Roderic Guigó

According to our database, Roderic Guigó authored at least 37 papers between 1991 and 2023.

Collaborative distances:

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

2023

RNAget: an API to securely retrieve RNA quantifications.

Sean Upchurch, Emilio Palumbo, Jeremy Adams, David Bujold, Guillaume Bourque, Jared Nedzel, Keenan Graham, Meenakshi S. Kagda, Pedro Assis, Benjamin C. Hitz, Emilio Righi, Roderic Guigó, Barbara J. Wold, Alvis Brazma, Julia Burchard, Joe Capka, Michael Cherry, Laura Clarke, Brian Craft, Manolis Dermitzakis, Mark Diekhans, John Dursi, Michael Sean Fitzsimons, Zac Flaming, Romina Garrido, Alfred Gil, Paul Godden, Matt Green, Mitch Guttman, Brian Haas, Max Haeussler, Bo Li, Sten Linnarsson, Adam Lipski, David Liu, Simonne Longerich, David Lougheed, Jonathan Manning, John C. Marioni, Christopher Meyer, Stephen B. Montgomery, Alyssa Morrow, Alfonso Muñoz-Pomer Fuentes, Jared L. Nedzel, David Nguyen, Kevin Osborn, Francis Ouellette, Irene Papatheodorou, Dmitri D. Pervouchine, Arun K. Ramani, Jordi Rambla, Bashir Sadjad, David Steinberg, Jeremiah Talkar, Timothy Tickle, Kathy Tzeng, Saman Vaisipour, Sean Watford, Barbara Wold, Zhenyu Zhang, Jing Zhu

Bioinform., April, 2023

GENCODE: reference annotation for the human and mouse genomes in 2023.

Adam Frankish, Silvia Carbonell Sala, Mark Diekhans, Irwin Jungreis, Jane E. Loveland, Jonathan M. Mudge, Cristina Sisu, James C. Wright, Carme Arnan, If Barnes, Abhimanyu Banerjee, Ruth Bennett, Andrew E. Berry, Alexandra Bignell, Carles Boix, Ferriol Calvet Riera, Daniel Cerdán-Vélez, Fiona Cunningham, Claire Davidson, Sarah M. Donaldson, Cagatay Dursun, Reham Fatima, Stefano Giorgetti, Carlos García-Girón, Jose M. Gonzalez, Matthew Hardy, Peter W. Harrison, Thibaut Hourlier, Zoe Hollis, Toby Hunt, Benjamin James, Yunzhe Jiang, Rory Johnson, Mike P. Kay, Julien Lagarde, Fergal J. Martin, Laura Martínez Gómez, Surag Nair, Pengyu Ni, Fernando Pozo, Vivek Ramalingam, Magali Ruffier, Bianca M. Schmitt, Jacob M. Schreiber, Emily Steed, Marie-Marthe Suner, Dulika Sumathipala, Irina Sycheva, Barbara Uszczynska-Ratajczak, Elizabeth Wass, Yucheng T. Yang, Andrew D. Yates, Zahoor Zafrulla, Jyoti Choudhary, Mark Gerstein, Roderic Guigó, Tim J. P. Hubbard, Manolis Kellis, Anshul Kundaje, Benedict Paten, Michael L. Tress, Paul Flicek

Nucleic Acids Res., January, 2023

2022

The European Genome-phenome Archive in 2021.

Mallory Ann Freeberg, Lauren A. Fromont, Teresa D'altri, Anna Foix Romero, Jorge Izquierdo Ciges, Aina Jene, Giselle Kerry, Mauricio Moldes, Roberto Ariosa, Silvia Bahena, Daniel Barrowdale, Marcos Casado Barbero, Dietmar Fernández-Orth, Carles Garcia-Linares, Emilio Garcia-Rios, Frédéric Haziza, Bela Juhasz, Oscar Martinez Llobet, Gemma Milla, Anand Mohan, Manuel Rueda, Aravind Sankar, Dona Shaju, Ashutosh Shimpi, Babita Singh, Coline Thomas, Sabela de la Torre, Umuthan Uyan, Claudia Vasallo, Paul Flicek, Roderic Guigó, Arcadi Navarro, Helen E. Parkinson, Thomas M. Keane, Jordi Rambla

Nucleic Acids Res., 2022

2021

GENCODE 2021.

