default search action
Google
Google Scholar
Semantic Scholar
Internet Archive Scholar
CiteSeerX
ORCIDBibTeX records: Joaquín Dopazo
@article{DBLP:journals/fbinf/GawronHPPEFCSHAGSSDFO23,
author = {Piotr Gawron and
David Hoksza and
Janet Pi{\~{n}}ero and
Mar{\'{\i}}a Pe{\~{n}}a{-}Chilet and
Marina Esteban{-}Medina and
Jose Luis Fernandez{-}Rueda and
Vincenza Colonna and
Ewa Smula and
Laurent Heirendt and
Fran{\c{c}}ois Ancien and
Valentin Grou{\`{e}}s and
Venkata P. Satagopam and
Reinhard Schneider and
Joaqu{\'{\i}}n Dopazo and
Laura I. Furlong and
Marek Ostaszewski},
title = {Visualization of automatically combined disease maps and pathway diagrams
for rare diseases},
journal = {Frontiers Bioinform.},
volume = {3},
year = {2023},
url = {https://doi.org/10.3389/fbinf.2023.1101505},
doi = {10.3389/FBINF.2023.1101505},
timestamp = {Tue, 12 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/fbinf/GawronHPPEFCSHAGSSDFO23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cmsb/GundogduPANDL23,
author = {Pelin Gundogdu and
Miriam Pay{\'{a}}{-}Milans and
Inmaculada Alamo{-}Alvarez and
Isabel A. Nepomuceno{-}Chamorro and
Joaqu{\'{\i}}n Dopazo and
Carlos Loucera},
editor = {Jun Pang and
Joachim Niehren},
title = {Cell-Level Pathway Scoring Comparison with a Biologically Constrained
Variational Autoencoder},
booktitle = {Computational Methods in Systems Biology - 21st International Conference,
{CMSB} 2023, Luxembourg City, Luxembourg, September 13-15, 2023, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {14137},
pages = {62--77},
publisher = {Springer},
year = {2023},
url = {https://doi.org/10.1007/978-3-031-42697-1\_5},
doi = {10.1007/978-3-031-42697-1\_5},
timestamp = {Sun, 24 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/cmsb/GundogduPANDL23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biodatamining/GundogduLADN22,
author = {Pelin Gundogdu and
Carlos Loucera and
Inmaculada Alamo{-}Alvarez and
Joaqu{\'{\i}}n Dopazo and
Isabel Nepomuceno},
title = {Integrating pathway knowledge with deep neural networks to reduce
the dimensionality in single-cell RNA-seq data},
journal = {BioData Min.},
volume = {15},
number = {1},
year = {2022},
url = {https://doi.org/10.1186/s13040-021-00285-4},
doi = {10.1186/S13040-021-00285-4},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biodatamining/GundogduLADN22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biodatamining/RianEHCFLGOPD21,
author = {Kinza Rian and
Marina Esteban{-}Medina and
Marta R. Hidalgo and
Cankut {\c{C}}ubuk and
Matias M. Falco and
Carlos Loucera and
Devrim Gunyel and
Marek Ostaszewski and
Mar{\'{\i}}a Pe{\~{n}}a{-}Chilet and
Joaqu{\'{\i}}n Dopazo},
title = {Mechanistic modeling of the SARS-CoV-2 disease map},
journal = {BioData Min.},
volume = {14},
number = {1},
pages = {5},
year = {2021},
url = {https://doi.org/10.1186/s13040-021-00234-1},
doi = {10.1186/S13040-021-00234-1},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/biodatamining/RianEHCFLGOPD21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/Martorell-Marugan21,
author = {Jordi Martorell{-}Marugan and
Ra{\'{u}}l L{\'{o}}pez{-}Dom{\'{\i}}nguez and
Adri{\'{a}}n Garc{\'{\i}}a{-}Moreno and
Daniel Toro{-}Dom{\'{\i}}nguez and
Juan Antonio Villatoro{-}Garc{\'{\i}}a and
Guillermo Barturen and
Adoraci{\'{o}}n Mart{\'{\i}}n{-}G{\'{o}}mez and
Kevin Troul{\'{e}} and
Gonzalo G{\'{o}}mez{-}L{\'{o}}pez and
F{\'{a}}tima Al{-}Shahrour and
V{\'{\i}}ctor Gonz{\'{a}}lez{-}Rumayor and
Mar{\'{\i}}a Pe{\~{n}}a{-}Chilet and
Joaqu{\'{\i}}n Dopazo and
Julio S{\'{a}}ez{-}Rodr{\'{\i}}guez and
Marta E. Alarc{\'{o}}n{-}Riquelme and
Pedro Carmona{-}Saez},
title = {A comprehensive database for integrated analysis of omics data in
autoimmune diseases},
journal = {{BMC} Bioinform.},
volume = {22},
number = {1},
pages = {343},
year = {2021},
url = {https://doi.org/10.1186/s12859-021-04268-4},
doi = {10.1186/S12859-021-04268-4},
timestamp = {Mon, 05 Feb 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/Martorell-Marugan21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/Pena-ChiletRPOC21,
author = {Mar{\'{\i}}a Pe{\~{n}}a{-}Chilet and
Gema Rold{\'{a}}n and
Javier Perez{-}Florido and
Francisco M. Ortu{\~{n}}o and
Rosario Carmona and
Virginia Aquino and
Daniel L{\'{o}}pez{-}L{\'{o}}pez and
Carlos Loucera and
Jose Luis Fernandez{-}Rueda and
Asunci{\'{o}}n Gallego and
Francisco Garc{\'{\i}}a{-}Garc{\'{\i}}a and
Anna Gonz{\'{a}}lez{-}Neira and
Guillermo Pita and
Roc{\'{\i}}o N{\'{u}}{\~{n}}ez{-}Torres and
Javier Santoyo{-}Lopez and
Carmen Ayuso and
Pablo Minguez and
Almudena Avila{-}Fernandez and
Marta Corton and
Miguel {\'{A}}ngel Moreno{-}Pelayo and
Mat{\'{\i}}as Morin and
Alvaro Gallego{-}Martinez and
Jose A. Lopez{-}Escamez and
Salud Borrego and
Guillermo Anti{\~{n}}olo and
Jorge Amigo and
Josefa Salgado{-}Garrido and
Sara Pasalodos{-}Sanchez and
Beatriz Morte and
F{\'{a}}tima Al{-}Shahrour and
Rafael Artuch and
Javier Benitez and
Luis Antonio Casta{\~{n}}o and
Ignacio Del Castillo and
Aitor Delmiro and
Carmina Espinos and
Roser Gonz{\'{a}}lez and
Daniel Grinberg and
Encarnaci{\'{o}}n Guill{\'{e}}n and
Pablo Lapunzina and
Esther L{\'{o}}pez and
Ramon Mart{\'{\i}} and
Montserrat Mil{\'{a}} and
Jose M. Mill{\'{a}}n and
Virginia Nunes and
Francesc Palau and
Belen Perez and
Luis A. P{\'{e}}rez{-}Jurado and
Rosario Perona and
Aurora Pujol and
Feliciano Ramos and
Antonia Ribes and
Jordi Rosell and
Eulalia Rovira and
Jordi Surrall{\'{e}}s and
Isabel Tejada and
Magdalena Ugarte and
{\'{A}}ngel Carracedo and
{\'{A}}ngel Alonso and
Joaqu{\'{\i}}n Dopazo},
title = {CSVS, a crowdsourcing database of the Spanish population genetic variability},
journal = {Nucleic Acids Res.},
volume = {49},
number = {Database-Issue},
pages = {D1130--D1137},
year = {2021},
url = {https://doi.org/10.1093/nar/gkaa794},
doi = {10.1093/NAR/GKAA794},
timestamp = {Sun, 12 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/Pena-ChiletRPOC21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Garrido-Rodriguez21,
author = {Mart{\'{\i}}n Garrido{-}Rodriguez and
Daniel L{\'{o}}pez{-}L{\'{o}}pez and
Francisco M. Ortu{\~{n}}o and
Mar{\'{\i}}a Pe{\~{n}}a{-}Chilet and
Eduardo Mu{\~{n}}oz and
Marco A. Calzado and
Joaqu{\'{\i}}n Dopazo},
title = {A versatile workflow to integrate RNA-seq genomic and transcriptomic
data into mechanistic models of signaling pathways},
journal = {PLoS Comput. Biol.},
volume = {17},
number = {2},
year = {2021},
url = {https://doi.org/10.1371/journal.pcbi.1008748},
doi = {10.1371/JOURNAL.PCBI.1008748},
timestamp = {Fri, 27 Oct 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Garrido-Rodriguez21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/f1000research/SalgadoABBCCADFGCGGGHHHHJ20,
author = {David Salgado and
Irina M. Armean and
Michael Baudis and
Sergi Beltran and
Salvador Capella{-}Guti{\'{e}}rrez and
Denise Carvalho{-}Silva and
Victoria Dominguez Del Angel and
Joaqu{\'{\i}}n Dopazo and
Laura I. Furlong and
Bo Gao and
Leyla Jael Garc{\'{\i}}a Castro and
Dietlind Gerloff and
Ivo Gut and
Attila Gyenesei and
Nina Habermann and
John M. Hancock and
Marc Hanauer and
Eivind Hovig and
Lennart F. Johansson and
Thomas Keane and
Jan Korbel and
Katharina B. Lauer and
Steve Laurie and
Brane Leskosek and
David Lloyd and
Tom{\`{a}}s Marqu{\`{e}}s{-}Bonet and
Hailiang Mei and
Katalin Monostory and
Janet Pi{\~{n}}ero and
Krzysztof Poterlowicz and
Ana Rath and
Pubudu Samarakoon and
Ferran Sanz and
Gary Saunders and
Daoud Sie and
Morris A. Swertz and
Kirill Tsukanov and
Alfonso Valencia and
Marko Vidak and
Cristina Yenyxe Gonz{\'{a}}lez and
Bauke Ylstra and
Christophe B{\'{e}}roud},
title = {The {ELIXIR} Human Copy Number Variations Community: building bioinformatics
infrastructure for research},
journal = {F1000Research},
volume = {9},
pages = {1229},
year = {2020},
url = {https://doi.org/10.12688/f1000research.24887.1},
doi = {10.12688/F1000RESEARCH.24887.1},
timestamp = {Sun, 04 Aug 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/f1000research/SalgadoABBCCADFGCGGGHHHHJ20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/Gomez-LopezDCVA19,
author = {Gonzalo G{\'{o}}mez{-}L{\'{o}}pez and
Joaqu{\'{\i}}n Dopazo and
Juan C. Cigudosa and
Alfonso Valencia and
F{\'{a}}tima Al{-}Shahrour},
title = {Precision medicine needs pioneering clinical bioinformaticians},
journal = {Briefings Bioinform.},
volume = {20},
number = {3},
pages = {752--766},
year = {2019},
url = {https://doi.org/10.1093/bib/bbx144},
doi = {10.1093/BIB/BBX144},
timestamp = {Thu, 04 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/Gomez-LopezDCVA19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/AmadozHCCD19,
author = {Alicia Amadoz and
Marta R. Hidalgo and
Cankut {\c{C}}ubuk and
Jos{\'{e}} Carbonell{-}Caballero and
Joaqu{\'{\i}}n Dopazo},
title = {A comparison of mechanistic signaling pathway activity analysis methods},
journal = {Briefings Bioinform.},
volume = {20},
number = {5},
pages = {1655--1668},
year = {2019},
url = {https://doi.org/10.1093/bib/bby040},
doi = {10.1093/BIB/BBY040},
timestamp = {Mon, 03 Jan 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bib/AmadozHCCD19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/Perez-GilLDMRM19,
author = {Daniel Perez{-}Gil and
Francisco J. Lopez and
Joaqu{\'{\i}}n Dopazo and
Pablo Mar{\'{\i}}n{-}Garc{\'{\i}}a and
Augusto Rendon and
Ignacio Medina},
title = {PyCellBase, an efficient python package for easy retrieval of biological
data from heterogeneous sources},
journal = {{BMC} Bioinform.},
volume = {20},
number = {1},
pages = {159:1--159:5},
year = {2019},
url = {https://doi.org/10.1186/s12859-019-2726-4},
