N Bendridi, M Possedko, Ct Chevalier, ACe Helfer, Y Benito, A Jacquier, C Gaspin, F Vandenesch, and P Romby. Staphylococcus aureus RNAIII coordinately represses the synthesis of virulence factors and the transcription regulator Rot by an antisense mechanism. Genes Dev, 21(11):1353-66, Jun 2007.

S Bérard, A Bergeron, C Chauve, and C Paul. Perfect sorting by reversal is not always difficult. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 4(1):4-16, 2007.

S Aubourg, ML Martin-Magniette, V Brunaud, L Taconnat, F Bitton, S Balzergue, P E Jullien, M Ingouff, V Thareau, T Schiex, An Lecharny, and JP Renou. Analysis of CATMA transcriptome data identifies hundreds of novel functional genes and improves gene models in the Arabidopsis genome. BMC Genomics, 8:401, 2007.

2006

M Zytnicki, C Gaspin, and T Schiex. A new local consistency for weighted CSP dedicated to long domains. In Proceedings of the 2006 ACM Symposium on Applied Computing, pages 394-398, Dijon, France, 2006.

P Thébault, S de Givry, T Schiex, and C Gaspin. Searching rna motifs and their intermolecular contacts with constraint networks. Bioinformatics, 22(17):2074-80, Sep 2006.

C Pralet, G Verfaillie, and T Schiex. Decision with uncertainties, feasibilities and utilities: towards a unified algebraic framework. In Proc. of ECAI'2006, Trento, Italy, 2006.

C Pralet, T Schiex, and G Verfaillie. From influence diagrams to multioperator cluster dags. In Proc. of UAI'2006, Boston (MA), USA, 2006.

C Pralet. Un cadre générique pour représenter et résoudre des problèmes de décision séquentiels avec incertitudes, faisabilités et utilités. PhD thesis, Ecole Nationale Superieure de l'Aéronautique et de l'Espace, Toulouse, Toulouse, France, 2006.

C Pralet, T Schiex, and G Verfaillie. Decomposition of multi-operators queries on semiring-based graphical models. In Proc. of CP'2006, Nantes, France, 2006.

P Meseguer, F Rossi, and T Schiex. Soft Constraints, chapter 9, pages 281-328. Elsevier, 2006.

A Lucas and S Jasson. Using amap and ctc packages for huge clustering. R News, 5(6):58-60, 2006.

G Verfaillie and T Schiex. Problemes de satisfaction de contraintes, volume 1 of Traite IC2, serie Informatique et Systemes d'Information, chapter 6, pages 287-344. Hermes Sciences, 2006.

S de Givry and L Jeannin. A unified framework for partial and hybrid search methods in constraint programming. Computer & Operations Research, 33(10):2805-2833, 2006.

T Faraut, S de Givry, P Chabrier, T Derrien, F Galibert, C Hitte, and T Schiex. A comparative genome approach to marker ordering. In Actes de JOBIM'06, page 11, Bordeaux, France, 2006.

T Faraut, S de Givry, P Chabrier, T Derrien, F Galibert, C Hitte, and T Schiex. A comparative genome approach to marker ordering. In Proc. of ECCB'2006, 2006.

S de Givry, T Schiex, and G Verfaillie. Décomposition arborescente et cohérence locale souple dans les csp pondérés. In Actes des Deuxièmes Journées Francophones de Programmation par Contraintes, Nîmes, 2006.

S de Givry, T Schiex, and T Verfaillie. Exploiting tree decomposition and soft local consistency in weighted CSP. In Proc. of AAAI'2006, Boston (MA), USA, 2006.

SB Cannon, L Sterck, S Rombauts, S Sato, F Cheung, J Gouzy, X Wang, J Mudge, J Vasdewani, T Schiex, M Spannagl, E Monaghan, C Nicholson, SJ Humphray, H Schoof, KFX Mayer, J Rogers, F Quétier, GE Oldroyd, F Debellé, DR Cook, EF Retzel, BA Roe, CD Town, S Tabata, Y Van de Peer, and ND Young. Legume genome evolution viewed through the medicago truncatula and lotus japonicus genomes. Proc Natl Acad Sci U S A, 103(40):14959-64, Oct 2006.

S Bérard, F Nicolas, J Buard, O Gascuel, and E Rivals. Fast and specific alignment method for minisatellite maps applied to human y chromosome minisatellite msy1. Evolutionary Bioinformatics Online, 2:327-344, 2006.

S Boitard, J Abdallah, H de Rochambeau, C Cierco-Ayrolles, and B Mangin. Linkage disequilibrium interval mapping of quantitative trait loci. BMC Genomics, 7:54, 2006.

G Blanc, A Charcosset, B Mangin, A Gallais, and L Moreau. Connected populations for detecting quantitative trait loci and testing for epistasis: an application in maize. TAG, 113:206-224, 2006.

2005

MH Renalier, N Joseph, C Gaspin, P Thebault, and A Mougin. The Cm56 tRNA modification in archaea is catalyzed either by a specific 2'-O-methylase, or a C/D sRNP. RNA, 11(7):1051-63, 2005.

S Genin, M Salanoubat, J Gouzy, A Moisan, T Schiex, S Cunnac, M Lavie, C Zischek, P Barberis, and C Boucher. The Ralstonia solanacearum complete genome sequence: outputs and prospects. In Bacterial wilt disease and the Ralstonia solanacearum species complex, pages 335-342. American Phytopathological Society (APS Press), St. Paul, USA, 2005.

M Zytnicki, F Heras, S de Givry, and L Larrosa. Cohérence d'arc existentielle: un pas de plus vers la cohérence d'arc complète. In Actes des Premières Journées Francophones de Programmation par Contraintes, pages 139-148, Lens, France, 2005.

MF Jourjon, S Jasson, J Marcel, B Ngom, and B Mangin. MCQTL: multi-allelic qtl mapping in multi-cross design. Bioinformatics, 21(1):128-30, 2005.

S Foissac and T Schiex. Integrating alternative splicing detection into gene prediction. BMC Bioinformatics, 6:25, 2005.

S de Givry, M Zytnicki, F Heras, and J Larrosa. Existential arc consistency: getting closer to full arc consistency in weighted CSPs. In Proc. of IJCAI- 05, pages 84-89, Edinburgh, Scotland, 2005.

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