ProCoCoA: A quantitative approach for analyzing protein core composition. - Silvia Bottini; Andrea Bernini; Matteo De Chiara; Diego Garlaschelli; Ottavia Spiga; Marco Dioguardi; Elisa Vannuccini; Anna Tramontano; Neri Niccolai (Comput. Biol. Chem., 2013)

Recent computational developments on CLIP-seq data analysis and microRNA targeting implications. - Silvia Bottini; David Pratella; Valerie Grandjean; Emanuela Repetto; Michele Trabucchi (Briefings Bioinform., 2018)

NiPTUNE: an automated pipeline for noninvasive prenatal testing in an accurate, integrative and flexible framework. - Véronique Duboc; David Pratella; Marco Milanesio; John Boudjarane; Stéphane Descombes; Véronique Paquis-Flucklinger; Silvia Bottini (Briefings Bioinform., 2022)

ABEILLE: a novel method for ABerrant Expression Identification empLoying machine LEarning from RNA-sequencing data. - Justine Labory; Gwendal Le Bideau; David Pratella; Jean-Elisée Yao; Samira Ait-El-Mkadem Saadi; Sylvie Bannwarth; Loubna El-Hami; Véronique Paquis-Flucklinger; Silvia Bottini (Bioinform., 2022)