doi = {10.1186/S12859-019-2726-4},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/Perez-GilLDMRM19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/Esteban-MedinaP19,
author = {Marina Esteban{-}Medina and
Mar{\'{\i}}a Pe{\~{n}}a{-}Chilet and
Carlos Loucera and
Joaqu{\'{\i}}n Dopazo},
title = {Exploring the druggable space around the Fanconi anemia pathway using
machine learning and mechanistic models},
journal = {{BMC} Bioinform.},
volume = {20},
number = {1},
pages = {370:1--370:15},
year = {2019},
url = {https://doi.org/10.1186/s12859-019-2969-0},
doi = {10.1186/S12859-019-2969-0},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/Esteban-MedinaP19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijhpca/MartinezBCTMDQ18,
author = {H{\'{e}}ctor Mart{\'{\i}}nez and
Sergio Barrachina and
Maribel Castillo and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Ignacio Medina and
Joaqu{\'{\i}}n Dopazo and
Enrique S. Quintana{-}Ort{\'{\i}}},
title = {A framework for genomic sequencing on clusters of multicore and manycore
processors},
journal = {Int. J. High Perform. Comput. Appl.},
volume = {32},
number = {3},
pages = {393--406},
year = {2018},
url = {https://doi.org/10.1177/1094342016653243},
doi = {10.1177/1094342016653243},
timestamp = {Wed, 11 Sep 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijhpca/MartinezBCTMDQ18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Carbonell-Caballero17,
author = {Jos{\'{e}} Carbonell{-}Caballero and
Alicia Amadoz and
Roberto Alonso and
Marta R. Hidalgo and
Cankut {\c{C}}ubuk and
David V. Conesa and
Antonio L{\'{o}}pez{-}Qu{\'{\i}}lez and
Joaqu{\'{\i}}n Dopazo},
title = {Reference genome assessment from a population scale perspective: an
accurate profile of variability and noise},
journal = {Bioinform.},
volume = {33},
number = {22},
pages = {3511--3517},
year = {2017},
url = {https://doi.org/10.1093/bioinformatics/btx482},
doi = {10.1093/BIOINFORMATICS/BTX482},
timestamp = {Tue, 29 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/Carbonell-Caballero17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/GonzalezCRMFDP17,
author = {Sergio Gonzalez and
Bernardo J. Clavijo and
M{\'{a}}ximo Rivarola and
Patricio Moreno and
Paula Fernandez and
Joaqu{\'{\i}}n Dopazo and
Norma Paniego},
title = {{ATGC} transcriptomics: a web-based application to integrate, explore
and analyze de novo transcriptomic data},
journal = {{BMC} Bioinform.},
volume = {18},
number = {1},
pages = {121:1--121:9},
year = {2017},
url = {https://doi.org/10.1186/s12859-017-1494-2},
doi = {10.1186/S12859-017-1494-2},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/GonzalezCRMFDP17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/OlandaPOTD17,
author = {Ricardo Olanda and
Mariano P{\'{e}}rez and
Juan M. Ordu{\~{n}}a and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Joaqu{\'{\i}}n Dopazo},
title = {A new parallel pipeline for {DNA} methylation analysis of long reads
datasets},
journal = {{BMC} Bioinform.},
volume = {18},
number = {1},
pages = {161:1--161:6},
year = {2017},
url = {https://doi.org/10.1186/s12859-017-1574-3},
doi = {10.1186/S12859-017-1574-3},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/OlandaPOTD17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/JuanesGTCMMAD17,
author = {Jos{\'{e}} M. Juanes and
Asunci{\'{o}}n Gallego and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Felipe J. Chaves and
Pablo Mar{\'{\i}}n{-}Garc{\'{\i}}a and
Ignacio Medina and
Vicente Arnau and
Joaqu{\'{\i}}n Dopazo},
title = {VISMapper: ultra-fast exhaustive cartography of viral insertion sites
for gene therapy},
journal = {{BMC} Bioinform.},
volume = {18},
number = {1},
pages = {421:1--421:5},
year = {2017},
url = {https://doi.org/10.1186/s12859-017-1837-z},
doi = {10.1186/S12859-017-1837-Z},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/JuanesGTCMMAD17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/LopezCHKTFBBRGR17,
author = {Javier L{\'{o}}pez and
Jacobo Coll and
Matthias Haimel and
Swaathi Kandasamy and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Pedro Furi{\'{o}}{-}Tar{\'{\i}} and
Wasim Bari and
Marta Bleda and
Antonio Rueda and
Stefan Gr{\"{a}}f and
Augusto Rendon and
Joaqu{\'{\i}}n Dopazo and
Ignacio Medina},
title = {{HGVA:} the Human Genome Variation Archive},
journal = {Nucleic Acids Res.},
volume = {45},
number = {Webserver-Issue},
pages = {W189--W194},
year = {2017},
url = {https://doi.org/10.1093/nar/gkx445},
doi = {10.1093/NAR/GKX445},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/LopezCHKTFBBRGR17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Garcia-GarciaPD16,
author = {Francisco Garc{\'{\i}}a{-}Garc{\'{\i}}a and
Joaquin Panadero and
Joaqu{\'{\i}}n Dopazo and
David Montaner},
title = {Integrated gene set analysis for microRNA studies},
journal = {Bioinform.},
volume = {32},
number = {18},
pages = {2809--2816},
year = {2016},
url = {https://doi.org/10.1093/bioinformatics/btw334},
doi = {10.1093/BIOINFORMATICS/BTW334},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/Garcia-GarciaPD16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/SalavertGSABMD16,
author = {Francisco Salavert and
Luz Garcia{-}Alonso and
Rub{\'{e}}n S{\'{a}}nchez and
Roberto Alonso and
Marta Bleda and
Ignacio Medina and
Joaqu{\'{\i}}n Dopazo},
title = {Web-based network analysis and visualization using CellMaps},
journal = {Bioinform.},
volume = {32},
number = {19},
pages = {3041--3043},
year = {2016},
url = {https://doi.org/10.1093/bioinformatics/btw332},
doi = {10.1093/BIOINFORMATICS/BTW332},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/SalavertGSABMD16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/TarragaGAMD16,
author = {Joaqu{\'{\i}}n T{\'{a}}rraga and
Asunci{\'{o}}n Gallego and
Vicente Arnau and
Ignacio Medina and
Joaqu{\'{\i}}n Dopazo},
title = {{HPG} pore: an efficient and scalable framework for nanopore sequencing
data},
journal = {{BMC} Bioinform.},
volume = {17},
pages = {107},
year = {2016},
url = {https://doi.org/10.1186/s12859-016-0966-0},
doi = {10.1186/S12859-016-0966-0},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/TarragaGAMD16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/SalavertHACMCCD16,
author = {Francisco Salavert and
Marta R. Hidalgo and
Alicia Amadoz and
Cankut {\c{C}}ubuk and
Ignacio Medina and
Daniel Crespo and
Jos{\'{e}} Carbonell{-}Caballero and
Joaqu{\'{\i}}n Dopazo},
title = {Actionable pathways: interactive discovery of therapeutic targets
using signaling pathway models},
journal = {Nucleic Acids Res.},
volume = {44},
number = {Webserver-Issue},
pages = {W212--W216},
year = {2016},
url = {https://doi.org/10.1093/nar/gkw369},
doi = {10.1093/NAR/GKW369},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/SalavertHACMCCD16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/TarragaPODMD15,
author = {Joaqu{\'{\i}}n T{\'{a}}rraga and
Mariano P{\'{e}}rez and
Juan M. Ordu{\~{n}}a and
Jos{\'{e}} Duato and
Ignacio Medina and
Joaqu{\'{\i}}n Dopazo},
title = {A parallel and sensitive software tool for methylation analysis on
multicore platforms},
journal = {Bioinform.},
volume = {31},
number = {19},
pages = {3130--3138},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btv357},
doi = {10.1093/BIOINFORMATICS/BTV357},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/TarragaPODMD15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MinguezLPGDHB15,
author = {Pablo Minguez and
Ivica Letunic and
Luca Parca and
Luz Garcia{-}Alonso and
Joaqu{\'{\i}}n Dopazo and
Jaime Huerta{-}Cepas and
Peer Bork},
title = {PTMcode v2: a resource for functional associations of post-translational
modifications within and between proteins},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Database-Issue},
pages = {494--502},
year = {2015},
url = {https://doi.org/10.1093/nar/gku1081},
doi = {10.1093/NAR/GKU1081},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/MinguezLPGDHB15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/AlonsoSGCBGSPMS15,
author = {Roberto Alonso and
Francisco Salavert and
Francisco Garc{\'{\i}}a{-}Garc{\'{\i}}a and
Jos{\'{e}} Carbonell{-}Caballero and
Marta Bleda and
Luz Garcia{-}Alonso and
Alba Sanchis{-}Juan and
Daniel Perez{-}Gil and
Pablo Mar{\'{\i}}n{-}Garc{\'{\i}}a and
Rub{\'{e}}n S{\'{a}}nchez and
Cankut {\c{C}}ubuk and
Marta R. Hidalgo and
Alicia Amadoz and
Rosa D. Hernansaiz{-}Ballesteros and
Alejandro Alem{\'{a}}n and
Joaqu{\'{\i}}n T{\'{a}}rraga and
David Montaner and
Ignacio Medina and
Joaqu{\'{\i}}n Dopazo},
title = {Babelomics 5.0: functional interpretation for new generations of genomic
data},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Webserver-Issue},
pages = {W117--W121},
year = {2015},
url = {https://doi.org/10.1093/nar/gkv384},
doi = {10.1093/NAR/GKV384},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/AlonsoSGCBGSPMS15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/Hernansaiz-Ballesteros15,
author = {Rosa D. Hernansaiz{-}Ballesteros and
Francisco Salavert and
Patricia Sebasti{\'{a}}n{-}Le{\'{o}}n and
Alejandro Alem{\'{a}}n and
Ignacio Medina and
Joaqu{\'{\i}}n Dopazo},
title = {Assessing the impact of mutations found in next generation sequencing
data over human signaling pathways},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Webserver-Issue},
pages = {W270--W275},
year = {2015},
url = {https://doi.org/10.1093/nar/gkv349},
doi = {10.1093/NAR/GKV349},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/Hernansaiz-Ballesteros15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Porta-PardoGHDG15,
author = {Eduard Porta{-}Pardo and
Luz Garcia{-}Alonso and
Thomas Hrabe and
Joaqu{\'{\i}}n Dopazo and
Adam Godzik},
