Ana Conesa

42 papers Journal 39Unranked 3
YearRankTypeTitle / Venue / Authors
2025 J jnl
MORE interpretable multi-omic regulatory networks to characterise phenotypes.
Briefings Bioinform.
Maider Aguerralde-Martin, Mónica Clemente-Císcar, Ana Conesa, Sonia Tarazona
2025 J jnl
MOSim: bulk and single-cell multilayer regulatory network simulator.
Briefings Bioinform.
Carolina Monzó, Maider Aguerralde-Martin, Carlos Martínez-Mira, Angeles Arzalluz-Luque, Ana Conesa, Sonia Tarazona
2024 J jnl
scMaSigPro: differential expression analysis along single-cell trajectories.
Bioinform.
Priyansh Srivastava, Marta Benegas Coll, Stefan Götz, María José Nueda, Ana Conesa
2022 J jnl
A roadmap for the functional annotation of protein families: a community perspective.
Database J. Biol. Databases Curation
Valérie de Crécy-Lagard, Rocio Amorin de Hegedus, Cecilia N. Arighi, Jill Babor, Alex Bateman, Ian Blaby, Crysten Blaby-Haas, Alan J. Bridge, Stephen K. Burley, Stacey Cleveland, Lucy J. Colwell, Ana Conesa, Christian Dallago, Antoine Danchin, Anita de Waard, Adam Deutschbauer, Raquel Dias, Yousong Ding, Gang Fang, Iddo Friedberg, John Gerlt, Joshua Goldford, Mark Gorelik, Benjamin M. Gyori, Christopher S. Henry, Geoffrey Hutinet, Marshall Jaroch, Peter D. Karp, Liudmyla Kondratova, Zhiyong Lu, Aron Marchler-Bauer, Maria Jesus Martin, Claire D. McWhite, Gaurav D. Moghe, Paul Monaghan, Anne Morgat, Christopher J. Mungall, Darren A. Natale, William C. Nelson, Seán I. O'Donoghue, Christine A. Orengo, Katherine H. O'Toole, Predrag Radivojac, Colbie Reed, Richard J. Roberts, Dmitri Rodionov, Irina A. Rodionova, Jeffrey DePons, Lana Saleh, Gloria M. Sheynkman, Françoise Thibaud-Nissen, Paul D. Thomas, Peter Uetz, David Vallenet, Erica Watson Carter, Peter Weigele, Valerie Wood, Elisha M. Wood-Charlson, Jin Xu
2022 J jnl
ECCB2022: the 21st European Conference on Computational Biology.
Bioinform.
Salvador Capella-Gutiérrez, Eva Alloza, Laura Rubinat-Ripoll, Ana Conesa, Alfonso Valencia
2022 J jnl
MultiBaC: an R package to remove batch effects in multi-omic experiments.
Bioinform.
Manuel Ugidos, María José Nueda, José Manuel Prats-Montalbán, Alberto Ferrer, Ana Conesa, Sonia Tarazona
2022 J jnl
PaintOmics 4: new tools for the integrative analysis of multi-omics datasets supported by multiple pathway databases.
Nucleic Acids Res.
Tianyuan Liu, Pedro Salguero, Marko Petek, Carlos Martínez-Mira, Leandro Balzano-Nogueira, Ziva Ramsak, Lauren McIntyre, Kristina Gruden, Sonia Tarazona, Ana Conesa
2021 J jnl
Undisclosed, unmet and neglected challenges in multi-omics studies.
Nat. Comput. Sci.
Sonia Tarazona, Angeles Arzalluz-Luque, Ana Conesa
2020 J jnl
MirCure: a tool for quality control, filter and curation of microRNAs of animals and plants.
Bioinform.
Guillem Ylla, Tianyuan Liu, Ana Conesa
2020 J jnl
Padhoc: a computational pipeline for pathway reconstruction on the fly.
Bioinform.
Salvador Casaní-Galdón, Cécile Pereira, Ana Conesa
2019 J jnl
A benchmarking of workflows for detecting differential splicing and differential expression at isoform level in human RNA-seq studies.
Briefings Bioinform.
Gabriela Alejandra Merino, Ana Conesa, Elmer Andrés Fernández
2019 J jnl
Building gene regulatory networks from scATAC-seq and scRNA-seq using Linked Self Organizing Maps.
PLoS Comput. Biol.