Adam Frankish, Mark Diekhans, Irwin Jungreis, Julien Lagarde, Jane E. Loveland, Jonathan M. Mudge, Cristina Sisu, James C. Wright, Joel Armstrong, If Barnes, Andrew E. Berry, Alexandra Bignell, Carles Boix, Silvia Carbonell Sala, Fiona Cunningham, Tomás Di Domenico, Sarah M. Donaldson, Ian T. Fiddes, Carlos García-Girón, Jose M. Gonzalez, Tiago Grego, Matthew Hardy, Thibaut Hourlier, Kevin L. Howe, Toby Hunt, Osagie G. Izuogu, Rory Johnson, Fergal J. Martin, Laura Martínez, Shamika Mohanan, Paul Muir, Fabio C. P. Navarro, Anne Parker, Baikang Pei, Fernando Pozo, Ferriol Calvet Riera, Magali Ruffier, Bianca M. Schmitt, Eloise Stapleton, Marie-Marthe Suner, Irina Sycheva, Barbara Uszczynska-Ratajczak, Maxim Y. Wolf, Jinrui Xu, Yucheng T. Yang, Andrew D. Yates, Daniel R. Zerbino, Yan Zhang, Jyoti Choudhary, Mark Gerstein, Roderic Guigó, Tim J. P. Hubbard, Manolis Kellis, Benedict Paten, Michael L. Tress, Paul Flicek

Nucleic Acids Res., 2021

2020

PyHIST: A Histological Image Segmentation Tool.

Manuel Muñoz-Aguirre, Vasilis F. Ntasis, Santiago Rojas, Roderic Guigó

PLoS Comput. Biol., 2020

2019

GENCODE reference annotation for the human and mouse genomes.

Adam Frankish, Mark Diekhans, Anne-Maud Ferreira, Rory Johnson, Irwin Jungreis, Jane E. Loveland, Jonathan M. Mudge, Cristina Sisu, James C. Wright, Joel Armstrong, If Barnes, Andrew E. Berry, Alexandra Bignell, Silvia Carbonell Sala, Jacqueline Chrast, Fiona Cunningham, Tomás Di Domenico, Sarah M. Donaldson, Ian T. Fiddes, Carlos García-Girón, Jose M. Gonzalez, Tiago Grego, Matthew Hardy, Thibaut Hourlier, Toby Hunt, Osagie G. Izuogu, Julien Lagarde, Fergal J. Martin, Laura Martínez, Shamika Mohanan, Paul Muir, Fabio C. P. Navarro, Anne Parker, Baikang Pei, Fernando Pozo, Magali Ruffier, Bianca M. Schmitt, Eloise Stapleton, Marie-Marthe Suner, Irina Sycheva, Barbara Uszczynska-Ratajczak, Jinrui Xu, Andrew D. Yates, Daniel R. Zerbino, Yan Zhang, Bronwen L. Aken, Jyoti Choudhary, Mark Gerstein, Roderic Guigó, Tim J. P. Hubbard, Manolis Kellis, Benedict Paten, Alexandre Reymond, Michael L. Tress, Paul Flicek

Nucleic Acids Res., 2019

2018

ggsashimi: Sashimi plot revised for browser- and annotation-independent splicing visualization.

Diego Garrido-Martín, Emilio Palumbo, Roderic Guigó, Alessandra Breschi

PLoS Comput. Biol., 2018

2017

Computational identification of the selenocysteine tRNA (tRNASec) in genomes.

Didac Santesmasses, Marco Mariotti, Roderic Guigó

PLoS Comput. Biol., 2017

Scalable Design of Paired CRISPR Guide RNAs for Genomic Deletion.

