Evolution and Assembly of Protein Complexes
S. TEICHMANN

The Role of Viruses (Virocell) in the Origin and Diversification of Biological Information
P. FORTERRE

Discovering and Visualizing Structural Variation from High Throughput Sequencing Data
M. BRUDNO

Mathematical Modeling of Yeast Stress Response
E. KLIPP

Towards an Algorithmic and Mathematical Exploration of Symbiosis
M.-F. SAGOT

Ancestral Mammalian Genome Reconstruction and its Uses Toward Annotating the Human Genome
M. BLANCHETTE

The RNA Zoo: Diversity and Complexity of Transcriptomes
P. STADLER
 

PEP-FOLD: Biased Approach for the de novo Prediction of Peptide and Miniprotein Structure
Y. SHEN, J. MAUPETIT, P. DERREUMAUX and P. TUFFERY

Protein Complex Co-Evolution from a Structural Perspective
G. FAURE, J. ANDREANI and R. GUÉROIS

Protein-protein Docking Based on Shape Complementarity and Voronoi Fingerprints
T. BOURQUARD, J. AZÉ, A. POUPON and D. RITCHIE

Analysis of Co-evolution at Protein Complex Interfaces
J. ANDREANI, G. FAURE and R. GUÉROIS

New Developments and Applications for Protein Peeling Algorithm
J.-C. GELLY and A. DE BREVERN

How Significant is a Threading Score?
A. FAYYAZ MOVAGHAR, G. LAUNAY, S. SCHBATH, J.-F. GIBRAT and F. RODOLPHE

Identification of Cis-Regulatory Elements Involved in Zygotic Genome Activation During Early Drosophila melanogaster Embryogenesis
E. DARBO, T. LECUIT, D. THIEFFRY and J. VAN HELDEN

An Integrative Signaling Pathway Analysis for Determining Master Regulators and Dysregulated Pathways in Her2 Over-Expressed Human Breast Cancer
P. VERA-LICONA, A. ZINOVYEV, I. KUPERSTEIN, O. KEL, A. KEL, T. DUBOIS, G. TUCKER and E. BARILLOT

Identification of Shortened 3’Untranslated Regions and Impact on MicroRNA Regulation
L. MARTIGNETTI, K. LAUD-DUVAL, F. TIRODE, E. BARILLOT, O. DELATTRE and A. ZINOVYEV

Interaction Networks and Intrinsic Disorder: Another Way to Investigate Extracellular Matrix Functions
F. PEYSSELON, R. SALZA, M. FATOUX-ARDORE, E. CHAUTARD, N. THIERRY-MIEG and S. RICARD-BLUM

Candidate Gene Prioritization in Prokaryotes Based on Multiple Genomes Data
R. BARRIOT, Y. QUENTIN and G. FICHANT

Skew N-domains and Replication U-domains: Gradients of Replication Fork Polarity in the Human Genome
C.-L. CHEN, L. DUQUENNE, Y. D’AUBENTON-CARAFA, C. THERMES, A. GOLDAR, G. GUILBAUD, A. RAPPAILLES, O. HYRIEN, A. BAKER, B. AUDIT and A. ARNEODO

NeMo: Fast Count of Network Motifs
M. KOSKAS, G. GRASSEAU, E. BIRMELÉ, S. SCHBATH and S. ROBIN

Waffect: a Method to Simulate Case-Control Samples in Genome-Wide Association Studies
V. PERDUCA, R. MOURAD, C. SINOQUET and G. NUEL

A Sequential Monte Carlo Method for Estimating Transcriptional Landscape at Basepair Level from RNA-Seq Data
B. MIRAUTA, P. NICOLAS and H. RICHARD

An Exact Algorithm for the Segmentation of NGS Profiles Using Compression
G. RIGAILL

Distributed High Throughput Sequencing Data Analysis on Cloud Computing
L. JOURDREN, M. BERNARD, M.-A. DILLIES and S. LE CROM

Complex Plant Genome Sequencing Using Combined Sequencing Technologies and De-Novo Assemblers
M. ZOUINE, C. ROUSSEAU, P. FRASSE, C. KLOPP and M. BOUZAYEN

Identification of Regulatory Elements from Gene Expression Data without Clustering
M. LAJOIE, O. GASCUEL and L. BREHELIN

