Bio-samtools: Ruby bindings for SAMtools, a library for accessing BAM files containing high-throughput sequence alignments

Por Ramirez-Gonzalez, Ricardo H, Bonnal, Raoul, Caccamo, Mario, MacLean, Daniel
Publicado em 2012

BioRuby: bioinformatics software for the Ruby programming language

Por Goto, Naohisa, Prins, Pjotr, Nakao, Mitsuteru, Bonnal, Raoul, Aerts, Jan, Katayama, Toshiaki
Publicado em 2010

The Ruby UCSC API: accessing the UCSC genome database using Ruby

Por Mishima Hiroyuki, Aerts Jan, Katayama Toshiaki, Bonnal Raoul J P, Yoshiura Koh-ichiro
Publicado em 2012-09-01

Data handling strategies for high throughput pyrosequencers

Por Trombetti, Gabriele A, Bonnal, Raoul JP, Rizzi, Ermanno, De Bellis, Gianluca, Milanesi, Luciano
Publicado em 2007

The Ruby UCSC API: accessing the UCSC genome database using Ruby

Por Mishima, Hiroyuki, Aerts, Jan, Katayama, Toshiaki, Bonnal, Raoul J P, Yoshiura, Koh-ichiro
Publicado em 2012

miRiadne: a web tool for consistent integration of miRNA nomenclature

Por Bonnal, Raoul J. P., Rossi, Riccardo L., Carpi, Donatella, Ranzani, Valeria, Abrignani, Sergio, Pagani, Massimiliano
Publicado no Nucleic Acids Res (2015)

Characterization of Nucleotide Misincorporation Patterns in the Iceman's Mitochondrial DNA

Por Olivieri, Cristina, Ermini, Luca, Rizzi, Ermanno, Corti, Giorgio, Bonnal, Raoul, Luciani, Stefania, Marota, Isolina, De Bellis, Gianluca, Rollo, Franco
Publicado em 2010

RSSsite: a reference database and prediction tool for the identification of cryptic Recombination Signal Sequences in human and murine genomes

Por Merelli, Ivan, Guffanti, Alessandro, Fabbri, Marco, Cocito, Andrea, Furia, Laura, Grazini, Ursula, Bonnal, Raoul J., Milanesi, Luciano, McBlane, Fraser
Publicado em 2010

De novo transcriptome profiling of highly purified human lymphocytes primary cells

Por Bonnal, Raoul J.P., Ranzani, Valeria, Arrigoni, Alberto, Curti, Serena, Panzeri, Ilaria, Gruarin, Paola, Abrignani, Sergio, Rossetti, Grazisa, Pagani, Massimiliano
Publicado no Sci Data (2015)

Complete gene expression profiling of Saccharopolyspora erythraea using GeneChip DNA microarrays

Por Peano, Clelia, Bicciato, Silvio, Corti, Giorgio, Ferrari, Francesco, Rizzi, Ermanno, Bonnal, Raoul JP, Bordoni, Roberta, Albertini, Alberto, Bernardi, Luigi Rossi, Donadio, Stefano, De Bellis, Gianluca
Publicado em 2007

Whole-Genome Pyrosequencing of an Epidemic Multidrug-Resistant Acinetobacter baumannii Strain Belonging to the European Clone II Group

Por Iacono, Michele, Villa, Laura, Fortini, Daniela, Bordoni, Roberta, Imperi, Francesco, Bonnal, Raoul J. P., Sicheritz-Ponten, Thomas, De Bellis, Gianluca, Visca, Paolo, Cassone, Antonio, Carattoli, Alessandra
Publicado em 2008

FALDO: a semantic standard for describing the location of nucleotide and protein feature annotation

Por Bolleman, Jerven T., Mungall, Christopher J., Strozzi, Francesco, Baran, Joachim, Dumontier, Michel, Bonnal, Raoul J. P., Buels, Robert, Hoehndorf, Robert, Fujisawa, Takatomo, Katayama, Toshiaki, Cock, Peter J. A.
Publicado no J Biomed Semantics (2016)

Complete genome sequence of a serotype 11A, ST62 <it>Streptococcus pneumoniae </it>invasive isolate

Por Superti Fabiana, Iannelli Francesco, Mulas Laura, Marchetti Magda, Rizzi Ermanno, Corti Giorgio, Iacono Michele, Del Grosso Maria, Bonnal Raoul JP, Camilli Romina, Oggioni Marco R, De Bellis Gianluca, Pantosti Annalisa
Publicado em 2011-02-01

