diXa: a data infrastructure for chemical safety assessment. - Diana M. Hendrickx; Hugo J. W. L. Aerts; Florian Caiment; Dominic Clark; Timothy M. D. Ebbels; Chris T. A. Evelo; Hans Gmuender; Dennie G. A. J. Hebels; Ralf Herwig; Jürgen Hescheler; Danyel G. J. Jennen; Marlon J. A. Jetten; et al. (Bioinform., 2015)

FuSe: a tool to move RNA-Seq analyses from chromosomal/gene loci to functional grouping of mRNA transcripts. - Rajinder Gupta; Yannick Schrooders; Marcha Verheijen; Adrian Roth; Jos Kleinjans; Florian Caiment (Bioinform., 2021)

CODA: a combo-Seq data analysis workflow. - Marta Nazzari; Duncan Hauser; Marcel van Herwijnen; Mírian Romitti; Daniel J. Carvalho; Anna M. Kip; Florian Caiment (Briefings Bioinform., 2023)