Predicting RNA secondary structure by the comparative approach: how to select the homologous sequences

par Engelen, Stéfan, Tahi, Fariza
Publié 2007

Tfold: efficient in silico prediction of non-coding RNA secondary structures

par Engelen, Stéfan, Tahi, Fariza
Publié 2010

BoardION: real-time monitoring of Oxford Nanopore sequencing instruments

par Bruno, Aimeric, Aury, Jean-Marc, Engelen, Stefan
Publié dans BMC Bioinformatics (2021)

Distinct co-evolution patterns of genes associated to DNA polymerase III DnaE and PolC

par Engelen, Stefan, Vallenet, David, Médigue, Claudine, Danchin, Antoine
Publié 2012

Joint Evolutionary Trees: A Large-Scale Method To Predict Protein Interfaces Based on Sequence Sampling

par Engelen, Stefan, Trojan, Ladislas A., Sacquin-Mora, Sophie, Lavery, Richard, Carbone, Alessandra
Publié 2009

A double-blind randomized controlled trial comparing dexamethasone and clonidine as adjuvants to a ropivacaine sciatic popliteal block for foot surgery

par Vermeylen, Kris, De Puydt, Joris, Engelen, Stefan, Roofthooft, Eva, Soetens, Filiep, Neyrinck, Arne, Van de Velde, Marc
Publié dans Local Reg Anesth (2016)

Genome assembly using Nanopore-guided long and error-free DNA reads

par Madoui, Mohammed-Amin, Engelen, Stefan, Cruaud, Corinne, Belser, Caroline, Bertrand, Laurie, Alberti, Adriana, Lemainque, Arnaud, Wincker, Patrick, Aury, Jean-Marc
Publié dans BMC Genomics (2015)

A framework for in situ molecular characterization of coral holobionts using nanopore sequencing

par Carradec, Quentin, Poulain, Julie, Boissin, Emilie, Hume, Benjamin C. C., Voolstra, Christian R., Ziegler, Maren, Engelen, Stefan, Cruaud, Corinne, Planes, Serge, Wincker, Patrick
Publié dans Sci Rep (2020)

Author Correction: A framework for in situ molecular characterization of coral holobionts using nanopore sequencing

par Carradec, Quentin, Poulain, Julie, Boissin, Emilie, Hume, Benjamin C. C., Voolstra, Christian R., Ziegler, Maren, Engelen, Stefan, Cruaud, Corinne, Planes, Serge, Wincker, Patrick
Publié dans Sci Rep (2021)

Comparison of library preparation methods reveals their impact on interpretation of metatranscriptomic data

par Alberti, Adriana, Belser, Caroline, Engelen, Stéfan, Bertrand, Laurie, Orvain, Céline, Brinas, Laura, Cruaud, Corinne, Giraut, Laurène, Da Silva, Corinne, Firmo, Cyril, Aury, Jean-Marc, Wincker, Patrick
Publié 2014

Transposition favors the generation of large effect mutations that may facilitate rapid adaption

par Quadrana, Leandro, Etcheverry, Mathilde, Gilly, Arthur, Caillieux, Erwann, Madoui, Mohammed-Amin, Guy, Julie, Bortolini Silveira, Amanda, Engelen, Stefan, Baillet, Victoire, Wincker, Patrick, Aury, Jean-Marc, Colot, Vincent
Publié dans Nat Commun (2019)

FORK-seq: replication landscape of the Saccharomyces cerevisiae genome by nanopore sequencing

par Hennion, Magali, Arbona, Jean-Michel, Lacroix, Laurent, Cruaud, Corinne, Theulot, Bertrand, Tallec, Benoît Le, Proux, Florence, Wu, Xia, Novikova, Elizaveta, Engelen, Stefan, Lemainque, Arnaud, Audit, Benjamin, Hyrien, Olivier
Publié dans Genome Biol (2020)

TE-Tracker: systematic identification of transposition events through whole-genome resequencing

par Gilly, Arthur, Etcheverry, Mathilde, Madoui, Mohammed-Amin, Guy, Julie, Quadrana, Leandro, Alberti, Adriana, Martin, Antoine, Heitkam, Tony, Engelen, Stefan, Labadie, Karine, Le Pen, Jeremie, Wincker, Patrick, Colot, Vincent, Aury, Jean-Marc
Publié dans BMC Bioinformatics (2014)

de novo assembly and population genomic survey of natural yeast isolates with the Oxford Nanopore MinION sequencer

par Istace, Benjamin, Friedrich, Anne, d'Agata, Léo, Faye, Sébastien, Payen, Emilie, Beluche, Odette, Caradec, Claudia, Davidas, Sabrina, Cruaud, Corinne, Liti, Gianni, Lemainque, Arnaud, Engelen, Stefan, Wincker, Patrick, Schacherer, Joseph, Aury, Jean-Marc
Publié dans Gigascience (2017)

