| Sentieon DNASeq variant calling workflow demonstrates strong computational performance and accuracy KI Kendig, S Baheti, MA Bockol, TM Drucker, SN Hart, JR Heldenbrand, ... Frontiers in genetics 10, 736, 2019 | 199 | 2019 |
| SPRING: a next-generation compressor for FASTQ data S Chandak, K Tatwawadi, I Ochoa, M Hernaez, T Weissman Bioinformatics 35 (15), 2674-2676, 2019 | 94 | 2019 |
| Effect of lossy compression of quality scores on variant calling I Ochoa, M Hernaez, R Goldfeder, T Weissman, E Ashley Briefings in bioinformatics 18 (2), 183-194, 2017 | 89 | 2017 |
| QVZ: lossy compression of quality values G Malysa, M Hernaez, I Ochoa, M Rao, K Ganesan, T Weissman Bioinformatics 31 (19), 3122-3129, 2015 | 85 | 2015 |
| Cellular plasticity balances the metabolic and proliferation dynamics of a regenerating liver UV Chembazhi, S Bangru, M Hernaez, A Kalsotra Genome research 31 (4), 576-591, 2021 | 71 | 2021 |
| CAR density influences antitumoral efficacy of BCMA CAR T cells and correlates with clinical outcome P Rodriguez-Marquez, ME Calleja-Cervantes, G Serrano, A Oliver-Caldes, ... Science Advances 8 (39), eabo0514, 2022 | 62 | 2022 |
| Genomic data compression M Hernaez, D Pavlichin, T Weissman, I Ochoa Annual Review of Biomedical Data Science 2 (1), 19-37, 2019 | 61 | 2019 |
| FaStore: a space-saving solution for raw sequencing data Ł Roguski, I Ochoa, M Hernaez, S Deorowicz Bioinformatics 34 (16), 2748-2756, 2018 | 59 | 2018 |
| iDoComp: a compression scheme for assembled genomes I Ochoa, M Hernaez, T Weissman Bioinformatics 31 (5), 626-633, 2014 | 59 | 2014 |
| Microglia and astrocyte activation is region‐dependent in the α‐synuclein mouse model of Parkinson's disease L Basurco, MA Abellanas, L Ayerra, E Conde, R Vinueza‐Gavilanes, ... Glia 71 (3), 571-587, 2023 | 47 | 2023 |
| Benchmark of long non-coding RNA quantification for RNA sequencing of cancer samples H Zheng, K Brennan, M Hernaez, O Gevaert Gigascience 8 (12), giz145, 2019 | 46 | 2019 |
| Uncovering perturbations in human hematopoiesis associated with healthy aging and myeloid malignancies at single cell resolution M Ainciburu, T Ezponda, N Berastegui, A Alfonso-Pierola, ... Elife 12, e79363, 2023 | 39 | 2023 |
| An introduction to mpeg-g: the first open iso/iec standard for the compression and exchange of genomic sequencing data J Voges, M Hernaez, M Mattavelli, J Ostermann Proceedings of the IEEE 109 (9), 1607-1622, 2021 | 35* | 2021 |
| CALQ: compression of quality values of aligned sequencing data J Voges, J Ostermann, M Hernaez Bioinformatics 34 (10), 1650-1658, 2018 | 24 | 2018 |
| GTRAC: fast retrieval from compressed collections of genomic variants K Tatwawadi, M Hernaez, I Ochoa, T Weissman Bioinformatics 32 (17), i479-i486, 2016 | 23 | 2016 |
| Cell-type specific polysome profiling from mammalian tissues J Seimetz, W Arif, S Bangru, M Hernaez, A Kalsotra Methods 155, 131-139, 2019 | 22 | 2019 |
| Single-cell dissection of aggression in honeybee colonies IM Traniello, SA Bukhari, P Dibaeinia, G Serrano, A Avalos, AC Ahmed, ... Nature Ecology & Evolution 7 (8), 1232-1244, 2023 | 21* | 2023 |
| Aligned genomic data compression via improved modeling I Ochoa, M Hernaez, T Weissman Journal of bioinformatics and computational biology 12 (06), 1442002, 2014 | 21 | 2014 |
| The transcription factor DDIT3 is a potential driver of dyserythropoiesis in myelodysplastic syndromes N Berastegui, M Ainciburu, JP Romero, P Garcia-Olloqui, ... Nature Communications 13 (1), 7619, 2022 | 19* | 2022 |
| SimiC enables the inference of complex gene regulatory dynamics across cell phenotypes J Peng, G Serrano, IM Traniello, ME Calleja-Cervantes, UV Chembazhi, ... Communications biology 5 (1), 351, 2022 | 18* | 2022 |
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