Camden Jansen, Ricardo N. Ramirez, Nicole C. El-Ali, David Gomez-Cabrero, Jesper Tegnér, Matthias Merkenschlager, Ana Conesa, Ali Mortazavi
2018 J jnl
GRAM-CNN: a deep learning approach with local context for named entity recognition in biomedical text.
Bioinform.
Qile Zhu, Xiaolin Li, Ana Conesa, Cécile Pereira
2018 J jnl
Identification and visualization of differential isoform expression in RNA-seq time series.
Bioinform.
María José Nueda, Jordi Martorell-Marugan, Cristina Martí, Sonia Tarazona, Ana Conesa
2018 J jnl
PaintOmics 3: a web resource for the pathway analysis and visualization of multi-omics data.
Nucleic Acids Res.
Rafael Hernández-de-Diego, Sonia Tarazona, Carlos Martínez-Mira, Leandro Balzano-Nogueira, Pedro Furió-Tarí, Georgios Joannis Pappas Jr., Ana Conesa
2017 J jnl
Identification of miRNA from Bouteloua gracilis, a drought tolerant grass, by deep sequencing and their in silico analysis.
Comput. Biol. Chem.
Perla Lucía Ordóñez-Baquera, Everardo González-Rodríguez, Gerardo Armando Aguado-Santacruz, Quintín Rascón-Cruz, Ana Conesa, Verónica Moreno-Brito, Raquel Echavarria, Joel Dominguez-Viveros
2017 J jnl
The eBioKit, a stand-alone educational platform for bioinformatics.
PLoS Comput. Biol.
Rafael Hernández-de-Diego, Etienne Pierre de Villiers, Tomas Klingström, Hadrien Gourlé, Ana Conesa, Erik Bongcam-Rudloff
2016 J jnl
Qualimap 2: advanced multi-sample quality control for high-throughput sequencing data.
Bioinform.
Konstantin Okonechnikov, Ana Conesa, Fernando García-Alcalde
2016 J jnl
RGmatch: matching genomic regions to proximal genes in omics data integration.
BMC Bioinform.
Pedro Furió-Tarí, Ana Conesa, Sonia Tarazona
2016 J jnl
Separating common from distinctive variation.
BMC Bioinform.
Frans M. van der Kloet, Patricia Sebastián-León, Ana Conesa, Age K. Smilde, Johan A. Westerhuis
2016 J jnl
spongeScan: A web for detecting microRNA binding elements in lncRNA sequences.
Nucleic Acids Res.
Pedro Furió-Tarí, Sonia Tarazona, Toni Gabaldón, Anton J. Enright, Ana Conesa
2014 J jnl
Data integration in the era of omics: current and future challenges.
BMC Syst. Biol.
David Gomez-Cabrero, Imad Abugessaisa, Dieter Maier, Andrew E. Teschendorff, Matthias Merkenschlager, Andreas Gisel, Esteban Ballestar, Erik Bongcam-Rudloff, Ana Conesa, Jesper Tegnér
2014 J jnl
Next maSigPro: updating maSigPro bioconductor package for RNA-seq time series.
Bioinform.
María José Nueda, Sonia Tarazona, Ana Conesa
2014 J jnl
Pathway network inference from gene expression data.
BMC Syst. Biol.
Ignacio Ponzoni, María José Nueda, Sonia Tarazona, Stefan Götz, David Montaner, Julieta Sol Dussaut, Joaquín Dopazo, Ana Conesa
2014 J jnl
STATegra EMS: an Experiment Management System for complex next-generation omics experiments.
BMC Syst. Biol.
Rafael Hernández-de-Diego, Noemi Boix-Chova, David Gomez-Cabrero, Jesper Tegnér, Imad Abugessaisa, Ana Conesa
2014 J jnl
The common ground of genomics and systems biology.
BMC Syst. Biol.
Ana Conesa, Ali Mortazavi
2014 J jnl
Understanding disease mechanisms with models of signaling pathway activities.
BMC Syst. Biol.
Patricia Sebastián-León, Enrique Vidal, Pablo Minguez, Ana Conesa, Sonia Tarazona, Alicia Amadoz, Carmen Armero, Francisco Salavert, Antonio Vidal-Puig, David Montaner, Joaquín Dopazo
2012 J jnl
Qualimap: evaluating next-generation sequencing alignment data.
Bioinform.
