High-content screening (HCS) workflows for FAIR image data management with OMERO.

Massei R, Busch W, Serrano-Solano B, Bernt M, Scholz S, Nicolay EK, Bohring H, Bumberger J

Scientific reports, 2025

doi:10.1038/s41598-025-00720-0.

Rapid generation of homozygous fluorescent knock-in human cells using CRISPR-Cas9 genome editing and validation by automated imaging and digital PCR screening.

Callegari A, Kueblbeck M, Morero NR, Serrano-Solano B, Ellenberg J

Nature protocols, 2025

doi:10.1038/s41596-024-01043-6.

DL4MicEverywhere: deep learning for microscopy made flexible, shareable and reproducible.

Hidalgo-Cenalmor I, Pylvänäinen JW, G Ferreira M, Russell CT, Saguy A, Arganda-Carreras I, Shechtman Y, AI4Life Horizon Europe Program Consortium, Jacquemet G, Henriques R, Gómez-de-Mariscal E

Nature methods, 2024

doi:10.1038/s41592-024-02295-6.

Building a FAIR image data ecosystem for microscopy communities.

Kemmer I, Keppler A, Serrano-Solano B, Rybina A, Özdemir B, Bischof J, El Ghadraoui A, Eriksson JE, Mathur A

Histochemistry and cell biology, 2023

doi:10.1007/s00418-023-02203-7.

Galaxy Training: a powerful framework for teaching!

Hiltemann S, Rasche H, Gladman S, Hotz HR, Larivière D, Blankenberg D, Jagtap PD, Wollmann T, Bretaudeau A, Goué N, Griffin TJ, Royaux C, Le Bras Y, Mehta S, Syme A, Coppens F, Droesbeke B, Soranzo N, Bacon W, Psomopoulos F, Gallardo-Alba C, Davis J, Föll MC, Fahrner M, Doyle MA, Serrano-Solano B, Fouilloux AC, van Heusden P, Maier W, Clements D, Heyl F, Galaxy Training Network, Grüning B, Batut B

PLoS computational biology, 2023

doi:10.1371/journal.pcbi.1010752.

Training Infrastructure as a Service.

Rasche H, Hyde C, Davis J, Gladman S, Coraor N, Bretaudeau A, Cuccuru G, Bacon W, Serrano-Solano B, Hillman-Jackson J, Hiltemann S, Zhou M, Grüning B, Stubbs A

GigaScience, 2022

doi:10.1093/gigascience/giad048.

The Image Data Explorer: interactive exploration of image-derived data.

Muller C, Serrano-Solano B, Sun Y, Tischer C, Hériché JK

PloS one, 2022

doi:10.1371/journal.pone.0273698.