title = {A Pan-Cancer Catalogue of Cancer Driver Protein Interaction Interfaces},
journal = {PLoS Comput. Biol.},
volume = {11},
number = {10},
year = {2015},
url = {https://doi.org/10.1371/journal.pcbi.1004518},
doi = {10.1371/JOURNAL.PCBI.1004518},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/Porta-PardoGHDG15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/MartinezTMBCDQ15,
author = {H{\'{e}}ctor Mart{\'{\i}}nez and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Ignacio Medina and
Sergio Barrachina and
Maribel Castillo and
Joaqu{\'{\i}}n Dopazo and
Enrique S. Quintana{-}Ort{\'{\i}}},
title = {Concurrent and Accurate Short Read Mapping on Multicore Processors},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {12},
number = {5},
pages = {995--1007},
year = {2015},
url = {https://doi.org/10.1109/TCBB.2015.2392077},
doi = {10.1109/TCBB.2015.2392077},
timestamp = {Wed, 11 Sep 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/MartinezTMBCDQ15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/trustcom/MartinezBCTMDQ15,
author = {H{\'{e}}ctor Mart{\'{\i}}nez and
Sergio Barrachina and
Maribel Castillo and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Ignacio Medina and
Joaqu{\'{\i}}n Dopazo and
Enrique S. Quintana{-}Ort{\'{\i}}},
title = {Scalable {RNA} Sequencing on Clusters of Multicore Processors},
booktitle = {2015 {IEEE} TrustCom/BigDataSE/ISPA, Helsinki, Finland, August 20-22,
2015, Volume 3},
pages = {190--195},
publisher = {{IEEE}},
year = {2015},
url = {https://doi.org/10.1109/Trustcom.2015.631},
doi = {10.1109/TRUSTCOM.2015.631},
timestamp = {Wed, 11 Sep 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/trustcom/MartinezBCTMDQ15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Lopez-DomingoFRDS14,
author = {Francisco J. L{\'{o}}pez{-}Domingo and
Javier Perez{-}Florido and
Antonio Rueda and
Joaqu{\'{\i}}n Dopazo and
Javier Santoyo{-}Lopez},
title = {ngsCAT: a tool to assess the efficiency of targeted enrichment sequencing},
journal = {Bioinform.},
volume = {30},
number = {12},
pages = {1767--1768},
year = {2014},
url = {https://doi.org/10.1093/bioinformatics/btu108},
doi = {10.1093/BIOINFORMATICS/BTU108},
timestamp = {Mon, 13 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/Lopez-DomingoFRDS14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/TarragaAMMCTEDM14,
author = {Joaqu{\'{\i}}n T{\'{a}}rraga and
Vicente Arnau and
H{\'{e}}ctor Mart{\'{\i}}nez and
Raul Moreno and
Diego Cazorla and
Jos{\'{e}} Salavert Torres and
Ignacio Blanquer Espert and
Joaqu{\'{\i}}n Dopazo and
Ignacio Medina},
title = {Acceleration of short and long {DNA} read mapping without loss of
accuracy using suffix array},
journal = {Bioinform.},
volume = {30},
number = {23},
pages = {3396--3398},
year = {2014},
url = {https://doi.org/10.1093/bioinformatics/btu553},
doi = {10.1093/BIOINFORMATICS/BTU553},
timestamp = {Wed, 11 Sep 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/TarragaAMMCTEDM14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/Sebastian-LeonVMCTAASVMD14,
author = {Patricia Sebasti{\'{a}}n{-}Le{\'{o}}n and
Enrique Vidal and
Pablo Minguez and
Ana Conesa and
Sonia Tarazona and
Alicia Amadoz and
Carmen Armero and
Francisco Salavert and
Antonio Vidal{-}Puig and
David Montaner and
Joaqu{\'{\i}}n Dopazo},
title = {Understanding disease mechanisms with models of signaling pathway
activities},
journal = {{BMC} Syst. Biol.},
volume = {8},
pages = {121},
year = {2014},
url = {https://doi.org/10.1186/s12918-014-0121-3},
doi = {10.1186/S12918-014-0121-3},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/Sebastian-LeonVMCTAASVMD14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/PonzoniNTGMDDC14,
author = {Ignacio Ponzoni and
Mar{\'{\i}}a Jos{\'{e}} Nueda and
Sonia Tarazona and
Stefan G{\"{o}}tz and
David Montaner and
Julieta Sol Dussaut and
Joaqu{\'{\i}}n Dopazo and
Ana Conesa},
title = {Pathway network inference from gene expression data},
journal = {{BMC} Syst. Biol.},
volume = {8},
number = {{S-2}},
pages = {S7},
year = {2014},
url = {https://doi.org/10.1186/1752-0509-8-S2-S7},
doi = {10.1186/1752-0509-8-S2-S7},
timestamp = {Thu, 02 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcsb/PonzoniNTGMDDC14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/AlemanGMD14,
author = {Alejandro Alem{\'{a}}n and
Francisco Garc{\'{\i}}a{-}Garc{\'{\i}}a and
Ignacio Medina and
Joaqu{\'{\i}}n Dopazo},
title = {A web tool for the design and management of panels of genes for targeted
enrichment and massive sequencing for clinical applications},
journal = {Nucleic Acids Res.},
volume = {42},
number = {Webserver-Issue},
pages = {83--87},
year = {2014},
url = {https://doi.org/10.1093/nar/gku472},
doi = {10.1093/NAR/GKU472},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/AlemanGMD14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/AlemanGSMD14,
author = {Alejandro Alem{\'{a}}n and
Francisco Garc{\'{\i}}a{-}Garc{\'{\i}}a and
Francisco Salavert and
Ignacio Medina and
Joaqu{\'{\i}}n Dopazo},
title = {A web-based interactive framework to assist in the prioritization
of disease candidate genes in whole-exome sequencing studies},
journal = {Nucleic Acids Res.},
volume = {42},
number = {Webserver-Issue},
pages = {88--93},
year = {2014},
url = {https://doi.org/10.1093/nar/gku407},
doi = {10.1093/NAR/GKU407},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/AlemanGSMD14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MedinaSSMAEBD13,
author = {Ignacio Medina and
Francisco Salavert and
Rub{\'{e}}n S{\'{a}}nchez and
Alejandro de Mar{\'{\i}}a and
Roberto Alonso and
Pablo Escobar and
Marta Bleda and
Joaqu{\'{\i}}n Dopazo},
title = {Genome Maps, a new generation genome browser},
journal = {Nucleic Acids Res.},
volume = {41},
number = {Webserver-Issue},
pages = {41--46},
year = {2013},
url = {https://doi.org/10.1093/nar/gkt530},
doi = {10.1093/NAR/GKT530},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/MedinaSSMAEBD13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/Sebastian-LeonCSSMD13,
author = {Patricia Sebasti{\'{a}}n{-}Le{\'{o}}n and
Jos{\'{e}} Carbonell and
Francisco Salavert and
Rub{\'{e}}n S{\'{a}}nchez and
Ignacio Medina and
Joaqu{\'{\i}}n Dopazo},
title = {Inferring the functional effect of gene expression changes in signaling
pathways},
journal = {Nucleic Acids Res.},
volume = {41},
number = {Webserver-Issue},
pages = {213--217},
year = {2013},
url = {https://doi.org/10.1093/nar/gkt451},
doi = {10.1093/NAR/GKT451},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/Sebastian-LeonCSSMD13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/pvm/MartinezTMBCDQ13,
author = {H{\'{e}}ctor Mart{\'{\i}}nez and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Ignacio Medina and
Sergio Barrachina and
Maribel Castillo and
Joaqu{\'{\i}}n Dopazo and
Enrique S. Quintana{-}Ort{\'{\i}}},
editor = {Jack J. Dongarra and
Javier Garc{\'{\i}}a Blas and
Jes{\'{u}}s Carretero},
title = {A dynamic pipeline for {RNA} sequencing on multicore processors},
booktitle = {20th European {MPI} Users's Group Meeting, EuroMPI '13, Madrid, Spain
- September 15 - 18, 2013},
pages = {235--240},
publisher = {{ACM}},
year = {2013},
url = {https://doi.org/10.1145/2488551.2488581},
doi = {10.1145/2488551.2488581},
timestamp = {Wed, 11 Sep 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/pvm/MartinezTMBCDQ13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1304-0681,
author = {H{\'{e}}ctor Mart{\'{\i}}nez and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Ignacio Medina and
Sergio Barrachina and
Maribel Castillo and
Joaqu{\'{\i}}n Dopazo and
Enrique S. Quintana{-}Ort{\'{\i}}},
title = {Concurrent and Accurate {RNA} Sequencing on Multicore Platforms},
journal = {CoRR},
volume = {abs/1304.0681},
year = {2013},
url = {http://arxiv.org/abs/1304.0681},
eprinttype = {arXiv},
eprint = {1304.0681},
timestamp = {Wed, 11 Sep 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1304-0681.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Garcia-AlcaldeOCCGTDMC12,
author = {Fernando Garc{\'{\i}}a{-}Alcalde and
Konstantin Okonechnikov and
Jos{\'{e}} Carbonell and
Luis M. Cruz and
Stefan G{\"{o}}tz and
Sonia Tarazona and
Joaqu{\'{\i}}n Dopazo and
Thomas F. Meyer and
Ana Conesa},
title = {Qualimap: evaluating next-generation sequencing alignment data},
journal = {Bioinform.},
volume = {28},
number = {20},
pages = {2678--2679},
year = {2012},
url = {https://doi.org/10.1093/bioinformatics/bts503},
doi = {10.1093/BIOINFORMATICS/BTS503},
timestamp = {Thu, 02 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/Garcia-AlcaldeOCCGTDMC12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijdmb/Lorente-GaldosMMHCSAPVMPDN12,
author = {Bel{\'{e}}n Lorente{-}Galdos and
Ignacio Medina and
Carlos Morcillo{-}Suarez and
Txema Heredia and
Angel Carre{\~{n}}o{-}Torres and
Ricardo Sangros and
Josep Alegre and
Guillermo Pita and
Gemma Vellalta and
N{\'{u}}ria Malats and
David G. Pisano and
Joaqu{\'{\i}}n Dopazo and
Arcadi Navarro},
title = {Select Your SNPs (SYSNPs): a web tool for automatic and massive selection
of SNPs},
journal = {Int. J. Data Min. Bioinform.},
volume = {6},
number = {3},
pages = {324--334},
year = {2012},
url = {https://doi.org/10.1504/IJDMB.2012.049249},
doi = {10.1504/IJDMB.2012.049249},
timestamp = {Mon, 11 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijdmb/Lorente-GaldosMMHCSAPVMPDN12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijkdb/MinguezD12,
author = {Pablo Minguez and
Joaqu{\'{\i}}n Dopazo},
title = {Protein Interactions for Functional Genomics},
journal = {Int. J. Knowl. Discov. Bioinform.},
volume = {3},
number = {4},
pages = {15--30},
year = {2012},
