Bruno Contreras-Moreira

According to our database, Bruno Contreras-Moreira authored at least 16 papers between 2002 and 2022.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2022

Ensembl Genomes 2022: an expanding genome resource for non-vertebrates.

Andrew D. Yates, James E. Allen, M. Ridwan Amode, Andrey G. Azov, Matthieu Barba, Andrés Becerra, Jyothish Bhai, Lahcen I. Campbell, Manuel Carbajo Martinez, Marc Chakiachvili, Kapeel Chougule, Mikkel B. Christensen, Bruno Contreras-Moreira, Alayne Cuzick, Luca Da Rin Fioretto, Paul Davis, Nishadi De Silva, Stavros Diamantakis, Sarah Dyer, Justin Elser, Carla V. Filippi, Astrid Gall, Dionysios Grigoriadis, Cristina Guijarro-Clarke, Parul Gupta, Kim E. Hammond-Kosack, Kevin L. Howe, Pankaj Jaiswal, Vinay Kaikala, Vivek Kumar, Sunita Kumari, Nick Langridge, Tuan Le, Manuel Luypaert, Gareth Maslen, Thomas Maurel, Benjamin Moore, Matthieu Muffato, Aleena Mushtaq, Guy Naamati, Sushma Naithani, Andrew Olson, Anne Parker, Michael Paulini, Helder Pedro, Emily Perry, Justin Preece, Mark Quinton-Tulloch, Faye Rodgers, Marc Rosello, Magali Ruffier, James Seager, Vasily Sitnik, Michal Szpak, John G. Tate, Marcela K. Tello-Ruiz, Stephen J. Trevanion, Martin Urban, Doreen Ware, Sharon Wei, Gary Williams, Andrea Winterbottom, Magdalena Zarowiecki, Robert D. Finn, Paul Flicek

Nucleic Acids Res., 2022

The Ensembl COVID-19 resource: ongoing integration of public SARS-CoV-2 data.

Nishadi De Silva, Jyothish Bhai, Marc Chakiachvili, Bruno Contreras-Moreira, Carla A. Cummins, Adam Frankish, Astrid Gall, Thiago Augusto Lopes Genez, Kevin L. Howe, Sarah E. Hunt, Fergal J. Martin, Benjamin Moore, Denye N. Oheh, Anne Parker, Andrew Parton, Magali Ruffier, Manoj Pandian Sakthivel, Dan Sheppard, John G. Tate, Anja Thormann, David Thybert, Stephen J. Trevanion, Andrea Winterbottom, Daniel R. Zerbino, Robert D. Finn, Paul Flicek, Andrew D. Yates

Nucleic Acids Res., 2022

RSAT 2022: regulatory sequence analysis tools.

Walter Santana-Garcia, Jaime Abraham Castro-Mondragón, Mónica Padilla-Gálvez, Nga Thi Thuy Nguyen, Ana Elizondo-Salas, Najla Ksouri, François Gerbes, Denis Thieffry, Pierre Vincens, Bruno Contreras-Moreira, Jacques van Helden, Morgane Thomas-Chollier, Alejandra Medina-Rivera

Nucleic Acids Res., 2022

2021

Gramene 2021: harnessing the power of comparative genomics and pathways for plant research.

Marcela K. Tello-Ruiz, Sushma Naithani, Parul Gupta, Andrew Olson, Sharon Wei, Justin Preece, Yinping Jiao, Bo Wang, Kapeel Chougule, Priyanka Garg, Justin Elser, Sunita Kumari, Vivek Kumar, Bruno Contreras-Moreira, Guy Naamati, Nancy George, Justin Cook, Dan M. Bolser, Peter D'Eustachio, Lincoln D. Stein, Amit Gupta, Weijia Xu, Jennifer Regala, Irene Papatheodorou, Paul J. Kersey, Paul Flicek, Crispin Taylor, Pankaj Jaiswal, Doreen Ware

Nucleic Acids Res., 2021

2020

Ensembl Genomes 2020 - enabling non-vertebrate genomic research.

