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Eleven grand challenges in single-cell data science.
Lähnemann D, Köster J, Szczurek E, McCarthy DJ, Hicks SC, Robinson MD, Vallejos CA, Campbell KR, Beerenwinkel N, Mahfouz A, Pinello L, Skums P, Stamatakis A, Attolini CS, Aparicio S, Baaijens J, Balvert M, Barbanson B, Cappuccio A, Corleone G, Dutilh BE, Florescu M, Guryev V, Holmer R, Jahn K, Lobo TJ, Keizer EM, Khatri I, Kielbasa SM, Korbel JO, Kozlov AM, Kuo TH, Lelieveldt BPF, Mandoiu II, Marioni JC, Marschall T, Mölder F, Niknejad A, Rączkowska A, Reinders M, Ridder J, Saliba AE, Somarakis A, Stegle O, Theis FJ, Yang H, Zelikovsky A, McHardy AC, Raphael BJ, Shah SP, Schönhuth A. Lähnemann D, et al. Among authors: pinello l. Genome Biol. 2020 Feb 7;21(1):31. doi: 10.1186/s13059-020-1926-6. Genome Biol. 2020. PMID: 32033589 Free PMC article. Review.
Gene editing without ex vivo culture evades genotoxicity in human hematopoietic stem cells.
Zeng J, Nguyen MA, Liu P, Ferreira da Silva L, Lin LY, Justus DG, Petri K, Clement K, Porter SN, Verma A, Neri NR, Rosanwo T, Ciuculescu MF, Abriss D, Mintzer E, Maitland SA, Demirci S, Tisdale JF, Williams DA, Zhu LJ, Pruett-Miller SM, Pinello L, Joung JK, Pattanayak V, Manis JP, Armant M, Pellin D, Brendel C, Wolfe SA, Bauer DE. Zeng J, et al. Among authors: pinello l. bioRxiv [Preprint]. 2023 May 27:2023.05.27.542323. doi: 10.1101/2023.05.27.542323. bioRxiv. 2023. Update in: Cell Stem Cell. 2024 Dec 11:S1934-5909(24)00400-4. doi: 10.1016/j.stem.2024.11.001 PMID: 37292647 Free PMC article. Updated. Preprint.
DNA-Diffusion: Leveraging Generative Models for Controlling Chromatin Accessibility and Gene Expression via Synthetic Regulatory Elements.
DaSilva LF, Senan S, Patel ZM, Janardhan Reddy A, Gabbita S, Nussbaum Z, Valdez Córdova CM, Wenteler A, Weber N, Tunjic TM, Ahmad Khan T, Li Z, Smith C, Bejan M, Karmel Louis L, Cornejo P, Connell W, Wong ES, Meuleman W, Pinello L. DaSilva LF, et al. Among authors: pinello l. bioRxiv [Preprint]. 2024 Feb 1:2024.02.01.578352. doi: 10.1101/2024.02.01.578352. bioRxiv. 2024. PMID: 38352499 Free PMC article. Preprint.
Statistical inference with a manifold-constrained RNA velocity model uncovers cell cycle speed modulations.
Lederer AR, Leonardi M, Talamanca L, Herrera A, Droin C, Khven I, Carvalho HJF, Valente A, Mantes AD, Arabí PM, Pinello L, Naef F, Manno G. Lederer AR, et al. Among authors: pinello l. bioRxiv [Preprint]. 2024 Jan 22:2024.01.18.576093. doi: 10.1101/2024.01.18.576093. bioRxiv. 2024. Update in: Nat Methods. 2024 Dec;21(12):2271-2286. doi: 10.1038/s41592-024-02471-8 PMID: 38328127 Free PMC article. Updated. Preprint.
High throughput single-cell detection of multiplex CRISPR-edited gene modifications.
Ten Hacken E, Clement K, Li S, Hernández-Sánchez M, Redd R, Wang S, Ruff D, Gruber M, Baranowski K, Jacob J, Flynn J, Jones KW, Neuberg D, Livak KJ, Pinello L, Wu CJ. Ten Hacken E, et al. Among authors: pinello l. Genome Biol. 2020 Oct 20;21(1):266. doi: 10.1186/s13059-020-02174-1. Genome Biol. 2020. PMID: 33081820 Free PMC article.
128 results