Scientific Publications

2024

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Callegari, A., Kueblbeck, M., Morero, N. R., Serrano-Solano, B. & Ellenberg, J. Rapid generation of homozygous fluorescent knock-in human cells using CRISPR–Cas9 genome editing and validation by automated imaging and digital PCR screening. Nat Protoc 1–41 (2024) http://doi.org/10.1038/s41596-024-01043-6.
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Kostrykin, L. et al. Enhancing the image analysis community in Galaxy. Preprint at https://doi.org/10.37044/osf.io/w8dsz (2024).

2023

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Hiltemann, S. et al. Galaxy Training: A powerful framework for teaching! PLoS Comput Biol 19, e1010752 (2023).
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Kemmer, I. et al. Building a FAIR image data ecosystem for microscopy communities. Histochem Cell Biol 160, 199–209 (2023).
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David, R. et al. “Be sustainable”: EOSC‐Life recommendations for implementation of FAIR principles in life science data handling. The EMBO Journal 42, e115008 (2023).
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Zulueta-Coarasa, T. et al. MIFA: Metadata, Incentives, Formats, and Accessibility guidelines to improve the reuse of AI datasets for bioimage analysis. Preprint at https://doi.org/10.48550/arXiv.2311.10443 (2023).

2022

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Serrano-Solano, B. et al. Galaxy: A Decade of Realising CWFR Concepts. Data Intelligence 4, 358–371 (2022).
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The Galaxy Community et al. The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update. Nucleic Acids Research 50, W345–W351 (2022).
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Muller, C., Serrano-Solano, B., Sun, Y., Tischer, C. & Hériché, J.-K. The Image Data Explorer: Interactive exploration of image-derived data. PLoS ONE 17, e0273698 (2022).
1.
Rasche, H. et al. Training Infrastructure as a Service. GigaScience 12, giad048 (2022).

2021

1.
Kueblbeck, M., Callegari, A., Serrano-Solano, B. & Ellenberg, J. Rapid generation of homozygous fluorescent knock-in human cells using CRISPR/Cas9 genome editing and validation by automated imaging and digital PCR screening. Preprint at https://doi.org/10.1101/2021.06.23.449557 (2021).
1.
Goble, C. et al. Implementing FAIR Digital Objects in the EOSC-Life Workflow Collaboratory. (2021) http://doi.org/10.5281/ZENODO.4605654.
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Serrano-Solano, B. et al. Fostering accessible online education using Galaxy as an e-learning platform. PLoS Comput Biol 17, e1008923 (2021).
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Gallardo-Alba, C., Grüning, B. & Serrano-Solano, B. A constructivist-based proposal for bioinformatics teaching practices during lockdown. PLoS Comput Biol 17, e1008922 (2021).

2017

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Serrano-Solano, B., Díaz Ramos, A., Hériché, J.-K. & Ranea, J. A. G. How can functional annotations be derived from profiles of phenotypic annotations? BMC Bioinformatics 18, 96 (2017).