Carlos Pulido-Quetglas, Estel Aparicio-Prat, Carme Arnan, Taisia Polidori, Toni Hermoso, Emilio Palumbo, Julia V. Ponomarenko, Roderic Guigó, Rory Johnson

PLoS Comput. Biol., 2017

Ten Simple Rules on How to Organize a Scientific Retreat.

Julia V. Ponomarenko, Romina Garrido, Roderic Guigó

PLoS Comput. Biol., 2017

The impact of rare variation on gene expression across tissues.

Xin Li, Yungil Kim, Emily K. Tsang, Joe R. Davis, Farhan N. Damani, Colby Chiang, Gaelen T. Hess, Zachary Zappala, Benjamin J. Strober, Alexandra J. Scott, Amy Li, Andrea Ganna, Michael C. Bassik, Jason D. Merker, François Aguet, Kristin G. Ardlie, Beryl B. Cummings, Ellen T. Gelfand, Gad Getz, Kane Hadley, Robert E. Handsaker, Katherine H. Huang, Seva Kashin, Konrad J. Karczewski, Monkol Lek, Xiao Li, Daniel G. MacArthur, Jared L. Nedzel, Duyen T. Nguyen, Michael S. Noble, Ayellet V. Segrè, Casandra A. Trowbridge, Taru Tukiainen, Nathan S. Abell, Brunilda Balliu, Ruth Barshir, Omer Basha, Alexis J. Battle, Gireesh K. Bogu, Andrew Brown, Christopher D. Brown, Stephane E. Castel, Lin S. Chen, Donald F. Conrad, Nancy J. Cox, Olivier Delaneau, Emmanouil T. Dermitzakis, Barbara E. Engelhardt, Eleazar Eskin, Pedro G. Ferreira, Laure Frésard, Eric R. Gamazon, Diego Garrido-Martín, Ariel D. H. Gewirtz, Genna Gliner, Michael J. Gloudemans, Roderic Guigó, Ira M. Hall, Buhm Han, Yuan He, Farhad Hormozdiari, Cedric Howald, Hae Kyung Im, Brian Jo, Eun Yong Kang, Sarah Kim-Hellmuth, Tuuli Lappalainen, Gen Li, Boxiang Liu, Serghei Mangul, Mark I. McCarthy, Ian C. McDowell, Pejman Mohammadi, Jean Monlong, Stephen B. Montgomery

Nat., 2017

2014

SelenoDB 2.0: annotation of selenoprotein genes in animals and their genetic diversity in humans.

Frédéric Romagné, Didac Santesmasses, Louise White, Gaurab K. Sarangi, Marco Mariotti, Ron Hübler, Antje Weihmann, Genis Parra, Vadim N. Gladyshev, Roderic Guigó, Sergi Castellano

Nucleic Acids Res., 2014

2013

Intron-centric estimation of alternative splicing from RNA-seq data.

Dmitri D. Pervouchine, David G. Knowles, Roderic Guigó

Bioinform., 2013

Grape RNA-Seq analysis pipeline environment.

David G. Knowles, Maik Röder, Angelika Merkel, Roderic Guigó

Bioinform., 2013

2010

Selenoprofiles: profile-based scanning of eukaryotic genome sequences for selenoprotein genes.

Marco Mariotti, Roderic Guigó

Bioinform., 2010

2009

CROC: finding chromosomal clusters in eukaryotic genomes.

Miguel Pignatelli, Florenci Serras, Andrés Moya, Roderic Guigó, Montserrat Corominas

Bioinform., 2009

SECISaln, a web-based tool for the creation of structure-based alignments of eukaryotic SECIS elements.

Charles E. Chapple, Roderic Guigó, Alain Krol

Bioinform., 2009

2008

A General Definition and Nomenclature for Alternative Splicing Events.

Michael Sammeth, Sylvain Foissac, Roderic Guigó

PLoS Comput. Biol., 2008

SelenoDB 1.0 : a database of selenoprotein genes, proteins and SECIS elements.