Kevin L. Howe, Bruno Contreras-Moreira, Nishadi De Silva, Gareth Maslen, Wasiu A. Akanni, James E. Allen, Jorge Álvarez-Jarreta, Matthieu Barba, Dan M. Bolser, Lahcen Cambell, Manuel Carbajo, Marc Chakiachvili, Mikkel B. Christensen, Carla A. Cummins, Alayne Cuzick, Paul Davis, Silvie Fexova, Astrid Gall, Nancy George, Laurent Gil, Parul Gupta, Kim E. Hammond-Kosack, Erin Haskell, Sarah E. Hunt, Pankaj Jaiswal, Sophie H. Janacek, Paul J. Kersey, Nick Langridge, Uma Maheswari, Thomas Maurel, Mark D. McDowall, Benjamin Moore, Matthieu Muffato, Guy Naamati, Sushma Naithani, Andrew Olson, Irene Papatheodorou, Mateus Patricio, Michael Paulini, Helder Pedro, Emily Perry, Justin Preece, Marc Rosello, Matthew Russell, Vasily Sitnik, Daniel M. Staines, Joshua C. Stein, Marcela K. Tello-Ruiz, Stephen J. Trevanion, Martin Urban, Sharon Wei, Doreen Ware, Gary Williams, Andrew D. Yates, Paul Flicek

Nucleic Acids Res., 2020

2018

RSAT 2018: regulatory sequence analysis tools 20th anniversary.

Nga Thi Thuy Nguyen, Bruno Contreras-Moreira, Jaime Abraham Castro-Mondragón, Walter Santana-Garcia, Raul Ossio, Carla Daniela Robles-Espinoza, Mathieu Bahin, Samuel Collombet, Pierre Vincens, Denis Thieffry, Jacques van Helden, Alejandra Medina-Rivera, Morgane Thomas-Chollier

Nucleic Acids Res., 2018

2015

RSAT 2015: Regulatory Sequence Analysis Tools.

Alejandra Medina-Rivera, Matthieu Defrance, Olivier Sand, Carl Herrmann, Jaime Abraham Castro-Mondragón, Jeremy Delerce, Sébastien Jaeger, Christophe Blanchet, Pierre Vincens, Christophe Caron, Daniel M. Staines, Bruno Contreras-Moreira, Marie Artufel, Lucie Charbonnier-Khamvongsa, Céline Hernandez, Denis Thieffry, Morgane Thomas-Chollier, Jacques van Helden

Nucleic Acids Res., 2015

2014

footprintDB: a database of transcription factors with annotated cis elements and binding interfaces.

Álvaro Sebastián, Bruno Contreras-Moreira

Bioinform., 2014

2010

3D-footprint: a database for the structural analysis of protein-DNA complexes.

Bruno Contreras-Moreira

Nucleic Acids Res., 2010

Interface Similarity Improves Comparison of DNA-Binding Proteins: The Homeobox Example.

Álvaro Sebastián, Carlos P. Cantalapiedra, Bruno Contreras-Moreira

Proceedings of the Bioinformatics for Personalized Medicine, 2010

2009

primers4clades: a web server that uses phylogenetic trees to design lineage-specific PCR primers for metagenomic and diversity studies.

Bruno Contreras-Moreira, Bernardo Sachman-Ruiz, Iraís Figueroa-Palacios, Pablo Vinuesa

Nucleic Acids Res., 2009

2008

RegulonDB (version 6.0): gene regulation model of <i>Escherichia coli</i> K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation.

Socorro Gama-Castro, Verónica Jiménez-Jacinto, Martín Peralta-Gil, Alberto Santos-Zavaleta, Mónica I. Peñaloza-Spínola, Bruno Contreras-Moreira, Juan Segura-Salazar, Luis Muñiz-Rascado, Irma Martínez-Flores, Heladia Salgado, César Bonavides-Martínez, Cei Abreu-Goodger, Carlos Rodríguez Penagos, Juan Miranda-Ríos, Enrique Morett, Enrique Merino, Araceli M. Huerta, Luis Treviño-Quintanilla, Julio Collado-Vides

Nucleic Acids Res., 2008

Prediction of TF target sites based on atomistic models of protein-DNA complexes.

Vladimir Espinosa Angarica, Abel González Pérez, Ana Tereza Ribeiro de Vasconcelos, Julio Collado-Vides, Bruno Contreras-Moreira

BMC Bioinform., 2008

2007

TFmodeller: comparative modelling of protein-DNA complexes.

Bruno Contreras-Moreira, Pierre-Alain Branger, Julio Collado-Vides

Bioinform., 2007

2006

Comparative footprinting of DNA-binding proteins.

Bruno Contreras-Moreira, Julio Collado-Vides

Proceedings of the Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, 2006

2002

Domain Fishing: a first step in protein comparative modelling.

Bruno Contreras-Moreira, Paul A. Bates

Bioinform., 2002