url = {https://doi.org/10.4018/ijkdb.2012100102},
doi = {10.4018/IJKDB.2012100102},
timestamp = {Thu, 18 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ijkdb/MinguezD12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BaetsDRMVDSR12,
author = {Greet De Baets and
Joost J. J. van Durme and
Joke Reumers and
Sebastian Maurer{-}Stroh and
Peter Vanhee and
Joaqu{\'{\i}}n Dopazo and
Joost Schymkowitz and
Frederic Rousseau},
title = {SNPeffect 4.0: on-line prediction of molecular and structural effects
of protein-coding variants},
journal = {Nucleic Acids Res.},
volume = {40},
number = {Database-Issue},
pages = {935--939},
year = {2012},
url = {https://doi.org/10.1093/nar/gkr996},
doi = {10.1093/NAR/GKR996},
timestamp = {Mon, 04 Jul 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/BaetsDRMVDSR12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MedinaMBSAGD12,
author = {Ignacio Medina and
Alejandro de Mar{\'{\i}}a and
Marta Bleda and
Francisco Salavert and
Roberto Alonso and
Cristina Y. Gonz{\'{a}}lez and
Joaqu{\'{\i}}n Dopazo},
title = {{VARIANT:} Command Line, Web service and Web interface for fast and
accurate functional characterization of variants found by Next-Generation
Sequencing},
journal = {Nucleic Acids Res.},
volume = {40},
number = {Web-Server-Issue},
pages = {54--58},
year = {2012},
url = {https://doi.org/10.1093/nar/gks572},
doi = {10.1093/NAR/GKS572},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/MedinaMBSAGD12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BledaMAMSD12,
author = {Marta Bleda and
Ignacio Medina and
Roberto Alonso and
Alejandro de Mar{\'{\i}}a and
Francisco Salavert and
Joaqu{\'{\i}}n Dopazo},
title = {Inferring the regulatory network behind a gene expression experiment},
journal = {Nucleic Acids Res.},
volume = {40},
number = {Web-Server-Issue},
pages = {168--172},
year = {2012},
url = {https://doi.org/10.1093/nar/gks573},
doi = {10.1093/NAR/GKS573},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/BledaMAMSD12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BledaTMSGCMDM12,
author = {Marta Bleda and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Alejandro de Mar{\'{\i}}a and
Francisco Salavert and
Luz Garcia{-}Alonso and
Matilde Celma and
Ainoha Mart{\'{\i}}n and
Joaqu{\'{\i}}n Dopazo and
Ignacio Medina},
title = {CellBase, a comprehensive collection of RESTful web services for retrieving
relevant biological information from heterogeneous sources},
journal = {Nucleic Acids Res.},
volume = {40},
number = {Web-Server-Issue},
pages = {609--614},
year = {2012},
url = {https://doi.org/10.1093/nar/gks575},
doi = {10.1093/NAR/GKS575},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/BledaTMSGCMDM12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/TorresEDHMTD12,
author = {Jos{\'{e}} Salavert Torres and
Ignacio Blanquer Espert and
Andr{\'{e}}s Tom{\'{a}}s Dominguez and
Vicente Hern{\'{a}}ndez and
Ignacio Medina and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Joaqu{\'{\i}}n Dopazo},
title = {Using GPUs for the Exact Alignment of Short-Read Genetic Sequences
by Means of the Burrows-Wheeler Transform},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {9},
number = {4},
pages = {1245--1256},
year = {2012},
url = {https://doi.org/10.1109/TCBB.2012.49},
doi = {10.1109/TCBB.2012.49},
timestamp = {Mon, 03 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/TorresEDHMTD12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/europar/GonzalezBSSDM12,
author = {Cristina Y. Gonz{\'{a}}lez and
Marta Bleda and
Francisco Salavert and
Rub{\'{e}}n S{\'{a}}nchez and
Joaqu{\'{\i}}n Dopazo and
Ignacio Medina},
editor = {Ioannis Caragiannis and
Michael Alexander and
Rosa M. Badia and
Mario Cannataro and
Alexandru Costan and
Marco Danelutto and
Fr{\'{e}}d{\'{e}}ric Desprez and
Bettina Krammer and
Julio Sahuquillo and
Stephen L. Scott and
Josef Weidendorfer},
title = {Multicore and Cloud-Based Solutions for Genomic Variant Analysis},
booktitle = {Euro-Par 2012: Parallel Processing Workshops - BDMC, CGWS, HeteroPar,
HiBB, OMHI, Paraphrase, PROPER, Resilience, UCHPC, VHPC, Rhodes Islands,
Greece, August 27-31, 2012. Revised Selected Papers},
series = {Lecture Notes in Computer Science},
volume = {7640},
pages = {273--284},
publisher = {Springer},
year = {2012},
url = {https://doi.org/10.1007/978-3-642-36949-0\_30},
doi = {10.1007/978-3-642-36949-0\_30},
timestamp = {Wed, 19 Feb 2020 14:52:57 +0100},
biburl = {https://dblp.org/rec/conf/europar/GonzalezBSSDM12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/Huerta-CepasDHG11,
author = {Jaime Huerta{-}Cepas and
Joaqu{\'{\i}}n Dopazo and
Martijn A. Huynen and
Toni Gabald{\'{o}}n},
title = {Evidence for short-time divergence and long-time conservation of tissue-specific
expression after gene duplication},
journal = {Briefings Bioinform.},
volume = {12},
number = {5},
pages = {442--448},
year = {2011},
url = {https://doi.org/10.1093/bib/bbr022},
doi = {10.1093/BIB/BBR022},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bib/Huerta-CepasDHG11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Garcia-AlcaldeGDC11,
author = {Fernando Garc{\'{\i}}a{-}Alcalde and
Federico Garc{\'{\i}}a{-}L{\'{o}}pez and
Joaqu{\'{\i}}n Dopazo and
Ana Conesa},
title = {Paintomics: a web based tool for the joint visualization of transcriptomics
and metabolomics data},
journal = {Bioinform.},
volume = {27},
number = {1},
pages = {137--139},
year = {2011},
url = {https://doi.org/10.1093/bioinformatics/btq594},
doi = {10.1093/BIOINFORMATICS/BTQ594},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/Garcia-AlcaldeGDC11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/GotzASMTJDRC11,
author = {Stefan G{\"{o}}tz and
Roland Arnold and
Patricia Sebasti{\'{a}}n{-}Le{\'{o}}n and
Samuel Mart{\'{\i}}n{-}Rodr{\'{\i}}guez and
Patrick Tischler and
Marc{-}Andr{\'{e}} Jehl and
Joaqu{\'{\i}}n Dopazo and
Thomas Rattei and
Ana Conesa},
title = {B2G-FAR, a species-centered {GO} annotation repository},
journal = {Bioinform.},
volume = {27},
number = {7},
pages = {919--924},
year = {2011},
url = {https://doi.org/10.1093/bioinformatics/btr059},
doi = {10.1093/BIOINFORMATICS/BTR059},
timestamp = {Thu, 02 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/GotzASMTJDRC11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/SanchezSTMCPMCHGDD11,
author = {Rub{\'{e}}n S{\'{a}}nchez and
Fran{\c{c}}ois Serra and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Ignacio Medina and
Jos{\'{e}} Carbonell and
Luis Pulido and
Alejandro de Mar{\'{\i}}a and
Salvador Capella{-}Guti{\'{e}}rrez and
Jaime Huerta{-}Cepas and
Toni Gabald{\'{o}}n and
Joaqu{\'{\i}}n Dopazo and
Hern{\'{a}}n Dopazo},
title = {Phylemon 2.0: a suite of web-tools for molecular evolution, phylogenetics,
phylogenomics and hypotheses testing},
journal = {Nucleic Acids Res.},
volume = {39},
number = {Web-Server-Issue},
pages = {470--474},
year = {2011},
url = {https://doi.org/10.1093/nar/gkr408},
doi = {10.1093/NAR/GKR408},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/SanchezSTMCPMCHGDD11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/SerraADD11,
author = {Fran{\c{c}}ois Serra and
Leonardo Arbiza and
Joaqu{\'{\i}}n Dopazo and
Hern{\'{a}}n Dopazo},
title = {Natural Selection on Functional Modules, a Genome-Wide Analysis},
journal = {PLoS Comput. Biol.},
volume = {7},
number = {3},
year = {2011},
url = {https://doi.org/10.1371/journal.pcbi.1001093},
doi = {10.1371/JOURNAL.PCBI.1001093},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/SerraADD11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/BaetsRBDSR11,
author = {Greet De Baets and
Joke Reumers and
Javier Delgado Blanco and
Joaqu{\'{\i}}n Dopazo and
Joost Schymkowitz and
Frederic Rousseau},
title = {An Evolutionary Trade-Off between Protein Turnover Rate and Protein
Aggregation Favors a Higher Aggregation Propensity in Fast Degrading
Proteins},
journal = {PLoS Comput. Biol.},
volume = {7},
number = {6},
year = {2011},
url = {https://doi.org/10.1371/journal.pcbi.1002090},
doi = {10.1371/JOURNAL.PCBI.1002090},
timestamp = {Mon, 04 Jul 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/BaetsRBDSR11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/sccc/LichtnowAOLPCD11,
author = {Daniel Lichtnow and
Ronnie Alves and
Jos{\'{e}} Palazzo Moreira de Oliveira and
Ana M. Levin and
Oscar Pastor and
Ignacio Medina Castello and
Joaqu{\'{\i}}n Dopazo},
title = {Using Papers Citations for Selecting the Best Genomic Databases},
booktitle = {30th International Conference of the Chilean Computer Science Society,
{SCCC} 2011, Curico, Chile, November 9-11, 2011},
pages = {33--42},
publisher = {{IEEE} Computer Society},
year = {2011},
url = {https://doi.org/10.1109/SCCC.2011.6},
doi = {10.1109/SCCC.2011.6},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/sccc/LichtnowAOLPCD11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/Huerta-CepasDG10,
author = {Jaime Huerta{-}Cepas and
Joaqu{\'{\i}}n Dopazo and
Toni Gabald{\'{o}}n},
title = {{ETE:} a python Environment for Tree Exploration},
journal = {{BMC} Bioinform.},
volume = {11},
pages = {24},
year = {2010},
url = {https://doi.org/10.1186/1471-2105-11-24},
doi = {10.1186/1471-2105-11-24},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/Huerta-CepasDG10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MedinaCPMGCTPNSGMMD10,
author = {Ignacio Medina and
Jos{\'{e}} Carbonell and
Luis Pulido and
Sara C. Madeira and
Stefan G{\"{o}}tz and
Ana Conesa and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Alberto D. Pascual{-}Montano and
Rub{\'{e}}n Nogales{-}Cadenas and
Javier Santoyo and
Francisco Garc{\'{\i}}a{-}Garc{\'{\i}}a and