Sergi Castellano, Vadim N. Gladyshev, Roderic Guigó, Marla J. Berry

Nucleic Acids Res., 2008

Exact Transcriptome Reconstruction from Short Sequence Reads.

Vincent Lacroix, Michael Sammeth, Roderic Guigó, Anne Bergeron

Proceedings of the Algorithms in Bioinformatics, 8th International Workshop, 2008

Bubbles: Alternative Splicing Events of Arbitrary Dimension in Splicing Graphs.

Michael Sammeth, Gabriel Valiente, Roderic Guigó

Proceedings of the Research in Computational Molecular Biology, 2008

GenePC and ASPIC Integrate Gene Predictions with Expressed Sequence Alignments To Predict Alternative Transcripts.

Tyler S. Alioto, Roderic Guigó, Ernesto Picardi, Graziano Pesole

Proceedings of the 6th Asia-Pacific Bioinformatics Conference, 2008

2007

Multiple non-collinear TF-map alignments of promoter regions.

Enrique Blanco, Roderic Guigó, Xavier Messeguer

BMC Bioinform., 2007

BioMoby web services to support clustering of co-regulated genes based on similarity of promoter configurations.

Arnaud Kerhornou, Roderic Guigó

Bioinform., 2007

2006

Transcription Factor Map Alignment of Promoter Regions.

Enrique Blanco, Xavier Messeguer, Temple F. Smith, Roderic Guigó

PLoS Comput. Biol., 2006

ABS: a database of Annotated regulatory Binding Sites from orthologous promoters.

Enrique Blanco, Domènec Farré, M. Mar Albà, Xavier Messeguer, Roderic Guigó

Nucleic Acids Res., 2006

2005

Gene finding in the chicken genome.

Eduardo Eyras, Alexandre Reymond, Robert Castelo, Jacqueline M. Bye, Francisco Camara, Paul Flicek, Elizabeth J. Huckle, Genis Parra, David D. Shteynberg, Carine Wyss, Jane Rogers, Stylianos E. Antonarakis, Ewan Birney, Roderic Guigó, Michael R. Brent

BMC Bioinform., 2005

ECCB/JBI 2005.

Roderic Guigó, Federico Morán, Alfonso Valencia, Josep F. Abril

Proceedings of the ECCB/JBI'05 Proceedings, Fourth European Conference on Computational Biology/Sixth Meeting of the Spanish Bioinformatics Network (Jornadas de BioInformática), Palacio de Congresos, Madrid, Spain, September 28, 2005

2004

Splice site identification by idlBNs.

Robert Castelo, Roderic Guigó

Proceedings of the Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computational Biology 2004, 2004

2003

gff2aplot: Plotting sequence comparisons.

Josep F. Abril, Roderic Guigó, Thomas Wiehe

Bioinform., 2003

2000

gff2ps: visualizing genomic annotations.

Josep F. Abril, Roderic Guigó

Bioinform., 2000

Genome Sequence Comparisons: Hurdles in the Fast Lane to Functional Genomics.

Thomas Wiehe, Roderic Guigó, Webb Miller

Briefings Bioinform., 2000

1998

Assembling Genes from Predicted Exons In Linear Time with Dynamic Programming.

Roderic Guigó

J. Comput. Biol., 1998

1997

Three-dimensional modelling of human cytochrome P450 1A2 and its interaction with caffeine and MeIQ.

Juan José Lozano, Elena López-de-Briñas, Nuria B. Centeno, Roderic Guigó, Ferran Sanz

J. Comput. Aided Mol. Des., 1997

Computational Gene Identification: An Open Problem.

Roderic Guigó

Comput. Chem., 1997

1993

Inferring Correlation Between Database Queries: Analysis of Protein Sequence Patterns.

Roderic Guigó, Temple F. Smith

IEEE Trans. Pattern Anal. Mach. Intell., 1993

1991

Automatic evaluation of protein sequence functional patterns.

Roderic Guigó, A. Johansson, Temple F. Smith

Comput. Appl. Biosci., 1991