MicroScope—an integrated microbial resource for the curation and comparative analysis of genomic and metabolic data

par Vallenet, David, Belda, Eugeni, Calteau, Alexandra, Cruveiller, Stéphane, Engelen, Stefan, Lajus, Aurélie, Le Fèvre, François, Longin, Cyrille, Mornico, Damien, Roche, David, Rouy, Zoé, Salvignol, Gregory, Scarpelli, Claude, Thil Smith, Adam Alexander, Weiman, Marion, Médigue, Claudine
Publié 2013

Characterizing neutral genomic diversity and selection signatures in indigenous populations of Moroccan goats (Capra hircus) using WGS data

par Benjelloun, Badr, Alberto, Florian J., Streeter, Ian, Boyer, Frédéric, Coissac, Eric, Stucki, Sylvie, BenBati, Mohammed, Ibnelbachyr, Mustapha, Chentouf, Mouad, Bechchari, Abdelmajid, Leempoel, Kevin, Alberti, Adriana, Engelen, Stefan, Chikhi, Abdelkader, Clarke, Laura, Flicek, Paul, Joost, Stéphane, Taberlet, Pierre, Pompanon, François
Publié dans Front Genet (2015)

An evaluation of sequencing coverage and genotyping strategies to assess neutral and adaptive diversity

par Benjelloun, Badr, Boyer, Frédéric, Streeter, Ian, Zamani, Wahid, Engelen, Stefan, Alberti, Adriana, Alberto, Florian J., BenBati, Mohamed, Ibnelbachyr, Mustapha, Chentouf, Mouad, Bechchari, Abdelmajid, Rezaei, Hamid R., Naderi, Saeid, Stella, Alessandra, Chikhi, Abdelkader, Clarke, Laura, Kijas, James, Flicek, Paul, Taberlet, Pierre, Pompanon, François
Publié dans Mol Ecol Resour (2019)

Genome evolution across 1,011 Saccharomyces cerevisiae isolates

par Peter, Jackson, De Chiara, Matteo, Friedrich, Anne, Yue, Jia-Xing, Pflieger, David, Bergström, Anders, Sigwalt, Anastasie, Barre, Benjamin, Freel, Kelle, Llored, Agnès, Cruaud, Corinne, Labadie, Karine, Aury, Jean-Marc, Istace, Benjamin, Lebrigand, Kevin, Barbry, Pascal, Engelen, Stefan, Lemainque, Arnaud, Wincker, Patrick, Liti, Gianni, Schacherer, Joseph
Publié dans Nature (2018)

Long-read assembly of the Brassica napus reference genome Darmor-bzh

par Rousseau-Gueutin, Mathieu, Belser, Caroline, Da Silva, Corinne, Richard, Gautier, Istace, Benjamin, Cruaud, Corinne, Falentin, Cyril, Boideau, Franz, Boutte, Julien, Delourme, Regine, Deniot, Gwenaëlle, Engelen, Stefan, de Carvalho, Julie Ferreira, Lemainque, Arnaud, Maillet, Loeiz, Morice, Jérôme, Wincker, Patrick, Denoeud, France, Chèvre, Anne-Marie, Aury, Jean-Marc
Publié dans Gigascience (2020)

Convergent genomic signatures of domestication in sheep and goats

par Alberto, Florian J., Boyer, Frédéric, Orozco-terWengel, Pablo, Streeter, Ian, Servin, Bertrand, de Villemereuil, Pierre, Benjelloun, Badr, Librado, Pablo, Biscarini, Filippo, Colli, Licia, Barbato, Mario, Zamani, Wahid, Alberti, Adriana, Engelen, Stefan, Stella, Alessandra, Joost, Stéphane, Ajmone-Marsan, Paolo, Negrini, Riccardo, Orlando, Ludovic, Rezaei, Hamid Reza, Naderi, Saeid, Clarke, Laura, Flicek, Paul, Wincker, Patrick, Coissac, Eric, Kijas, James, Tosser-Klopp, Gwenola, Chikhi, Abdelkader, Bruford, Michael W., Taberlet, Pierre, Pompanon, François
Publié dans Nat Commun (2018)