Martina Marb{\`{a}} and
David Montaner and
Joaqu{\'{\i}}n Dopazo},
title = {Babelomics: an integrative platform for the analysis of transcriptomics,
proteomics and genomic data with advanced functional profiling},
journal = {Nucleic Acids Res.},
volume = {38},
number = {Web-Server-Issue},
pages = {210--213},
year = {2010},
url = {https://doi.org/10.1093/nar/gkq388},
doi = {10.1093/NAR/GKQ388},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/MedinaCPMGCTPNSGMMD10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/NuedaCMDC10,
author = {Mar{\'{\i}}a Jos{\'{e}} Nueda and
Jos{\'{e}} Carbonell and
Ignacio Medina and
Joaqu{\'{\i}}n Dopazo and
Ana Conesa},
title = {Serial Expression Analysis: a web tool for the analysis of serial
gene expression data},
journal = {Nucleic Acids Res.},
volume = {38},
number = {Web-Server-Issue},
pages = {239--245},
year = {2010},
url = {https://doi.org/10.1093/nar/gkq488},
doi = {10.1093/NAR/GKQ488},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/NuedaCMDC10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/Al-ShahrourMMGND10,
author = {F{\'{a}}tima Al{-}Shahrour and
Pablo Minguez and
Tom{\`{a}}s Marqu{\`{e}}s{-}Bonet and
Elodie Gazave and
Arcadi Navarro and
Joaqu{\'{\i}}n Dopazo},
title = {Selection upon Genome Architecture: Conservation of Functional Neighborhoods
with Changing Genes},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {10},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1000953},
doi = {10.1371/JOURNAL.PCBI.1000953},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/Al-ShahrourMMGND10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/artmed/Dopazo09,
author = {Joaqu{\'{\i}}n Dopazo},
title = {Formulating and testing hypotheses in functional genomics},
journal = {Artif. Intell. Medicine},
volume = {45},
number = {2-3},
pages = {97--107},
year = {2009},
url = {https://doi.org/10.1016/j.artmed.2008.08.003},
doi = {10.1016/J.ARTMED.2008.08.003},
timestamp = {Thu, 20 Feb 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/artmed/Dopazo09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/RockeITQD09,
author = {David M. Rocke and
Trey Ideker and
Olga G. Troyanskaya and
John Quackenbush and
Joaqu{\'{\i}}n Dopazo},
title = {Papers on normalization, variable selection, classification or clustering
of microarray data},
journal = {Bioinform.},
volume = {25},
number = {6},
pages = {701--702},
year = {2009},
url = {https://doi.org/10.1093/bioinformatics/btp038},
doi = {10.1093/BIOINFORMATICS/BTP038},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/RockeITQD09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/NuedaSTGDFC09,
author = {Mar{\'{\i}}a Jos{\'{e}} Nueda and
Patricia Sebasti{\'{a}}n and
Sonia Tarazona and
Francisco Garc{\'{\i}}a{-}Garc{\'{\i}}a and
Joaqu{\'{\i}}n Dopazo and
Alberto Ferrer and
Ana Conesa},
title = {Functional assessment of time course microarray data},
journal = {{BMC} Bioinform.},
volume = {10},
number = {{S-6}},
year = {2009},
url = {https://doi.org/10.1186/1471-2105-10-S6-S9},
doi = {10.1186/1471-2105-10-S6-S9},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/NuedaSTGDFC09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MinguezGMAD09,
author = {Pablo Minguez and
Stefan G{\"{o}}tz and
David Montaner and
F{\'{a}}tima Al{-}Shahrour and
Joaqu{\'{\i}}n Dopazo},
title = {SNOW, a web-based tool for the statistical analysis of protein-protein
interaction networks},
journal = {Nucleic Acids Res.},
volume = {37},
number = {Web-Server-Issue},
pages = {109--114},
year = {2009},
url = {https://doi.org/10.1093/nar/gkp402},
doi = {10.1093/NAR/GKP402},
timestamp = {Thu, 02 Dec 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/MinguezGMAD09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MedinaMBPCTAD09,
author = {Ignacio Medina and
David Montaner and
Nuria Bonifaci and
Miguel Angel Pujana and
Jos{\'{e}} Carbonell and
Joaqu{\'{\i}}n T{\'{a}}rraga and
F{\'{a}}tima Al{-}Shahrour and
Joaqu{\'{\i}}n Dopazo},
title = {Gene set-based analysis of polymorphisms: finding pathways or biological
processes associated to traits in genome-wide association studies},
journal = {Nucleic Acids Res.},
volume = {37},
number = {Web-Server-Issue},
pages = {340--344},
year = {2009},
url = {https://doi.org/10.1093/nar/gkp481},
doi = {10.1093/NAR/GKP481},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/MedinaMBPCTAD09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbi/VallsGSHMDPCMP08,
author = {Joan Valls and
M{\`{o}}nica Grau and
Xavier Sol{\'{e}} and
Pilar Hern{\'{a}}ndez and
David Montaner and
Joaqu{\'{\i}}n Dopazo and
Miguel A. Peinado and
Gabriel Capell{\'{a}} and
V{\'{\i}}ctor Moreno and
Miguel Angel Pujana},
title = {CLEAR-test: Combining inference for differential expression and variability
in microarray data analysis},
journal = {J. Biomed. Informatics},
volume = {41},
number = {1},
pages = {33--45},
year = {2008},
url = {https://doi.org/10.1016/j.jbi.2007.05.005},
doi = {10.1016/J.JBI.2007.05.005},
timestamp = {Tue, 16 Feb 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jbi/VallsGSHMDPCMP08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/Huerta-CepasBDG08,
author = {Jaime Huerta{-}Cepas and
Anibal Bueno and
Joaqu{\'{\i}}n Dopazo and
Toni Gabald{\'{o}}n},
title = {PhylomeDB: a database for genome-wide collections of gene phylogenies},
journal = {Nucleic Acids Res.},
volume = {36},
number = {Database-Issue},
pages = {491--496},
year = {2008},
url = {https://doi.org/10.1093/nar/gkm899},
doi = {10.1093/NAR/GKM899},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/Huerta-CepasBDG08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ReumersCMMDDRS08,
author = {Joke Reumers and
Luc{\'{\i}}a Conde and
Ignacio Medina and
Sebastian Maurer{-}Stroh and
Joost J. J. van Durme and
Joaqu{\'{\i}}n Dopazo and
Frederic Rousseau and
Joost Schymkowitz},
title = {Joint annotation of coding and non-coding single nucleotide polymorphisms
and mutations in the SNPeffect and PupaSuite databases},
journal = {Nucleic Acids Res.},
volume = {36},
number = {Database-Issue},
pages = {825--829},
year = {2008},
url = {https://doi.org/10.1093/nar/gkm979},
doi = {10.1093/NAR/GKM979},
timestamp = {Mon, 04 Jul 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ReumersCMMDDRS08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/TarragaMCHMAAVGEGCMD08,
author = {Joaqu{\'{\i}}n T{\'{a}}rraga and
Ignacio Medina and
Jos{\'{e}} Carbonell and
Jaime Huerta{-}Cepas and
Pablo Minguez and
Eva Alloza and
F{\'{a}}tima Al{-}Shahrour and
Susana Vegas{-}Azc{\'{a}}rate and
Stefan G{\"{o}}tz and
Pablo Escobar and
Francisco Garc{\'{\i}}a{-}Garc{\'{\i}}a and
Ana Conesa and
David Montaner and
Joaqu{\'{\i}}n Dopazo},
title = {GEPAS, a web-based tool for microarray data analysis and interpretation},
journal = {Nucleic Acids Res.},
volume = {36},
number = {Web-Server-Issue},
pages = {308--314},
year = {2008},
url = {https://doi.org/10.1093/nar/gkn303},
doi = {10.1093/NAR/GKN303},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/TarragaMCHMAAVGEGCMD08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/Al-ShahrourCMGCTMAMD08,
author = {F{\'{a}}tima Al{-}Shahrour and
Jos{\'{e}} Carbonell and
Pablo Minguez and
Stefan G{\"{o}}tz and
Ana Conesa and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Ignacio Medina and
Eva Alloza and
David Montaner and
Joaqu{\'{\i}}n Dopazo},
title = {Babelomics: advanced functional profiling of transcriptomics, proteomics
and genomics experiments},
journal = {Nucleic Acids Res.},
volume = {36},
number = {Web-Server-Issue},
pages = {341--346},
year = {2008},
url = {https://doi.org/10.1093/nar/gkn318},
doi = {10.1093/NAR/GKN318},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/Al-ShahrourCMGCTMAMD08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MedinaMTD07,
author = {Ignacio Medina and
David Montaner and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Joaqu{\'{\i}}n Dopazo},
title = {Prophet, a web-based tool for class prediction using microarray data},
journal = {Bioinform.},
volume = {23},
number = {3},
pages = {390--391},
year = {2007},
url = {https://doi.org/10.1093/bioinformatics/btl602},
doi = {10.1093/BIOINFORMATICS/BTL602},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MedinaMTD07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MinguezAMD07,
author = {Pablo Minguez and
F{\'{a}}tima Al{-}Shahrour and
David Montaner and
Joaqu{\'{\i}}n Dopazo},
title = {Functional profiling of microarray experiments using text-mining derived
bioentities},
journal = {Bioinform.},
volume = {23},
number = {22},
pages = {3098--3099},
year = {2007},
url = {https://doi.org/10.1093/bioinformatics/btm445},
doi = {10.1093/BIOINFORMATICS/BTM445},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MinguezAMD07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/Al-ShahrourADHMMD07,
author = {F{\'{a}}tima Al{-}Shahrour and
Leonardo Arbiza and
Hern{\'{a}}n Dopazo and
Jaime Huerta{-}Cepas and
Pablo Minguez and
David Montaner and
Joaqu{\'{\i}}n Dopazo},
title = {From genes to functional classes in the study of biological systems},
journal = {{BMC} Bioinform.},
volume = {8},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-114},
doi = {10.1186/1471-2105-8-114},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/Al-ShahrourADHMMD07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/Marti-RenomRADPDS07,
author = {Marc A. Mart{\'{\i}}{-}Renom and
Andrea Rossi and
F{\'{a}}tima Al{-}Shahrour and
Fred P. Davis and
Ursula Pieper and
Joaqu{\'{\i}}n Dopazo and
Andrej Sali},
title = {The AnnoLite and AnnoLyze programs for comparative annotation of protein
structures},
journal = {{BMC} Bioinform.},
