Digging in the RNA-seq Garbage: Evaluating the Characteristics of Unmapped RNA-seq Reads in Normal Tissues. - Matteo Carrara; Federica Cavallo; Maddalena Arigoni; Raffaele A. Calogero (CISIS, 2012)

State of art fusion-finder algorithms are suitable to detect transcription-induced chimeras in normal tissues? - Matteo Carrara; Marco Beccuti; Federica Cavallo; Susanna Donatelli; Fulvio Lazzarato; Francesca Cordero; Raffaele A. Calogero (BMC Bioinform., 2013)

Chimera: a Bioconductor package for secondary analysis of fusion products. - Marco Beccuti; Matteo Carrara; Francesca Cordero; Fulvio Lazzarato; Susanna Donatelli; Francesca Nadalin; Alberto Policriti; Raffaele A. Calogero (Bioinform., 2014)

Alternative splicing detection workflow needs a careful combination of sample prep and bioinformatics analysis. - Matteo Carrara; Josephine Lum; Francesca Cordero; Marco Beccuti; Michael Poidinger; Susanna Donatelli; Raffaele A. Calogero; Francesca Zolezzi (BMC Bioinform., 2015)

gExcite: a start-to-end framework for single-cell gene expression, hashing, and antibody analysis. - Linda Grob; Anne Bertolini; Matteo Carrara; Ulrike Lischetti; Aizhan Tastanova; Christian Beisel; Mitchell P. Levesque; Daniel J. Stekhoven; Franziska Singer (Bioinform., 2023)