Evaluation of human gene variant detection in amplicon pools by the GS-FLX parallel Pyrosequencer

Por Bordoni, Roberta, Bonnal, Raoul, Rizzi, Ermanno, Carrera, Paola, Benedetti, Sara, Cremonesi, Laura, Stenirri, Stefania, Colombo, Alessio, Montrasio, Cristina, Bonalumi, Sara, Albertini, Alberto, Bernardi, Luigi Rossi, Ferrari, Maurizio, De Bellis, Gianluca
Publicado em 2008

Complete genome sequence of a serotype 11A, ST62 Streptococcus pneumoniae invasive isolate

Por Camilli, Romina, Bonnal, Raoul JP, Del Grosso, Maria, Iacono, Michele, Corti, Giorgio, Rizzi, Ermanno, Marchetti, Magda, Mulas, Laura, Iannelli, Francesco, Superti, Fabiana, Oggioni, Marco R, De Bellis, Gianluca, Pantosti, Annalisa
Publicado em 2011

LincRNA landscape in human lymphocytes highlights regulation of T cell differentiation by linc-MAF-4

Por Ranzani, Valeria, Rossetti, Grazisa, Panzeri, Ilaria, Arrigoni, Alberto, Bonnal, Raoul JP, Curti, Serena, Gruarin, Paola, Provasi, Elena, Sugliano, Elisa, Marconi, Maurizio, De Francesco, Raffaele, Geginat, Jens, Bodega, Beatrice, Abrignani, Sergio, Pagani, Massimiliano
Publicado no Nat Immunol (2015)

Biogem: an effective tool-based approach for scaling up open source software development in bioinformatics

Por Bonnal, Raoul J.P., Aerts, Jan, Githinji, George, Goto, Naohisa, MacLean, Dan, Miller, Chase A., Mishima, Hiroyuki, Pagani, Massimiliano, Ramirez-Gonzalez, Ricardo, Smant, Geert, Strozzi, Francesco, Syme, Rob, Vos, Rutger, Wennblom, Trevor J., Woodcroft, Ben J., Katayama, Toshiaki, Prins, Pjotr
Publicado em 2012

A transcriptional sketch of a primary human breast cancer by 454 deep sequencing

Por Guffanti, Alessandro, Iacono, Michele, Pelucchi, Paride, Kim, Namshin, Soldà, Giulia, Croft, Larry J, Taft, Ryan J, Rizzi, Ermanno, Askarian-Amiri, Marjan, Bonnal, Raoul J, Callari, Maurizio, Mignone, Flavio, Pesole, Graziano, Bertalot, Giovanni, Bernardi, Luigi Rossi, Albertini, Alberto, Lee, Christopher, Mattick, John S, Zucchi, Ileana, De Bellis, Gianluca
Publicado em 2009

Identification of New Autoantigens by Protein Array Indicates a Role for IL4 Neutralization in Autoimmune Hepatitis

Por Zingaretti, Chiara, Arigò, Milena, Cardaci, Angela, Moro, Monica, Crosti, Mariacristina, Sinisi, Antonella, Sugliano, Elisa, Cheroni, Cristina, Marabita, Francesco, Nogarotto, Renzo, Bonnal, Raoul Jean Pierre, Marcatili, Paolo, Marconi, Maurizio, Zignego, Annalinda, Muratori, Paolo, Invernizzi, Pietro, Colombatto, Piero, Brunetto, Maurizia, Bonino, Ferruccio, De Francesco, Raffaele, Geginat, Jens, Pagani, Massimiliano, Muratori, Luigi, Abrignani, Sergio, Bombaci, Mauro
Publicado em 2012

Community-driven development for computational biology at Sprints, Hackathons and Codefests

Por Möller, Steffen, Afgan, Enis, Banck, Michael, Bonnal, Raoul JP, Booth, Timothy, Chilton, John, Cock, Peter JA, Gumbel, Markus, Harris, Nomi, Holland, Richard, Kalaš, Matúš, Kaján, László, Kibukawa, Eri, Powel, David R, Prins, Pjotr, Quinn, Jacqueline, Sallou, Olivier, Strozzi, Francesco, Seemann, Torsten, Sloggett, Clare, Soiland-Reyes, Stian, Spooner, William, Steinbiss, Sascha, Tille, Andreas, Travis, Anthony J, Guimera, Roman Valls, Katayama, Toshiaki, Chapman, Brad A
Publicado no BMC Bioinformatics (2014)