volume = {8},
number = {{S-4}},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-S4-S4},
doi = {10.1186/1471-2105-8-S4-S4},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/Marti-RenomRADPDS07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/TarragaMAHGDD07,
author = {Joaqu{\'{\i}}n T{\'{a}}rraga and
Ignacio Medina and
Leonardo Arbiza and
Jaime Huerta{-}Cepas and
Toni Gabald{\'{o}}n and
Joaqu{\'{\i}}n Dopazo and
Hern{\'{a}}n Dopazo},
title = {Phylemon: a suite of web tools for molecular evolution, phylogenetics
and phylogenomics},
journal = {Nucleic Acids Res.},
volume = {35},
number = {Web-Server-Issue},
pages = {38--42},
year = {2007},
url = {https://doi.org/10.1093/nar/gkm224},
doi = {10.1093/NAR/GKM224},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/TarragaMAHGDD07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/CondeMBTMAD07,
author = {Luc{\'{\i}}a Conde and
David Montaner and
Jordi Burguet{-}Castell and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Ignacio Medina and
F{\'{a}}tima Al{-}Shahrour and
Joaqu{\'{\i}}n Dopazo},
title = {{ISACGH:} a web-based environment for the analysis of Array {CGH}
and gene expression which includes functional profiling},
journal = {Nucleic Acids Res.},
volume = {35},
number = {Web-Server-Issue},
pages = {81--85},
year = {2007},
url = {https://doi.org/10.1093/nar/gkm257},
doi = {10.1093/NAR/GKM257},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/CondeMBTMAD07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/Al-ShahrourMTMAMD07,
author = {F{\'{a}}tima Al{-}Shahrour and
Pablo Minguez and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Ignacio Medina and
Eva Alloza and
David Montaner and
Joaqu{\'{\i}}n Dopazo},
title = {FatiGO +: a functional profiling tool for genomic data. Integration
of functional annotation, regulatory motifs and interaction data with
microarray experiments},
journal = {Nucleic Acids Res.},
volume = {35},
number = {Web-Server-Issue},
pages = {91--96},
year = {2007},
url = {https://doi.org/10.1093/nar/gkm260},
doi = {10.1093/NAR/GKM260},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/Al-ShahrourMTMAMD07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/Marti-RenomPMREDADS07,
author = {Marc A. Mart{\'{\i}}{-}Renom and
Ursula Pieper and
Mallur S. Madhusudhan and
Andrea Rossi and
Narayanan Eswar and
Fred P. Davis and
F{\'{a}}tima Al{-}Shahrour and
Joaqu{\'{\i}}n Dopazo and
Andrej Sali},
title = {DBAli tools: mining the protein structure space},
journal = {Nucleic Acids Res.},
volume = {35},
number = {Web-Server-Issue},
pages = {393--397},
year = {2007},
url = {https://doi.org/10.1093/nar/gkm236},
doi = {10.1093/NAR/GKM236},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/Marti-RenomPMREDADS07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/Al-ShahrourMTMAVCBVD06,
author = {F{\'{a}}tima Al{-}Shahrour and
Pablo Minguez and
Joaqu{\'{\i}}n T{\'{a}}rraga and
David Montaner and
Eva Alloza and
Juan M. Vaquerizas and
Luc{\'{\i}}a Conde and
Christian Blaschke and
Javier Vera and
Joaqu{\'{\i}}n Dopazo},
title = {{BABELOMICS:} a systems biology perspective in the functional annotation
of genome-scale experiments},
journal = {Nucleic Acids Res.},
volume = {34},
number = {Web-Server-Issue},
pages = {472--476},
year = {2006},
url = {https://doi.org/10.1093/nar/gkl172},
doi = {10.1093/NAR/GKL172},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/Al-ShahrourMTMAVCBVD06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MontanerTHBVCMVMVPAHAD06,
author = {David Montaner and
Joaqu{\'{\i}}n T{\'{a}}rraga and
Jaime Huerta{-}Cepas and
Jordi Burguet{-}Castell and
Juan M. Vaquerizas and
Luc{\'{\i}}a Conde and
Pablo Minguez and
Javier Vera and
Sach Mukherjee and
Joan Valls and
Miguel A. G. Pujana and
Eva Alloza and
Javier Herrero and
F{\'{a}}tima Al{-}Shahrour and
Joaqu{\'{\i}}n Dopazo},
title = {Next station in microarray data analysis: {GEPAS}},
journal = {Nucleic Acids Res.},
volume = {34},
number = {Web-Server-Issue},
pages = {486--491},
year = {2006},
url = {https://doi.org/10.1093/nar/gkl197},
doi = {10.1093/NAR/GKL197},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/MontanerTHBVCMVMVPAHAD06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/CondeVDARRSD06,
author = {Luc{\'{\i}}a Conde and
Juan M. Vaquerizas and
Hern{\'{a}}n Dopazo and
Leonardo Arbiza and
Joke Reumers and
Frederic Rousseau and
Joost Schymkowitz and
Joaqu{\'{\i}}n Dopazo},
title = {PupaSuite: finding functional single nucleotide polymorphisms for
large-scale genotyping purposes},
journal = {Nucleic Acids Res.},
volume = {34},
number = {Web-Server-Issue},
pages = {621--625},
year = {2006},
url = {https://doi.org/10.1093/nar/gkl071},
doi = {10.1093/NAR/GKL071},
timestamp = {Mon, 04 Jul 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/CondeVDARRSD06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/ArbizaDD06,
author = {Leonardo Arbiza and
Joaqu{\'{\i}}n Dopazo and
Hern{\'{a}}n Dopazo},
title = {Positive Selection, Relaxation, and Acceleration in the Evolution
of the Human and Chimp Genome},
journal = {PLoS Comput. Biol.},
volume = {2},
number = {4},
year = {2006},
url = {https://doi.org/10.1371/journal.pcbi.0020038},
doi = {10.1371/JOURNAL.PCBI.0020038},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/ArbizaDD06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/SantoyoVD05,
author = {Javier Santoyo and
Juan M. Vaquerizas and
Joaqu{\'{\i}}n Dopazo},
title = {Highly specific and accurate selection of siRNAs for high-throughput
functional assays},
journal = {Bioinform.},
volume = {21},
number = {8},
pages = {1376--1382},
year = {2005},
url = {https://doi.org/10.1093/bioinformatics/bti196},
doi = {10.1093/BIOINFORMATICS/BTI196},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/SantoyoVD05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Al-ShahrourDD05,
author = {F{\'{a}}tima Al{-}Shahrour and
Ram{\'{o}}n D{\'{\i}}az{-}Uriarte and
Joaqu{\'{\i}}n Dopazo},
title = {Discovering molecular functions significantly related to phenotypes
by combining gene expression data and biological information},
journal = {Bioinform.},
volume = {21},
number = {13},
pages = {2988--2993},
year = {2005},
url = {https://doi.org/10.1093/bioinformatics/bti457},
doi = {10.1093/BIOINFORMATICS/BTI457},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/Al-ShahrourDD05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/HoffmannDCV05,
author = {Robert Hoffmann and
Joaqu{\'{\i}}n Dopazo and
Juan C. Cigudosa and
Alfonso Valencia},
title = {HCAD, closing the gap between breakpoints and genes},
journal = {Nucleic Acids Res.},
volume = {33},
number = {Database-Issue},
pages = {511--513},
year = {2005},
url = {https://doi.org/10.1093/nar/gki061},
doi = {10.1093/NAR/GKI061},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/HoffmannDCV05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/Al-ShahrourMVCD05,
author = {F{\'{a}}tima Al{-}Shahrour and
Pablo Minguez and
Juan M. Vaquerizas and
Luc{\'{\i}}a Conde and
Joaqu{\'{\i}}n Dopazo},
title = {{BABELOMICS:} a suite of web tools for functional annotation and analysis
of groups of genes in high-throughput experiments},
journal = {Nucleic Acids Res.},
volume = {33},
number = {Web-Server-Issue},
pages = {460--464},
year = {2005},
url = {https://doi.org/10.1093/nar/gki456},
doi = {10.1093/NAR/GKI456},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/Al-ShahrourMVCD05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/CondeVFCOD05,
author = {Luc{\'{\i}}a Conde and
Juan M. Vaquerizas and
Carles Ferrer{-}Costa and
Xavier de la Cruz and
Modesto Orozco and
Joaqu{\'{\i}}n Dopazo},
title = {PupasView: a visual tool for selecting suitable SNPs, with putative
pathological effect in genes, for genotyping purposes},
journal = {Nucleic Acids Res.},
volume = {33},
number = {Web-Server-Issue},
pages = {501--505},
year = {2005},
url = {https://doi.org/10.1093/nar/gki476},
doi = {10.1093/NAR/GKI476},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/CondeVFCOD05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/VaquerizasCYCMDAHD05,
author = {Juan M. Vaquerizas and
Luc{\'{\i}}a Conde and
Patricio Yankilevich and
Amaya Cabez{\'{o}}n and
Pablo Minguez and
Ram{\'{o}}n D{\'{\i}}az{-}Uriarte and
F{\'{a}}tima Al{-}Shahrour and
Javier Herrero and
Joaqu{\'{\i}}n Dopazo},
title = {GEPAS, an experiment-oriented pipeline for the analysis of microarray
gene expression data},
journal = {Nucleic Acids Res.},
volume = {33},
number = {Web-Server-Issue},
pages = {616--620},
year = {2005},
url = {https://doi.org/10.1093/nar/gki500},
doi = {10.1093/NAR/GKI500},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/VaquerizasCYCMDAHD05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@incollection{DBLP:books/wi/05/AzuajeD05,
author = {Francisco Azuaje and
Joaqu{\'{\i}}n Dopazo},
editor = {Francisco Azuaje and
Joaqu{\'{\i}}n Dopazo},
title = {Integrative Data Analysis and Visualization: Introduction to Critical
Problems, Goals and Challenges},
booktitle = {Data Analysis and Visualization in Genomics and Proteomics},
pages = {1--9},
publisher = {Wiley},
year = {2005},
url = {https://doi.org/10.1002/0470094419.ch1},
doi = {10.1002/0470094419.CH1},
timestamp = {Thu, 25 Jun 2020 14:30:22 +0200},
biburl = {https://dblp.org/rec/books/wi/05/AzuajeD05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@incollection{DBLP:books/wi/05/AzuajeDW05,
author = {Francisco Azuaje and
Joaqu{\'{\i}}n Dopazo and
Haiying Wang},
editor = {Francisco Azuaje and
Joaqu{\'{\i}}n Dopazo},
title = {Data and Predictive Model Integration: An Overview of Key Concepts,
Problems and Solutions},
booktitle = {Data Analysis and Visualization in Genomics and Proteomics},
