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Bruno Contreras-Moreira
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2020 – today
- 2021
- [j11]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:
Gramene 2021: harnessing the power of comparative genomics and pathways for plant research. Nucleic Acids Res. 49(Database-Issue): D1452-D1463 (2021) - 2020
- [j10]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
:
Ensembl Genomes 2020 - enabling non-vertebrate genomic research. Nucleic Acids Res. 48(Database-Issue): D689-D695 (2020)
2010 – 2019
- 2018
- [j9]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
:
RSAT 2018: regulatory sequence analysis tools 20th anniversary. Nucleic Acids Res. 46(Webserver-Issue): W209-W214 (2018) - 2015
- [j8]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
:
RSAT 2015: Regulatory Sequence Analysis Tools. Nucleic Acids Res. 43(Webserver-Issue): W50-W56 (2015) - 2014
- [j7]Álvaro Sebastián, Bruno Contreras-Moreira
:
footprintDB: a database of transcription factors with annotated cis elements and binding interfaces. Bioinform. 30(2): 258-265 (2014) - 2010
- [j6]Bruno Contreras-Moreira
:
3D-footprint: a database for the structural analysis of protein-DNA complexes. Nucleic Acids Res. 38(Database-Issue): 91-97 (2010) - [c2]Álvaro Sebastián, Carlos P. Cantalapiedra
, Bruno Contreras-Moreira
:
Interface Similarity Improves Comparison of DNA-Binding Proteins: The Homeobox Example. JBI 2010: 72-82
2000 – 2009
- 2009
- [j5]Bruno Contreras-Moreira
, Bernardo Sachman-Ruiz
, Iraís Figueroa-Palacios, Pablo Vinuesa
:
primers4clades: a web server that uses phylogenetic trees to design lineage-specific PCR primers for metagenomic and diversity studies. Nucleic Acids Res. 37(Web-Server-Issue): 95-100 (2009) - 2008
- [j4]Vladimir Espinosa Angarica
, Abel González Pérez
, Ana Tereza Ribeiro de Vasconcelos
, Julio Collado-Vides
, Bruno Contreras-Moreira
:
Prediction of TF target sites based on atomistic models of protein-DNA complexes. BMC Bioinform. 9 (2008) - [j3]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:
RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation. Nucleic Acids Res. 36(Database-Issue): 120-124 (2008) - 2007
- [j2]Bruno Contreras-Moreira
, Pierre-Alain Branger, Julio Collado-Vides
:
TFmodeller: comparative modelling of protein-DNA complexes. Bioinform. 23(13): 1694-1696 (2007) - 2006
- [c1]Bruno Contreras-Moreira
, Julio Collado-Vides
:
Comparative footprinting of DNA-binding proteins. ISMB (Supplement of Bioinformatics) 2006: 74-80 - 2002
- [j1]Bruno Contreras-Moreira
, Paul A. Bates
:
Domain Fishing: a first step in protein comparative modelling. Bioinform. 18(8): 1141-1142 (2002)
Coauthor Index

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