Author

Raffaella Rizzi

University of Milano-BicoccaORCID 0000-0001-9730-7516Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 3 Research Focus:differential expression· 3 Approach:statistical model· 3 Organism:bacteria (other)· 1 Research Focus:benchmarking· 1 Approach:deep learning· 1 Assay:long-read sequencing· 1 Research Focus:sequence-to-function modeling· 1

Frequent Co-Authors

Gianluca Della VedovaiD· 4 shared Paola BonizzoniiD· 4 shared Luca DentiiD· 3 shared Marco PrevitaliiD· 2 shared Yuri PirolaiD· 2 shared Brian RiccardiiD· 1 shared Davide Cesare MontiiD· 1 shared Jorge Avila CartesiD· 1 shared

Activity by Year

2018-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 28 mutual co-author links

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4 shared papersBioinformatics

Gianluca Della VedovaORCID

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4 papers

Recent·Most cited

Differential Analysis of Alternative Splicing Events in gene regions using Residual Neural Networks

Simone Ciccolella, Luca Denti, Jorge Avila Cartes, Gianluca Della Vedova, Yuri Pirola, Raffaella Rizzi, Paola Bonizzoni

This paper introduces deepSpecas, a deep learning method for differential analysis of alternative splicing events in RNA-seq samples, achieving higher precision with reduced sensitivity.

Neural Computing and Applications · Jan 24, 2025Peer-reviewedBioinformatics

RecAlign: A* recombination-aware sequence to graph mapping

Paola Bonizzoni, Davide Cesare Monti, Gianluca Della Vedova, Brian Riccardi, Raffaella Rizzi, Jouni Sirén

RecAlign improves recombination-aware sequence-to-graph mapping by using an A* algorithm with haplotype information and a heuristic function, achieving faster and more efficient performance.

bioRxiv · Jan 18, 2025 · PreprintBioinformatics

Shark: fishing in a sample to discard useless RNA-Seq reads

Luca Denti, Yuri Pirola, Marco Previtali, Tamara Ceccato, Gianluca Della Vedova, Raffaella Rizzi, Paola Bonizzoni

Shark removes irrelevant RNA-Seq reads to improve analysis efficiency without affecting results.

Bioinformatics · Sep 2, 2020Peer-reviewedBioinformatics

ASGAL: Aligning RNA-Seq Data to a Splicing Graph to Detect Novel Alternative Splicing Events

Luca Denti, Raffaella Rizzi, Stefano Beretta, Gianluca Della Vedova, Marco Previtali, Paola Bonizzoni

ASGAL aligns RNA-Seq data to a splicing graph to detect novel alternative splicing events, outperforming methods that align to a reference genome.

BMC Bioinformatics · Nov 20, 2018Peer-reviewedBioinformatics