pages = {29--39},
publisher = {Wiley},
year = {2005},
url = {https://doi.org/10.1002/0470094419.ch3},
doi = {10.1002/0470094419.CH3},
timestamp = {Wed, 28 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/books/wi/05/AzuajeDW05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@incollection{DBLP:books/wi/05/Al-ShahrourD05,
author = {F{\'{a}}tima Al{-}Shahrour and
Joaqu{\'{\i}}n Dopazo},
editor = {Francisco Azuaje and
Joaqu{\'{\i}}n Dopazo},
title = {Ontologies and Functional Genomics},
booktitle = {Data Analysis and Visualization in Genomics and Proteomics},
pages = {99--112},
publisher = {Wiley},
year = {2005},
url = {https://doi.org/10.1002/0470094419.ch7},
doi = {10.1002/0470094419.CH7},
timestamp = {Thu, 25 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/books/wi/05/Al-ShahrourD05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@book{DBLP:books/wi/05/AD2005,
editor = {Francisco Azuaje and
Joaqu{\'{\i}}n Dopazo},
title = {Data Analysis and Visualization in Genomics and Proteomics},
publisher = {Wiley},
year = {2005},
url = {https://doi.org/10.1002/0470094419},
doi = {10.1002/0470094419},
isbn = {978-0-470-09439-6},
timestamp = {Thu, 25 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/books/wi/05/AD2005.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Al-ShahrourDD04,
author = {F{\'{a}}tima Al{-}Shahrour and
Ram{\'{o}}n D{\'{\i}}az{-}Uriarte and
Joaqu{\'{\i}}n Dopazo},
title = {FatiGO: a web tool for finding significant associations of Gene Ontology
terms with groups of genes},
journal = {Bioinform.},
volume = {20},
number = {4},
pages = {578--580},
year = {2004},
url = {https://doi.org/10.1093/bioinformatics/btg455},
doi = {10.1093/BIOINFORMATICS/BTG455},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/Al-ShahrourDD04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/VaquerizasDD04,
author = {Juan M. Vaquerizas and
Joaqu{\'{\i}}n Dopazo and
Ram{\'{o}}n D{\'{\i}}az{-}Uriarte},
title = {{DNMAD:} web-based diagnosis and normalization for microarray data},
journal = {Bioinform.},
volume = {20},
number = {18},
pages = {3656--3658},
year = {2004},
url = {https://doi.org/10.1093/bioinformatics/bth401},
doi = {10.1093/BIOINFORMATICS/BTH401},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/VaquerizasDD04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/CondeVSARRD04,
author = {Luc{\'{\i}}a Conde and
Juan M. Vaquerizas and
Javier Santoyo and
F{\'{a}}tima Al{-}Shahrour and
Sergio Ruiz{-}Llorente and
Mercedes Robledo and
Joaqu{\'{\i}}n Dopazo},
title = {PupaSNP Finder: a web tool for finding SNPs with putative effect at
transcriptional level},
journal = {Nucleic Acids Res.},
volume = {32},
number = {Web-Server-Issue},
pages = {242--248},
year = {2004},
url = {https://doi.org/10.1093/nar/gkh438},
doi = {10.1093/NAR/GKH438},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/CondeVSARRD04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/HerreroVACMDD04,
author = {Javier Herrero and
Juan M. Vaquerizas and
F{\'{a}}tima Al{-}Shahrour and
Luc{\'{\i}}a Conde and
{\'{A}}lvaro Mateos and
Javier Santoyo and
Ram{\'{o}}n D{\'{\i}}az{-}Uriarte and
Joaqu{\'{\i}}n Dopazo},
title = {New challenges in gene expression data analysis and the extended {GEPAS}},
journal = {Nucleic Acids Res.},
volume = {32},
number = {Web-Server-Issue},
pages = {485--491},
year = {2004},
url = {https://doi.org/10.1093/nar/gkh421},
doi = {10.1093/NAR/GKH421},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/HerreroVACMDD04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cibcb/WangABD04,
author = {Haiying Wang and
Francisco Azuaje and
Olivier Bodenreider and
Joaqu{\'{\i}}n Dopazo},
title = {Gene expression correlation and gene ontology-based similarity: an
assessment of quantitative relationships},
booktitle = {Proceedings of the 2004 {IEEE} Symposium on Computational Intelligence
in Bioinformatics and Computational Biology, {CIBCB} 2004, La Jolla,
CA, USA, October 7-8, 2004},
pages = {25--31},
publisher = {{IEEE}},
year = {2004},
url = {https://doi.org/10.1109/CIBCB.2004.1393927},
doi = {10.1109/CIBCB.2004.1393927},
timestamp = {Wed, 08 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/cibcb/WangABD04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/DopazoSD04,
author = {Hern{\'{a}}n Dopazo and
Javier Santoyo and
Joaqu{\'{\i}}n Dopazo},
title = {Phylogenomics and the number of characters required for obtaining
an accurate phylogeny of eukaryote model species},
booktitle = {Proceedings Twelfth International Conference on Intelligent Systems
for Molecular Biology/Third European Conference on Computational Biology
2004, Glasgow, UK, July 31-August 4, 2004},
pages = {116--121},
year = {2004},
url = {https://doi.org/10.1093/bioinformatics/bth902},
doi = {10.1093/BIOINFORMATICS/BTH902},
timestamp = {Sun, 25 Oct 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ismb/DopazoSD04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/jbi/HerreroVACMSDD04,
author = {Javier Herrero and
Juan M. Vaquerizas and
F{\'{a}}tima Al{-}Shahrour and
Luc{\'{\i}}a Conde and
{\'{A}}lvaro Mateos and
Javier Santoyo and
Ram{\'{o}}n D{\'{\i}}az{-}Uriarte and
Joaqu{\'{\i}}n Dopazo},
editor = {Xavier Messeguer and
Gabriel Valiente},
title = {New Challenges in Gene Expression Data Analysis and the Extended {GEPAS}},
booktitle = {Proceedings of the 5th Annual Spanish Bioinformatics Conference, Barcelona,
Catalonia, Spain, November 29-30, 2004},
pages = {1--5},
publisher = {Technical University of Catalonia, Barcelona},
year = {2004},
timestamp = {Mon, 15 Nov 2004 12:43:54 +0100},
biburl = {https://dblp.org/rec/conf/jbi/HerreroVACMSDD04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/jbi/ArbizaDD04,
author = {Leonardo Arbiza and
Joaqu{\'{\i}}n Dopazo and
Hern{\'{a}}n Dopazo},
editor = {Xavier Messeguer and
Gabriel Valiente},
title = {Infering Non-Neutral Evolution within the Context of a Growing Genomic
Framework: Preliminary Results using Human-Chimp Proteomes},
booktitle = {Proceedings of the 5th Annual Spanish Bioinformatics Conference, Barcelona,
Catalonia, Spain, November 29-30, 2004},
pages = {92--99},
publisher = {Technical University of Catalonia, Barcelona},
year = {2004},
timestamp = {Mon, 15 Nov 2004 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/jbi/ArbizaDD04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/jbi/SantoyoVD04,
author = {Javier Santoyo and
Juan M. Vaquerizas and
Joaqu{\'{\i}}n Dopazo},
editor = {Xavier Messeguer and
Gabriel Valiente},
title = {Highly Specific and Accurate Selection of siRNAs for High-Throughput
Functional Assays},
booktitle = {Proceedings of the 5th Annual Spanish Bioinformatics Conference, Barcelona,
Catalonia, Spain, November 29-30, 2004},
pages = {132--136},
publisher = {Technical University of Catalonia, Barcelona},
year = {2004},
timestamp = {Mon, 15 Nov 2004 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/jbi/SantoyoVD04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/jbi/CondeVSAD04,
author = {Luc{\'{\i}}a Conde and
Juan M. Vaquerizas and
Javier Santoyo and
F{\'{a}}tima Al{-}Shahrour and
Joaqu{\'{\i}}n Dopazo},
editor = {Xavier Messeguer and
Gabriel Valiente},
title = {Finding SNPs with Putative Phenotypic Effect at Transcriptional Level},
booktitle = {Proceedings of the 5th Annual Spanish Bioinformatics Conference, Barcelona,
Catalonia, Spain, November 29-30, 2004},
pages = {157--160},
publisher = {Technical University of Catalonia, Barcelona},
year = {2004},
timestamp = {Mon, 15 Nov 2004 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/jbi/CondeVSAD04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/jbi/MateosD04,
author = {{\'{A}}lvaro Mateos and
Joaqu{\'{\i}}n Dopazo},
editor = {Xavier Messeguer and
Gabriel Valiente},
title = {An Approach to the Modular Structure of Cancer},
booktitle = {Proceedings of the 5th Annual Spanish Bioinformatics Conference, Barcelona,
Catalonia, Spain, November 29-30, 2004},
pages = {161--165},
publisher = {Technical University of Catalonia, Barcelona},
year = {2004},
timestamp = {Mon, 15 Nov 2004 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/jbi/MateosD04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/air/KarzynskiMHD03,
author = {Michal Karzynski and
{\'{A}}lvaro Mateos and
Javier Herrero and
Joaqu{\'{\i}}n Dopazo},
title = {Using a Genetic Algorithm and a Perceptron for Feature Selection and
Supervised Class Learning in {DNA} Microarray Data},
journal = {Artif. Intell. Rev.},
volume = {20},
number = {1-2},
pages = {39--51},
year = {2003},
url = {https://doi.org/10.1023/A:1026032530166},
doi = {10.1023/A:1026032530166},
timestamp = {Wed, 14 Nov 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/air/KarzynskiMHD03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HerreroDD03,
author = {Javier Herrero and
Ram{\'{o}}n D{\'{\i}}az{-}Uriarte and
Joaqu{\'{\i}}n Dopazo},
title = {Gene expression data preprocessing},
journal = {Bioinform.},
volume = {19},
number = {5},
pages = {655--656},
year = {2003},
url = {https://doi.org/10.1093/bioinformatics/btg040},
doi = {10.1093/BIOINFORMATICS/BTG040},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/HerreroDD03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/HerreroADMVSD03,
author = {Javier Herrero and
F{\'{a}}tima Al{-}Shahrour and
Ram{\'{o}}n D{\'{\i}}az{-}Uriarte and
{\'{A}}lvaro Mateos and
Juan M. Vaquerizas and
Javier Santoyo and
Joaqu{\'{\i}}n Dopazo},
title = {{GEPAS:} a web-based resource for microarray gene expression data
analysis},
journal = {Nucleic Acids Res.},
volume = {31},
number = {13},
pages = {3461--3467},
year = {2003},
url = {https://doi.org/10.1093/nar/gkg591},
