Using combined evidence from replicates to evaluate ChIP-seq peaks. - Vahid Jalili; Matteo Matteucci; Marco Masseroli; Marco J. Morelli (Bioinform., 2015)

GenoMetric Query Language: a novel approach to large-scale genomic data management. - Marco Masseroli; Pietro Pinoli; Francesco Venco; Abdulrahman Kaitoua; Vahid Jalili; Fernando Palluzzi; Heiko Müller 003; Stefano Ceri (Bioinform., 2015)

Efficient data structures for cross-samples inferences on genomic data. - Vahid Jalili (2016)

MuSERA: Multiple Sample Enriched Region Assessment. - Vahid Jalili; Matteo Matteucci; Marco J. Morelli; Marco Masseroli (Briefings Bioinform., 2017)

Explorative visual analytics on interval-based genomic data and their metadata. - Vahid Jalili; Matteo Matteucci; Marco Masseroli; Stefano Ceri (BMC Bioinform., 2017)

Reasoning with shapes: profiting cognitive susceptibilities to infer linear mapping transformations between shapes. - Vahid Jalili (CoRR, 2017)

Indexing Next-Generation Sequencing data. - Vahid Jalili; Matteo Matteucci; Marco Masseroli; Stefano Ceri (Inf. Sci., 2017)

Federated Galaxy: Biomedical Computing at the Frontier. - Enis Afgan; Vahid Jalili; Nuwan Goonasekera; James Taylor 001; Jeremy Goecks (IEEE CLOUD, 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)

Next Generation Indexing for Genomic Intervals. - Vahid Jalili; Matteo Matteucci; Jeremy Goecks; Yashar Deldjoo; Stefano Ceri (IEEE Trans. Knowl. Data Eng., 2019)

Cloud bursting galaxy: federated identity and access management. - Vahid Jalili; Enis Afgan; James Taylor 001; Jeremy Goecks (Bioinform., 2020)

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)

Galaxy-ML: An accessible, reproducible, and scalable machine learning toolkit for biomedicine. - Qiang Gu; Anup Kumar; Simon Bray; Allison Creason; Alireza Khanteymoori; Vahid Jalili; Björn A. Grüning; Jeremy Goecks (PLoS Comput. Biol., 2021)

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)