Roderic Guigó

Publication Activity (10 Years)

Years Active: 1991-2023
Publications (10 Years): 11

Top Topics

Linkage Disequilibrium

Gene Expression

Genome Annotation

Top Venues

Nucleic Acids Res.

PLoS Comput. Biol.

Publications

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
RNAget: an API to securely retrieve RNA quantifications. Bioinform. 39 (4) (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
GENCODE: reference annotation for the human and mouse genomes in 2023. Nucleic Acids Res. 51 (D1) (2023)
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
The European Genome-phenome Archive in 2021. Nucleic Acids Res. 50 (D1) (2022)
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
GENCODE 2021. Nucleic Acids Res. 49 (Database-Issue) (2021)
Manuel Muñoz-Aguirre, Vasilis F. Ntasis, Santiago Rojas, Roderic Guigó
PyHIST: A Histological Image Segmentation Tool. PLoS Comput. Biol. 16 (10) (2020)
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
GENCODE reference annotation for the human and mouse genomes. Nucleic Acids Res. 47 (Database-Issue) (2019)
Diego Garrido-Martín, Emilio Palumbo, Roderic Guigó, Alessandra Breschi
ggsashimi: Sashimi plot revised for browser- and annotation-independent splicing visualization. PLoS Comput. Biol. 14 (8) (2018)
Carlos Pulido-Quetglas, Estel Aparicio-Prat, Carme Arnan, Taisia Polidori, Toni Hermoso, Emilio Palumbo, Julia V. Ponomarenko, Roderic Guigó, Rory Johnson
Scalable Design of Paired CRISPR Guide RNAs for Genomic Deletion. PLoS Comput. Biol. 13 (3) (2017)
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 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
The impact of rare variation on gene expression across tissues. Nat. 550 (7675) (2017)
Julia V. Ponomarenko, Romina Garrido, Roderic Guigó
Ten Simple Rules on How to Organize a Scientific Retreat. PLoS Comput. Biol. 13 (2) (2017)
Didac Santesmasses, Marco Mariotti, Roderic Guigó
Computational identification of the selenocysteine tRNA (tRNASec) in genomes. PLoS Comput. Biol. 13 (2) (2017)
Frédéric Romagné, Didac Santesmasses, Louise White, Gaurab K. Sarangi, Marco Mariotti, Ron Hübler, Antje Weihmann, Genis Parra, Vadim N. Gladyshev, Roderic Guigó, Sergi Castellano
SelenoDB 2.0: annotation of selenoprotein genes in animals and their genetic diversity in humans. Nucleic Acids Res. 42 (Database-Issue) (2014)
David G. Knowles, Maik Röder, Angelika Merkel, Roderic Guigó
Grape RNA-Seq analysis pipeline environment. Bioinform. 29 (5) (2013)
Dmitri D. Pervouchine, David G. Knowles, Roderic Guigó
Intron-centric estimation of alternative splicing from RNA-seq data. Bioinform. 29 (2) (2013)
Marco Mariotti, Roderic Guigó
Selenoprofiles: profile-based scanning of eukaryotic genome sequences for selenoprotein genes. Bioinform. 26 (21) (2010)
Charles E. Chapple, Roderic Guigó, Alain Krol
SECISaln, a web-based tool for the creation of structure-based alignments of eukaryotic SECIS elements. Bioinform. 25 (5) (2009)
Miguel Pignatelli, Florenci Serras, Andrés Moya, Roderic Guigó, Montserrat Corominas
CROC: finding chromosomal clusters in eukaryotic genomes. Bioinform. 25 (12) (2009)
Michael Sammeth, Sylvain Foissac, Roderic Guigó
A General Definition and Nomenclature for Alternative Splicing Events. PLoS Comput. Biol. 4 (8) (2008)
Michael Sammeth, Gabriel Valiente, Roderic Guigó
Bubbles: Alternative Splicing Events of Arbitrary Dimension in Splicing Graphs. RECOMB (2008)
Sergi Castellano, Vadim N. Gladyshev, Roderic Guigó, Marla J. Berry
SelenoDB 1.0 : a database of selenoprotein genes, proteins and SECIS elements. Nucleic Acids Res. 36 (Database-Issue) (2008)
Tyler S. Alioto, Roderic Guigó, Ernesto Picardi, Graziano Pesole
GenePC and ASPIC Integrate Gene Predictions with Expressed Sequence Alignments To Predict Alternative Transcripts. APBC (2008)
Vincent Lacroix, Michael Sammeth, Roderic Guigó, Anne Bergeron
Exact Transcriptome Reconstruction from Short Sequence Reads. WABI (2008)
Arnaud Kerhornou, Roderic Guigó
BioMoby web services to support clustering of co-regulated genes based on similarity of promoter configurations. Bioinform. 23 (14) (2007)
Enrique Blanco, Roderic Guigó, Xavier Messeguer
Multiple non-collinear TF-map alignments of promoter regions. BMC Bioinform. 8 (2007)
Enrique Blanco, Xavier Messeguer, Temple F. Smith, Roderic Guigó
Transcription Factor Map Alignment of Promoter Regions. PLoS Comput. Biol. 2 (5) (2006)
Enrique Blanco, Domènec Farré, M. Mar Albà, Xavier Messeguer, Roderic Guigó
ABS: a database of Annotated regulatory Binding Sites from orthologous promoters. Nucleic Acids Res. 34 (Database-Issue) (2006)
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
Gene finding in the chicken genome. BMC Bioinform. 6 (2005)
Roderic Guigó, Federico Morán, Alfonso Valencia, Josep F. Abril
ECCB/JBI 2005. ECCB/JBI (2005)
Robert Castelo, Roderic Guigó
Splice site identification by idlBNs. ISMB/ECCB (Supplement of Bioinformatics) (2004)
Josep F. Abril, Roderic Guigó, Thomas Wiehe
gff2aplot: Plotting sequence comparisons. Bioinform. 19 (18) (2003)
Thomas Wiehe, Roderic Guigó, Webb Miller
Genome Sequence Comparisons: Hurdles in the Fast Lane to Functional Genomics. Briefings Bioinform. 1 (4) (2000)
Josep F. Abril, Roderic Guigó
gff2ps: visualizing genomic annotations. Bioinform. 16 (8) (2000)
Roderic Guigó
Assembling Genes from Predicted Exons In Linear Time with Dynamic Programming. J. Comput. Biol. 5 (4) (1998)
Roderic Guigó
Computational Gene Identification: An Open Problem. Comput. Chem. 21 (4) (1997)
Juan José Lozano, Elena López-de-Briñas, Nuria B. Centeno, Roderic Guigó, Ferran Sanz
Three-dimensional modelling of human cytochrome P450 1A2 and its interaction with caffeine and MeIQ. J. Comput. Aided Mol. Des. 11 (4) (1997)
Roderic Guigó, Temple F. Smith
Inferring Correlation Between Database Queries: Analysis of Protein Sequence Patterns. IEEE Trans. Pattern Anal. Mach. Intell. 15 (10) (1993)
Roderic Guigó, A. Johansson, Temple F. Smith
Automatic evaluation of protein sequence functional patterns. Comput. Appl. Biosci. 7 (3) (1991)