doi = {10.1093/NAR/GKG591},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/HerreroADMVSD03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/vlsisp/CondeMHD03,
author = {Luc{\'{\i}}a Conde and
{\'{A}}lvaro Mateos and
Javier Herrero and
Joaqu{\'{\i}}n Dopazo},
title = {Improved Class Prediction in {DNA} Microarray Gene Expression Data
by Unsupervised Reduction of the Dimensionality followed by Supervised
Learning with a Perceptron},
journal = {J. {VLSI} Signal Process.},
volume = {35},
number = {3},
pages = {245--253},
year = {2003},
url = {https://doi.org/10.1023/B:VLSI.0000003023.90210.c8},
doi = {10.1023/B:VLSI.0000003023.90210.C8},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/vlsisp/CondeMHD03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/nnsp/Al-ShahrourHMSD03,
author = {F{\'{a}}tima Al{-}Shahrour and
Javier Herrero and
{\'{A}}lvaro Mateos and
Javier Santoyo and
Ram{\'{o}}n D{\'{\i}}az{-}Uriarte and
Joaqu{\'{\i}}n Dopazo},
title = {Using gene ontology on genome-scale studies to find significant associations
of biologically relevant terms to groups of genes},
booktitle = {{NNSP} 2003, {IEEE} {XIII} Workshop on Neural Networks for Signal
Processing, Toulouse, France, September 17-19, 2003},
pages = {43--52},
publisher = {{IEEE}},
year = {2003},
url = {https://doi.org/10.1109/NNSP.2003.1318003},
doi = {10.1109/NNSP.2003.1318003},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/nnsp/Al-ShahrourHMSD03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icann/MateosHD02,
author = {{\'{A}}lvaro Mateos and
Javier Herrero and
Joaqu{\'{\i}}n Dopazo},
editor = {Jos{\'{e}} R. Dorronsoro},
title = {Using Perceptrons for Supervised Classification of {DNA} Microarray
Samples: Obtaining the Optimal Level of Information and Finding Differentially
Expressed Genes},
booktitle = {Artificial Neural Networks - {ICANN} 2002, International Conference,
Madrid, Spain, August 28-30, 2002, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {2415},
pages = {577--582},
publisher = {Springer},
year = {2002},
url = {https://doi.org/10.1007/3-540-46084-5\_94},
doi = {10.1007/3-540-46084-5\_94},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/icann/MateosHD02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/nnsp/CondeMHD02,
author = {Luc{\'{\i}}a Conde and
{\'{A}}lvaro Mateos and
Javier Herrero and
Joaqu{\'{\i}}n Dopazo},
title = {Unsupervised reduction of the dimensionality followed by supervised
learning with a perceptron improves the classification of conditions
in {DNA} microarray gene expression data},
booktitle = {Proceedings of the 12th {IEEE} Workshop on Neural Networks for Signal
Processing, {NNSP} 2002, Martigny, Valais, Switzerland, September
4-6, 2002},
pages = {77--86},
publisher = {{IEEE}},
year = {2002},
url = {https://doi.org/10.1109/NNSP.2002.1030019},
doi = {10.1109/NNSP.2002.1030019},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/nnsp/CondeMHD02.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HerreroVD01,
author = {Javier Herrero and
Alfonso Valencia and
Joaqu{\'{\i}}n Dopazo},
title = {A hierarchical unsupervised growing neural network for clustering
gene expression patterns},
journal = {Bioinform.},
volume = {17},
number = {1},
pages = {126--136},
year = {2001},
url = {https://doi.org/10.1093/bioinformatics/17.2.126},
doi = {10.1093/BIOINFORMATICS/17.2.126},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/HerreroVD01.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/WangDC98,
author = {Huaichun Wang and
Joaqu{\'{\i}}n Dopazo and
Jos{\'{e}} Mar{\'{\i}}a Carazo},
title = {Self-organizing tree growing network for classifying amino acids},
journal = {Bioinform.},
volume = {14},
number = {4},
pages = {376--377},
year = {1998},
url = {https://doi.org/10.1093/bioinformatics/14.4.376},
doi = {10.1093/BIOINFORMATICS/14.4.376},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/WangDC98.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/TrellesCWDC98,
author = {Oswaldo Trelles and
C. Ceron and
Huaichun Wang and
Joaqu{\'{\i}}n Dopazo and
Jos{\'{e}} Mar{\'{\i}}a Carazo},
title = {New phylogenetic venues opened by a novel implementation of the DNAml
algorithm},
journal = {Bioinform.},
volume = {14},
number = {6},
pages = {544--545},
year = {1998},
url = {https://doi.org/10.1093/bioinformatics/14.6.544},
doi = {10.1093/BIOINFORMATICS/14.6.544},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/TrellesCWDC98.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/pc/CeronDZCT98,
author = {C. Ceron and
Joaqu{\'{\i}}n Dopazo and
Emilio L. Zapata and
Jos{\'{e}} Mar{\'{\i}}a Carazo and
Oswaldo Trelles},
title = {Parallel Implementation of DNAml Program on Message-Passing Architectures},
journal = {Parallel Comput.},
volume = {24},
number = {5-6},
pages = {701--716},
year = {1998},
url = {https://doi.org/10.1016/S0167-8191(98)00002-7},
doi = {10.1016/S0167-8191(98)00002-7},
timestamp = {Sat, 22 Feb 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/pc/CeronDZCT98.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Dopazo97,
author = {Joaqu{\'{\i}}n Dopazo},
title = {A new index to find regions showing an unexpected variability or conservation
in sequence alignments},
journal = {Comput. Appl. Biosci.},
volume = {13},
number = {3},
pages = {313--317},
year = {1997},
timestamp = {Fri, 15 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/Dopazo97.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iwann/DopazoWC97,
author = {Joaqu{\'{\i}}n Dopazo and
Huaichun Wang and
Jos{\'{e}} Mar{\'{\i}}a Carazo},
editor = {Jos{\'{e}} Mira and
Roberto Moreno{-}D{\'{\i}}az and
Joan Cabestany},
title = {A New Type of Unsupervised Growing Neural Network for Biological Sequence
Classification That Adopts the Topology of a Phylogenetic Tree},
booktitle = {Biological and Artificial Computation: From Neuroscience to Technology,
International Work-Conference on Artificial and Natural Neural Networks,
{IWANN} '97, Lanzarote, Canary Islands, Spain, June 4-6, 1997, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {1240},
pages = {932--941},
publisher = {Springer},
year = {1997},
url = {https://doi.org/10.1007/BFb0032553},
doi = {10.1007/BFB0032553},
timestamp = {Tue, 14 May 2019 10:00:51 +0200},
biburl = {https://dblp.org/rec/conf/iwann/DopazoWC97.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Trelles-SalazarZDCC95,
author = {Oswaldo Trelles{-}Salazar and
Emilio L. Zapata and
Joaqu{\'{\i}}n Dopazo and
A. F. Coulson and
Jos{\'{e}} Mar{\'{\i}}a Carazo},
title = {An image-processing approach to dotplots: an X-Window-based program
for interactive analysis of dotplots derived from sequence and structural
data},
journal = {Comput. Appl. Biosci.},
volume = {11},
number = {3},
pages = {301--308},
year = {1995},
url = {https://doi.org/10.1093/bioinformatics/11.3.301},
doi = {10.1093/BIOINFORMATICS/11.3.301},
timestamp = {Fri, 15 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/Trelles-SalazarZDCC95.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/DopazoTM93,
author = {Joaqu{\'{\i}}n Dopazo and
Ana Taberner and
Andr{\'{e}}s Moya},
title = {Quantitative characterization of antigens using monoclonal antibody
reactivities},
journal = {Comput. Appl. Biosci.},
volume = {9},
number = {1},
pages = {101--107},
year = {1993},
url = {https://doi.org/10.1093/bioinformatics/9.1.101},
doi = {10.1093/BIOINFORMATICS/9.1.101},
timestamp = {Fri, 15 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/DopazoTM93.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/DopazoRSS93,
author = {Joaqu{\'{\i}}n Dopazo and
A. Rodriguez and
J. C. Saiz and
Francisco Sobrino},
title = {Design of primers for {PCR} amplification of highly variable genomes},
journal = {Comput. Appl. Biosci.},
volume = {9},
number = {2},
pages = {123--125},
year = {1993},
url = {https://doi.org/10.1093/bioinformatics/9.2.123},
doi = {10.1093/BIOINFORMATICS/9.2.123},
timestamp = {Thu, 29 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/DopazoRSS93.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/TabernerCSD93,
author = {Ana Taberner and
Pedro Castanera and
Enrique Silvestre and
Joaqu{\'{\i}}n Dopazo},
title = {Estimation of the intrinsic rate of natural increase and its error
by both algebraic and resampling approaches},
journal = {Comput. Appl. Biosci.},
volume = {9},
number = {5},
pages = {535--540},
year = {1993},
url = {https://doi.org/10.1093/bioinformatics/9.5.535},
doi = {10.1093/BIOINFORMATICS/9.5.535},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/TabernerCSD93.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Dopazo88,
author = {Joaqu{\'{\i}}n Dopazo},
title = {Reducing the effect of the data order in algorithms for constructing
phylogenetic trees},
journal = {Comput. Appl. Biosci.},
volume = {4},
number = {2},
pages = {307},
year = {1988},
url = {https://doi.org/10.1093/bioinformatics/4.2.307},
doi = {10.1093/BIOINFORMATICS/4.2.307},
timestamp = {Fri, 15 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/Dopazo88.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
manage site settings
To protect your privacy, all features that rely on external API calls from your browser are turned off by default. You need to opt-in for them to become active. All settings here will be stored as cookies with your web browser. For more information see our F.A.Q.
last updated on 2024-09-13 01:42 CEST by the dblp team
all metadata released as open data under CC0 1.0 license
see also: Terms of Use | Privacy Policy | Imprint
dblp was originally created in 1993 at:
since 2018, dblp has been operated and maintained by:
the dblp computer science bibliography is funded and supported by:
