| A survey of best practices for RNA-seq data analysis A Conesa, P Madrigal, S Tarazona, D Gomez-Cabrero, A Cervera, ... Genome biology 17, 1-19, 2016 | 3306 | 2016 |
| Differential expression in RNA-seq: a matter of depth S Tarazona, F García-Alcalde, J Dopazo, A Ferrer, A Conesa Genome research 21 (12), 2213-2223, 2011 | 1705 | 2011 |
| Qualimap: evaluating next-generation sequencing alignment data F García-Alcalde, K Okonechnikov, J Carbonell, LM Cruz, S Götz, ... Bioinformatics 28 (20), 2678-2679, 2012 | 1081 | 2012 |
| Data quality aware analysis of differential expression in RNA-seq with NOISeq R/Bioc package S Tarazona, P Furió-Tarí, D Turrà, AD Pietro, MJ Nueda, A Ferrer, ... Nucleic acids research 43 (21), e140-e140, 2015 | 817 | 2015 |
| Next maSigPro: updating maSigPro bioconductor package for RNA-seq time series MJ Nueda, S Tarazona, A Conesa Bioinformatics 30 (18), 2598-2602, 2014 | 346 | 2014 |
| NOIseq: a RNA-seq differential expression method robust for sequencing depth biases S Tarazona, F García, A Ferrer, J Dopazo, A Conesa EMBnet. journal 17 (B), 18-19, 2011 | 185 | 2011 |
| PaintOmics 3: a web resource for the pathway analysis and visualization of multi-omics data R Hernández-de-Diego, S Tarazona, C Martínez-Mira, ... Nucleic acids research 46 (W1), W503-W509, 2018 | 184 | 2018 |
| Hypoxia promotes efficient differentiation of human embryonic stem cells to functional endothelium S Prado-Lopez, A Conesa, A Armiñán, M Martínez-Losa, ... Stem Cells 28 (3), 407-418, 2010 | 145 | 2010 |
| Undisclosed, unmet and neglected challenges in multi-omics studies S Tarazona, A Arzalluz-Luque, A Conesa Nature Computational Science 1 (6), 395-402, 2021 | 119 | 2021 |
| spongeScan: A web for detecting microRNA binding elements in lncRNA sequences P Furió-Tarí, S Tarazona, T Gabaldon, AJ Enright, A Conesa Nucleic acids research 44 (W1), W176-W180, 2016 | 119 | 2016 |
| Harmonization of quality metrics and power calculation in multi-omic studies S Tarazona, L Balzano-Nogueira, D Gómez-Cabrero, A Schmidt, A Imhof, ... Nature communications 11 (1), 3092, 2020 | 79 | 2020 |
| Tumor microenvironment-targeted poly-L-glutamic acid-based combination conjugate for enhanced triple negative breast cancer treatment JJ Arroyo-Crespo, A Armiñán, D Charbonnier, L Balzano-Nogueira, ... Biomaterials 186, 8-21, 2018 | 78 | 2018 |
| Understanding disease mechanisms with models of signaling pathway activities P Sebastian-Leon, E Vidal, P Minguez, A Conesa, S Tarazona, A Amadoz, ... BMC systems biology 8, 1-19, 2014 | 66 | 2014 |
| tappAS: a comprehensive computational framework for the analysis of the functional impact of differential splicing L de la Fuente, Á Arzalluz-Luque, M Tardáguila, H Del Risco, C Martí, ... Genome Biology 21, 1-32, 2020 | 62 | 2020 |
| A multiway approach to data integration in systems biology based on Tucker3 and N-PLS A Conesa, JM Prats-Montalbán, S Tarazona, MJ Nueda, A Ferrer Chemometrics and Intelligent Laboratory Systems 104 (1), 101-111, 2010 | 50 | 2010 |
| PaintOmics 4: new tools for the integrative analysis of multi-omics datasets supported by multiple pathway databases T Liu, P Salguero, M Petek, C Martinez-Mira, L Balzano-Nogueira, ... Nucleic Acids Research 50 (W1), W551-W559, 2022 | 48 | 2022 |
| Transcriptome modulation during host shift is driven by secondary metabolites in desert Drosophila DN De Panis, J Padró, P Furió‐Tarí, S Tarazona, PS Milla Carmona, ... Molecular ecology 25 (18), 4534-4550, 2016 | 48 | 2016 |
| Machine learning approaches in microbiome research: challenges and best practices G Papoutsoglou, S Tarazona, MB Lopes, T Klammsteiner, E Ibrahimi, ... Frontiers in microbiology 14, 1261889, 2023 | 44 | 2023 |
| STATegra: Multi-Omics data integration–a conceptual scheme with a bioinformatics pipeline N Planell, V Lagani, P Sebastian-Leon, F van der Kloet, E Ewing, ... Frontiers in genetics 12, 620453, 2021 | 40 | 2021 |
| RNAseq analysis of Aspergillus fumigatus in blood reveals a just wait and see resting stage behavior H Irmer, S Tarazona, C Sasse, P Olbermann, J Loeffler, S Krappmann, ... BMC genomics 16, 1-25, 2015 | 40 | 2015 |