Quantitative sequence-function relationships in proteins based on gene ontology. - Vineet Sangar; Daniel J. Blankenberg; Naomi Altman; Arthur M. Lesk (BMC Bioinform., 2007)

Manipulation of FASTQ data with Galaxy. - Daniel J. Blankenberg; Assaf Gordon; Gregory Von Kuster; Nathan Coraor; James Taylor 001; Anton Nekrutenko (Bioinform., 2010)

Integrating diverse databases into an unified analysis framework: a Galaxy approach. - Daniel J. Blankenberg; Nathan Coraor; Gregory Von Kuster; James Taylor 001; Anton Nekrutenko (Database J. Biol. Databases Curation, 2011)

Making whole genome multiple alignments usable for biologists. - Daniel J. Blankenberg; James Taylor 001; Anton Nekrutenko (Bioinform., 2011)

Wrangling Galaxy's reference data. - Daniel J. Blankenberg; James E. Johnson; The Galaxy Team; James Taylor 001; Anton Nekrutenko (Bioinform., 2014)

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update. - Enis Afgan; Dannon Baker; Marius van den Beek; Daniel J. Blankenberg; Dave Bouvier; Martin Cech; John Chilton; Dave Clements; Nate Coraor; Carl Eberhard; Björn A. Grüning; Aysam Guerler; et al. (Nucleic Acids Res., 2016)

Recommendations for the packaging and containerizing of bioinformatics software. - Björn A. Grüning; Olivier Sallou; Pablo A. Moreno; Felipe da Veiga Leprevost; Hervé Ménager; Dan Søndergaard; Hannes L. Röst; Timo Sachsenberg; Brian O'Connor; Fábio Madeira; Victoria Dominguez Del Angel; Michael R. Crusoe; et al. (F1000Research, 2018)

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update. - Enis Afgan; Dannon Baker; Bérénice Batut; Marius van den Beek; Dave Bouvier; Martin Cech; John Chilton; Dave Clements; Nate Coraor; Björn A. Grüning; Aysam Guerler; Jennifer Hillman-Jackson; et al. (Nucleic Acids Res., 2018)

You Wrote It, Now Get It Used: Publishing Your Software with Galaxy and Bioconda. - Daniel J. Blankenberg; Martin Cech (BCB, 2019)

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update. - Vahid Jalili; Enis Afgan; Qiang Gu; Dave Clements; Daniel J. Blankenberg; Jeremy Goecks; James Taylor 001; Anton Nekrutenko (Nucleic Acids Res., 2020)

A crowdsourced set of curated structural variants for the human genome. - Lesley M. Chapman; Noah Spies; Patrick Pai; Chun Shen Lim; Andrew Carroll; Giuseppe Narzisi; Christopher M. Watson; Christos Proukakis; Wayne E. Clarke; Naoki Nariai; Eric T. Dawson; Garan Jones; et al. (PLoS Comput. Biol., 2020)

SimText: a text mining framework for interactive analysis and visualization of similarities among biomedical entities. - Marie Macnee; Eduardo Pérez-Palma; Sarah Schumacher-Bass; Jarrod Dalton; Costin Leu; Daniel J. Blankenberg; Dennis Lal (Bioinform., 2021)

PDAUG: a Galaxy based toolset for peptide library analysis, visualization, and machine learning modeling. - Jayadev Joshi; Daniel J. Blankenberg (BMC Bioinform., 2022)

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update. - Enis Afgan; Anton Nekrutenko; Björn A. Grüning; Daniel J. Blankenberg; Jeremy Goecks; Michael C. Schatz; Alexander E. Ostrovsky; Alexandru Mahmoud; Andrew J. Lonie; Anna Syme; Anne Fouilloux; Anthony Bretaudeau; et al. (Nucleic Acids Res., 2022)

Galaxy Training: A powerful framework for teaching! - Saskia D. Hiltemann; Helena Rasche; Simon L. Gladman; Hans-Rudolf Hotz; Delphine Larivière; Daniel J. Blankenberg; Pratik D. Jagtap; Thomas Wollmann; Anthony Bretaudeau; Nadia Goué; Timothy J. Griffin; Coline Royaux; et al. (PLoS Comput. Biol., 2023)