Mapping Genetic Interactions in Various Contexts Provides Complementary Information
M. MICHAUT and G. BADER

PhyleasProg: a User-Oriented Web Server for Wide Evolutionary Analyses
J. BUSSET, C. CABAU, C. MESLIN and G. PASCAL

Investment in Growth Determines the Evolutionary Rates of Proteins
S. VIEIRA-SILVA and E. ROCHA

Horizontal Gene Transfer of a Chloroplast Protein to Thaumarchaeota: The Unique Case of a Ferredoxine and a J-domain Fusion
C. PETITJEAN, C. BROCHIER-ARMANET, P. LÓPEZ-GARCIA and D. MOREIRA

Tpms: a Tree Pattern-Matching Utility for Querying Gene Trees Collections
T. BIGOT, V. DAUBIN and G. PERRIÈRE

NGS: Neglected Genome Sequencing. Assembly and Annotation Challenges in a Highly Divergent Protozoan Genome
S. MOREIRA, M. TURCOTTE and G. BURGER

Integrated Gene Prediction for Prokaryotic Genomes Using EuGene
E. SALLET, J. GOUZY, B. ROUX, D. CAPELA, L. SAUVIAC, C. BRUAND, P. GAMAS and T. SCHIEX

URGI Genome Annotation System: an Integrated System for Structural and Functional Genome Annotation
J. AMSELEM, M. ALAUX, N. CHOISNE, N. LAPALU, B. BRAULT, A. KELIET, E. KIMMEL, F. ALFAMA-DEPAUW, S. ARNOUX, M. BRAS, L. BRIGITTE, O. INIZAN, V. JAMILLOUX, J. KREPLAK, F. LEGEAI, I. LUYTEN, C. POMMIER, S. REBOUX, S. SIDIBE-BOCS, M.-H. LEBRUN, D. STEINBACH and H. QUESNEVILLE

ecoQuery: a Semantic Module to Query Biodiversity Data on the Web
J. CHABALIER, O. COULLET, A. SAHL and O. ROVELLOTTI

Integrated Bioinformatics Solutions for Microbial Genome, Proteome and Metabolome Comparative Analysis
A. ILTIS, P.-E. CIRON and F. RECHENMANN

SynTView: a Dynamic Genome Browser for Microbial Synteny and Polymorphism Information
P. LECHAT, E. SOUCHE and I. MOSZER

Mining Databanks to Analyse Functional and Taxonomic Diversity of Sequences
A. MEIL, G. KERBELLEC and P. DURAND

Influence Function for Robust Phylogenetic Reconstruction
M. MARIADASSOU and A. BAR-HEN

Character Trimming Algorithms to Build a Compositionally Homogeneous Character Subset from a Multiple Sequence Alignment
A. CRISCUOLO

A Comparison of Regression Models for Testing QTL/eQTL co-Location
X. WANG, J.-M. ELSEN, O. FILANGI and P. LE ROY

Rearrangements Occur Mostly Neutrally in Eukaryotic Genomes
C. BERTHELOT, M. MUFFATO and H. ROEST CROLLIUS

Exploration of the Genetic Diversity of the Lachancea kluyveri Yeast Species
A. FRIEDRICH, C. REISSER, P. JUNG and J. SCHACHERER

An Evolutionary Analysis of the Type III Secretion System
S. ABBY and E. ROCHA

Identification of Putative Parasitism Genes in Plant-Parasitic Nematodes
A. CAMPAN-FOURNIER, L. PERFUS-BARBEOCH, M.-N. ROSSO, M.-J. ARGUEL, C. DA SILVA, C. VENS, N. MARTEU, K. LABADIE, F. ARTIGUENAVE, P. ABAD and E. DANCHIN

Five Vertebrate ChIP-seq Reveals the Evolutionary Dynamics of Transcription Factor Binding
D. SCHMIDT, M. WILSON, B. BALLESTER, P. SCHWALIE, G. BROWN, A. MARSHALL, C. KUTTER, S. WATT, C. MARTINEZ-JIMENEZ, S. MACKAY, I. TALIANIDIS, P. FLICEK and D. ODOM

AuPosSOM: New Approach for the Identification of Active Compounds in the Set of Docked Molecules
A. MANTSYZOV, G. BOUVIER, N. EVRARD-TODESCHI and G. BERTHO