Fernando García-Alcalde, Konstantin Okonechnikov, José Carbonell, Luis M. Cruz, Stefan Götz, Sonia Tarazona, Joaquín Dopazo, Thomas F. Meyer, Ana Conesa
2011 J jnl
B2G-FAR, a species-centered GO annotation repository.
Bioinform.
Stefan Götz, Roland Arnold, Patricia Sebastián-León, Samuel Martín-Rodríguez, Patrick Tischler, Marc-André Jehl, Joaquín Dopazo, Thomas Rattei, Ana Conesa
2011 J jnl
Paintomics: a web based tool for the joint visualization of transcriptomics and metabolomics data.
Bioinform.
Fernando García-Alcalde, Federico García-López, Joaquín Dopazo, Ana Conesa
2010 J jnl
Babelomics: an integrative platform for the analysis of transcriptomics, proteomics and genomic data with advanced functional profiling.
Nucleic Acids Res.
Ignacio Medina, José Carbonell, Luis Pulido, Sara C. Madeira, Stefan Götz, Ana Conesa, Joaquín Tárraga, Alberto D. Pascual-Montano, Rubén Nogales-Cadenas, Javier Santoyo, Francisco García-García, Martina Marbà, David Montaner, Joaquín Dopazo
2010 J jnl
SIMAP - a comprehensive database of pre-calculated protein sequence similarities, domains, annotations and clusters.
Nucleic Acids Res.
Thomas Rattei, Patrick Tischler, Stefan Götz, Marc-André Jehl, Jonathan Hoser, Roland Arnold, Ana Conesa, Hans-Werner Mewes
2010 J jnl
Serial Expression Analysis: a web tool for the analysis of serial gene expression data.
Nucleic Acids Res.
María José Nueda, José Carbonell, Ignacio Medina, Joaquín Dopazo, Ana Conesa
2009 J jnl
Functional assessment of time course microarray data.
BMC Bioinform.
María José Nueda, Patricia Sebastián, Sonia Tarazona, Francisco García-García, Joaquín Dopazo, Alberto Ferrer, Ana Conesa
2008 J jnl
Babelomics: advanced functional profiling of transcriptomics, proteomics and genomics experiments.
Nucleic Acids Res.
Fátima Al-Shahrour, José Carbonell, Pablo Minguez, Stefan Götz, Ana Conesa, Joaquín Tárraga, Ignacio Medina, Eva Alloza, David Montaner, Joaquín Dopazo
2008 J jnl
GEPAS, a web-based tool for microarray data analysis and interpretation.
Nucleic Acids Res.
Joaquín Tárraga, Ignacio Medina, José Carbonell, Jaime Huerta-Cepas, Pablo Minguez, Eva Alloza, Fátima Al-Shahrour, Susana Vegas-Azcárate, Stefan Götz, Pablo Escobar, Francisco García-García, Ana Conesa, David Montaner, Joaquín Dopazo
2007 J jnl
Discovering gene expression patterns in time course microarray experiments by ANOVA-SCA.
Bioinform.
María José Nueda, Ana Conesa, Johan A. Westerhuis, Huub C. J. Hoefsloot, Age K. Smilde, Manuel Talón, Alberto Ferrer
2006 — conf
Blast2GO goes Grid: Developing a Grid-Enabled Prototype for Functional Genomics Analysis.
HealthGrid
Gabriel Aparício, Stefan Götz, Ana Conesa, Damià Segrelles, Ignacio Blanquer, Juan Miguel García, Vicente Hernández, Montserrat Robles, Manuel Talón
2006 J jnl
maSigPro: a method to identify significantly differential expression profiles in time-course microarray experiments.
Bioinform.
Ana Conesa, María José Nueda, Alberto Ferrer, Manuel Talón
2005 J jnl
Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research.
Bioinform.
Ana Conesa, Stefan Götz, Juan Miguel García-Gómez, Javier Terol, Manuel Talón, Montserrat Robles
2004 — conf
Blast2GO: A Universal Annotation and Visualization Tool for Functional Genomics Research.
Spanish Bioinformatics Conference
Ana Conesa, Stefan Götz, Juan Miguel García-Gómez, Montserrat Robles, Manuel Talón
2004 — conf
maSigPro: a Method to Identify Significantly Differential Expression Profiles in Time-Course Microarray Experiments.
Spanish Bioinformatics Conference
Ana Conesa, María José Nueda, Alberto Ferrer, Manuel Talón