Ancestral HMMs and their Use to Detect Distant Homologs
J.-B. DOMELEVO ENTFELLNER and O. GASCUEL

Fitting Hidden Markov Models of Protein Domains to a Target Species
N. TERRAPON, O. GASCUEL and L. BREHELIN
 

101. Large-Scale Phylogenomic Analyses Indicate a Deep Origin of Primary Plastids within Cyanobacteria
A. CRISCUOLO and S. GRIBALDO

102. Simulation of Gene Family Histories
M. HERNANDEZ ROSALES, N. WIESEKE, M. HELLMUTH and P. STADLER

103. Estimating Phylogenetic Correlations between Molecular Data and Longevity in Mammals
R. POUJOL and N. LARTILLOT

104. Peptidergic Signaling Systems in Bilaterian Genomes
O. MIRABEAU and J.-S. JOLY

105. Early Effect of Antiviral Therapy on HIV-1 Meta-Populations
S. BROUILLET, M. KEARNEY, F. MALDARELLI, J. COFFIN and G. ACHAZ

106. A Block Regression Approach for Simultaneous Variables Clustering and Selection: Application to Genetic Data
L. YENGO, J. JACQUES and C. BIERNACKI

107. Differential Selection Profiles using Statistical Phylogenetic Models for Understanding HIV Adaptation According to Host HLA
S. PARTO and N. LARTILLOT

108. Cross-Species Comparison of cis-Regulatory Motifs: the Case Study of AP-1 Transcription Factors in Yeasts
C. GOUDOT, C. ETCHEBEST, F. DEVAUX and G. LELANDAIS

109. MGCA: a Flexible Tool for Phylogenomic Analyses of Prokaryotic Genomes
K. CHENNEN, P. LECHAT, E. HIRCHAUD, R. CAHUZAC, P. DEHOUX and C. DAUGA

110. Vibrios Infecting Marine Invertebrates: New Insights into Vibrio Virulence and their Adaptive Gene Reservoirs
D. GOUDENÈGE, E. KRIN, E. CORRE, C. MÉDIGUE, D. MAZEL and F. LE ROUX

111. TriAnnot: a High Performance Pipeline for the Automated Structural and Functional Annotation of Plant Genomes
P. LEROY, A. BERNARD, N. GUILHOT, S. THEIL, M. ALAUX, S. REBOUX, O. INIZAN, F. CHOULET, H. SAKAI, T. TANAKA, T. ITOH, H. QUESNEVILLE and C. FEUILLET

112. BiblioList, a Literature Manager for Annotated Organisms
E. QUEVILLON

113. Protein Classification in the Case of Large and Many-Class Datasets: A Comparison with BLAST and BLAT
R. SAIDI, W. DHIFLI, S. ARIDHI, M. AGIER, G. BRONNER, D. DEBROAS, L. D’ORAZIO, F. ENAULT, S. GUILLAUME and E. MEPHU NGUIFO

114. Predicting Copy Number Alterations and Structural Variants Using Paired-End Sequencing Data
V. BOEVA, B. ZEITOUNI, K. BLEAKLEY, A. ZINOVYEV, J.-P. VERT, I. JANOUEIX-LEROSEY, O. DELATTRE and E. BARILLOT

115. De Novo Transcriptome Assembly in Non-Model Organisms from Next Generation Sequencing Data
V. CAHAIS, P. GAYRAL, G. TSAGKOGEORGA, J. MELO-FERREIRA, Y. CHIARI, K. BELKHIR, V. RANWEZ and N. GALTIER

116. Analyzing RNA-Seq Data within the MicroScope Web-based Platform
B. CHANE-WOON-MING, M. WEIMAN, D. VALLENET, V. DE BERARDINIS, B. SEGURENS, M. SALANOUBAT, M. DUROT and C. MÉDIGUE

117. Integration and Analysis of Gene Identifier Lists
D. BARON, A. BIHOUÉE, R. TEUSAN, E. DUBOIS, F. SAVAGNER, M. STEENMAN, R. HOULGATTE and G. RAMSTEIN

118. Microarray Image Segmentation Using Parallel Spectral Clustering
S. MOUYSSET, J. NOAILLES, D. RUIZ and R. GUIVARCH

119. Improving Biclustering for High Dimension Genomic Data Using the Ensemble Methods
B. HANCZAR and M. NADIF

120. Validated Chip Annotation: a New Tool for Gene Annotation Quality Control
G. JULES-CLÉMENT, J.-C. HAW KING CHON, J.-P. MEYNIEL, P. LA ROSA, E. BARILLOT and C. DECRAENE

121. Biomarkers Discovery in Breast Cancer by Interactome-Transcriptome Integration
M. GARCIA, O. STAHL, P. FINETTI, F. BERTUCCI, D. BIRNBAUM and G. BIDAUT

122. RNAspace: an Integrated Environment for the Prediction, Annotation and Analysis of Non-Coding RNA
M.-J. CROS, A. DE MONTE, J. MARIETTE, P. BARDOU, D. GAUTHERET, H. TOUZET and C. GASPIN

123. Dynamics of Small RNA-Directed DNA Methylation During the Arabidopsis Innate Immune Response
A.-L. ABRAHAM, A. YU, G. LEPÈRE and L. NAVARRO

124. An Automatic Method for Identifying TE-derived miRNAs
S. TEMPEL and F. TAHI

125. Conserved Disorder: its Role in Human Disease and Common Variations
M. MICHAUT, T. KIM, S. HAN, J. BELLAY and P. KIM

126. Sets of Symmetries by Base Substitutions in the Genetic Code
J.-L. JESTIN and C. SOULÉ

127. A pipeLine Dedicated to Oligonucleotides design (ALDO)
I. RABEARIVELO and F. PAILLIER

128. Bioinformatics Tools to Decrypt Pyoverdine Biosynthesis in Pseudomonas sp.
A. VANVLASSENBROECK, V. LECLÈRE, M. PUPIN, B. WATHELET and P. JACQUES

129. Predicting Protein Flexibility through the Prediction of Local Structures
C. ETCHEBEST, A. BORNOT and A. DE BREVERN

130. Protein 3D Structure Comparison Based on Sequence Alignment Approaches: Application of a Structural Alphabet
A. JOSEPH, J.-C. GELLY, N. SRINIVASAN and A. DE BREVERN

131. DOMIRE, a Web Server for Structural Domain Identification in Proteins
F. SAMSON, R. SHRAGER, C.-H. TAI, V. SAM, J.-F. GIBRAT, B. LEE, P. MUNSON and J. GARNIER

132. In Silico Insights into the Platelet Alloimmune Response to αIIbβ3 Polymorphisms
P. POULAIN, V. JALLU, C. KAPLAN and A. DE BREVERN

133. The Sequence-Structure Relationship in α-helical Transmembrane Proteins
J. ESQUE, A. URBAIN, C. ETCHEBEST and A. DE BREVERN

134. Conformational Plasticity of the Adenylyl Cyclase CyaA from Bordetella pertussis
E. SELWA, E. LAINE and T. MALLIAVIN

135. The Dynamics Modes of the VanA D-alanyl:D-lactate Ligase are Similar to those of the D-alanyl:D-alanine Ligase
N. DUCLERT-SAVATIER, D. MEZIANE-CHERIF, A. BLONDEL, M. NILGES and T. MALLIAVIN

136. Analysis of the Full Orthosteric Cavity to Discriminate Agonist from Antagonist Ligands in AChBP
J. BURATTI, A. BLONDEL, T. MALLIAVIN and M. NILGES

137. Developments in NMR Structure Calculation Protocol in Order to Improve the Structure Quality and Convergence
F. MAREUIL, C. BLANCHET, T. MALLIAVIN and M. NILGES

138. The Superfamily of Beta-and Gamma-Crystallins: Evolution History and Sequence-Structure-Function Relationships
E. DUPRAT, W. LUSCAP, F. SKOURI-PANET and S. FINET

139. Enzyme Classification Using 3D Signatures of Protein Binding Site
A. EL HAMADI, J. MOUTOUSSAMY, E. CARLINET and J.-Y. TROSSET

140. Protein Structure Prediction with a Half Coarse Grained Model and Empirical Functions
T. BITARD FEILDEL, A. VIGNERON and J.-F. GIBRAT

141. Can Aspecific Docking Predict Protein-Protein Binding Sites?
J. MARTIN

201. Analysis of Protein-protein Interactions at the Subdomain Level
D. STRATMANN, N. PRUDHOMME, M. CHLIOUI, J. PATHMANATHAN, M. CARPENTIER and J. CHOMILIER

202. Graph Clustering Analysis of a Boolean Model : Case of Iron Homeostasis in Saccharomyces cerevisiae
M. NERI, J. CAMADRO and D. MESTIVIER

203. Study of Statistical Parameters to Perform a Convenient Prediction of Different Endocrine Phenotypes in Sportsmen Based on Metabonomic Data
A. PARIS, B. LABRADOR, F.-X. LEJEUNE, A. ZOUBAI, C. CANLET, J. MOLINA, M. GUINOT, A. MÉGRET, J.-C. THALABARD, M. RIEU and Y. LE BOUC

204. A Web-Oriented Platform for Gene Regulatory Network Inference
J. VINCENT, P. MARTRE, C. RAVEL, A. BAILLIF and M. AGIER

205. A Software Architecture for de Novo Induction of Regulatory Networks from Expression Data
F. RÜGHEIMER, A. ANAND and B. SCHWIKOWSKI

206. Modeling Stochastic Switched Systems with BioRica
R. ASSAR, A. GARCIA and D. SHERMAN

207. MoonGO: Predicting Moonlighting Proteins from PPi Networks Based on GO Annotations
C. CHAPPLE, B. ROBISSON, C. HERRMANN and C. BRUN

208. Analysis of the Functionalization Process for Duplicated Genes of Arabidopsis thaliana in Protein-Protein Interactions Network and Transcriptomic Data
J. WHALLEY, E. BIRMELÉ, C. DEVAUCHELLE and C. RIZZON

209. SORGOdb: Superoxide Reductase Gene Ontology Curated DataBase
C. LUCCHETTI-MIGANEH, D. GOUDENÈGE, D. THYBERT, G. SALBERT and F. BARLOY-HUBLER

210. The Biogemix Knowledge Base Project: Cross-Species and Network-Based Data Integration for Huntington’s Disease Research
F. LEJEUNE, L. MESROB, F. PARMENTIER, C. BICEP, J.-P. VERT and C. NERI

211. SIDR, a Public Data Repository for Multi-Assay Experiments: Issues on Metadata Biocuration
A. ZASADZINSKI, M. JACQUEMOT, F. MAZUR, D. FLEURY, Y. BERCHI, M. MECHREF, C. NIEDERLENDER and M. ROUX

212. eDystrophin: a Database from DMD Gene In-Frame Mutations to Dystrophin Structure
A. NICOLAS, C. LUCCHETTI-MIGANEH, F. BARLOY-HUBLER and E. LE RUMEUR

213. mixOmics: an R Package for the Integration of ‘omics’ Data
I. GONZÁLEZ, K.-A. LÊ CAO and S. DÉJEAN

214. Building CoryneCyc Database: A “Pathway/Genome” Database For Corynebacterium glutamicum
T. DUIGOU and B. BOST

215. Overview of The Universal Protein Resource (UniProt)
B. BELY, E. STANLEY and M. MARTIN

216. Djeen: a High Throughput Multi-Technological Research Information Management System for the Joomla! CMS
O. STAHL, A. GUILLE, F. BLONDIN, P. FINETTI, S. GRANJEAUD and G. BIDAUT

217. PARYS : a Web Server for Managing Reverse-Phase Protein Array Platform Data
S. LIVA, P. POULLET, L. DE KONING, B. MARTY, S. TRONCALE, C. DANELSKI, P. HUPÉ, T. DUBOIS and E. BARILLOT

218. dbWFA: A Web-Based Database for Functional Annotation of Wheat Transcripts
J. VINCENT, M. AGIER, C. RAVEL, M. BOUZIDI, S. MOUZEYAR and P. MARTRE

219. High Precision Approximations for the Significance Score of a Motif
G. NUEL

220. 3D Axis Clustering for Mapping Cell Polarity in the Complex Geometry of the Heart
J. LE GARREC, C. RAGNI and S. MEILHAC

221. biomanycores.org: Open-Source Parallel Bioinformatics
J.-F. BERTHELOT, C. DELTEL, M. GIRAUD, S. JANOT, L. JOURDAN, D. LAVENIER, H. TOUZET and J.-S. VARRÉ

222. MGX – Montpellier GenomiX: a Next Generation Sequencing and Microarray Facility Integrating Data Production and Analysis Tools
C. DANTEC, J.-P. DESVIGNES, E. DUBOIS, G. BARONIAN, C. GENTHON, H. PARRINELLO, D. SEVERAC and L. JOURNOT

223. Combining Combinatorial Optimization and Statistics to Mine High-Throughput Genotyping Data
J. HAMON, C. DHAENENS, J. JACQUES and G. EVEN

224. New Types of Services in Mobyle 1.0
H. MÉNAGER, V. GOPALAN, B. NÉRON, S. LARROUDÉ, J. MAUPETIT, A. SALADIN, P. TUFFERY, Y. HUYEN and B. CAUDRON

225. An Organizational Environment for “in silico” Experiments in Molecular Biology
Y. LIN, M.-A. LAPORTE, L. SOLER, I. MOUGENOT and T. LIBOUREL

151. Phylogenomic Evidence Supports the Phagocytosis Model of the Evolutionary Origin of Eukaryotes
N. ROCHETTE and M. GOUY

152. The COaLA Model: a Time Non-Homogeneous Model of Evolution Based on a Correspondance Analysis
M. GROUSSIN, B. BOUSSAU and M. GOUY

153. A Web-based Collaborative Platform for Comparing Phylogenies
N. FIORINI, A. BISCH, F. DUMOND, M. AGBESSI, F. CHEVENET, V. LEFORT, A.-M. CHIFOLLEAU and V. BERRY

154. PELICAN: Orthologous Groups and Gene Lateral Transfers for Comparative Genomic Analysis of Marine Cyanobacteria
C. HABIB, G. LE CORGUILLÉ, E. CORRE, L. BRILLET, M. HOEBEKE, W. CARRE, L. GARCZAREK, F. PARTENSKY and C. CARON

155. AnnotQTL: a New Tool to Gather Functional and Comparative Information on a Genomic Region
F. LECERF, A. BRETAUDEAU, O. SALLOU, C. DESERT, Y. BLUM, S. LAGARRIGUE and O. DEMEURE

156. Génolevures : Policy for Automated Annotation of Genome Sequences
T. MARTIN and P. DURRENS

157. Vector Genome Annotation at VectorBase
K. MEGY, D. LAWSON, D. HUGHES, G. KOSCIELNY, D. WILSON and P. KERSEY

158. RNA-seq Data Analysis: Lost in Normalization?
M.-A. DILLIES and STATOMIQUE CONSORTIUM

159. On the Use of the Negative Binomial Regression Model for Comparing Differential Expression or Abundance with NGS Data
J. AUBERT and J.-J. DAUDIN

160. SMETHILLIUM: Spatial normalisation METHod for ILLumina InfinIUM HumanMethylation BeadChip
C. SABBAH, G. MAZO, C. PACCARD, F. REYAL and P. HUPÉ

161. Improving Mosquito Genome Annotation using RNA-Seq
G. KOSCIELNY, D. HUGHES, K. MEGY, D. WILSON, D. LAWSON and P. KERSEY

162. Importance des Banques de Séquences pour la Métagénomique
L. SIEGWALD, F. TEXIER and C. HUBANS-PIERLOT

163. RNA-Seq without a Reference Genome: a Comparison of the Mapping and the Assembly Approaches
M.-C. CARPENTIER, D. CHARIF, J. KIELBASSA, V. LACROIX, M.-F. SAGOT and F. VAVRE

164. Exploration of Host Immune Response to Pathogen through an Analysis of Gene Expression
T. CEZARD, S. MCTAGGART, D. ALLEN, M. THOMSOM, U. TRIVEDI, M. BLAXTER and T. LITTLE

165. EMA -A R package for Easy Microarray data Analysis
N. SERVANT, E. GRAVIER, P. GESTRAUD, C. LAURENT, C. PACCARD, A. BITON, I. BRITO, J. MANDEL, B. ASSELAIN, E. BARILLOT and P. HUPÉ

166. A Fast ab initio Method for Predicting miRNA Precursors in Genomes
S. TEMPEL and F. TAHI

167. Characterizing Novel Non-Coding Transcripts in Eukaryotic Genomes Using RNA-Seq Data
M. DESCRIMES, Z. SACI, C.-L. CHEN, M. WÉRY, M. SILVAIN, A. MORILLON, C. THERMES and D. GAUTHERET

168. Screening Bacterial Regulatory RNAs and their Targets Using Evolutionary Profiles
A. OTT, A. IDALI, A. MARCHAIS and D. GAUTHERET

169. Annotation of Non-Coding RNA in Vibrio Using RNA-Seq Data
C. TOFFANO-NIOCHE, C. KUCHLY, N. NGUYEN, P. BOULOC, D. GAUTHERET and A. JACQ

170. Bios2mds – an R Package for Metric Multidimensional Scaling Analysis of Multiple Sequence Alignments
J. PELE, J.-M. BECU, H. ABDI and M. CHABBERT

171. Mixing Biological Descriptors for High Throughput Metalloproteins Prediction in Bacterial Genomes
J. ESTELLON, S. OLLAGNIER DE CHOUDENS, A. VIARI, M. FONTECAVE and Y. VANDENBROUCK

172. Fine-Tuning Motif Detection Among Chip on Chip DNA Fragments
F. TOUZAIN, T. MOZZANINO, S. SCHBATH and M.-A. PETIT

173. Interaction Profile of Small Inhibitors Complexed with Falcipain-2 and Falcipain-3 Plasmodial Cysteine Proteases
P. DA SILVA FIGUEIREDO CELESTINO, D. ENRY BARRETO GOMES and P. GERALDO PASCUTTI

174. A Structure-based Classification of the Plant Non-specific Lipid Transfer Protein Superfamily Towards its Functional Characterization
C. FLEURY, M.-F. GAUTIER, F. MOLINA, F. DE LAMOTTE and M. RUIZ

175. Modélisation d’ADN en Épingle à Cheveux avec l’Approche Mésoscopique “Biopolymer Chain Elasticity” (BCE), RMN, et Dynamique Moléculaire
J. COGNET, M. BAOUENDI, G. SANTINI, S. MISSAILIDIS, E. HANTZ and C. HERVÉ DU PENHOAT

176. Protein-Peptide HADDOCKing
M. TRELLET, A. MELQUIOND and A. BONVIN

251. The Plasticity of TGF-beta Signaling
G. CELLIÈRE, G. FENGOS and D. IBER

252. Meta-Prediction of Amyloidogenic Fragments Using Logistic Regression
A. TALVAS, C. DELAMARCHE and M. EMILY

253. Modeling gamma-Cytokine Signalisation from Molecule to Cell
P. BOCHET, B. TAMARIT, L. JONES and T. ROSE

254. Cross-Species Metabolic Pathways Comparison – Focus on Mouse, Human and Chicken Lipid Metabolism
C. BETTEMBOURG, C. DIOT and O. DAMERON

255. FragMixer: A Modular Framework for (Phospho)peptide Identification from Multiple MS/MS Fragmentation Modes
V. HOURDEL, M. VANDENBOGAERT, O. JARDIN-MATHE, J. BIGEARD, D. PFLIEGER and B. SCHWIKOWSKI

256. Patho-genes.org : Collecte et Analyse des Amorces de PCR Utilisées pour la Détection des Micro-organismes Pathogènes
J. GARDÈS, D. BACHAR and R. CHRISTEN

257. YeastIP: a Database for Identification and Phylogeny of Hemiascomycetous Yeasts
S. WEISS, F. SAMSON, D. NAVARRO and S. CASAREGOLA

258. IMGT/HighV-QUEST 2011
E. ALAMYAR, V. GIUDICELLI, P. DUROUX and M.-P. LEFRANC

259. MODIM : Model-Driven Data Integration for Mining
B. NDIAYE, E. BRESSO, M. SMAÏL-TABBONE, M. SOUCHET and M.-D. DEVIGNES

260. SM2PH-kb: Data Warehouse Intelligence for the Integrated Study of Human Structural Mutation to Phenotypes Relationships
T.-D. LUU, N.-H. NGUYEN, J. MULLER, L. MOULINIER and O. POCH

261. A Three-dimensional Modeling Software for Group-wise Data Integration and Analysis of Spatial Distributions in Biological Imaging
E. BIOT, J. BURGUET and P. ANDREY

262. Eoulsan: a Cloud Computing-Based‘ Framework Facilitating High Throughput Sequencing Analyses
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