Publications by authors named "Yuri Pirola"

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RecGraph: recombination-aware alignment of sequences to variation graphs.
Jorge Avila Cartes, Paola Bonizzoni, Simone Ciccolella, Gianluca Della Vedova, Luca Denti, Yuri Pirola

Bioinformatics· May 2024

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MALVIRUS: an integrated application for viral variant analysis.
Simone Ciccolella, Luca Denti, Paola Bonizzoni, Gianluca Della Vedova, Yuri Pirola

BMC Bioinformatics· April 2022

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Computational graph pangenomics: a tutorial on data structures and their applications.
Jasmijn A Baaijens, Paola Bonizzoni, Christina Boucher, Gianluca Della Vedova, Yuri Pirola

Nat Comput· March 2022

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Shark: fishing relevant reads in an RNA-Seq sample.
Luca Denti, Yuri Pirola, Marco Previtali, Tamara Ceccato, Gianluca Della Vedova

Bioinformatics· May 2021

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γ-TRIS: a graph-algorithm for comprehensive identification of vector genomic insertion sites.
Andrea Calabria, Stefano Beretta, Ivan Merelli, Giulio Spinozzi, Stefano Brasca, Yuri Pirola

Bioinformatics· March 2020

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Multithread Multistring Burrows-Wheeler Transform and Longest Common Prefix Array.
Paola Bonizzoni, Gianluca Della Vedova, Yuri Pirola, Marco Previtali, Raffaella Rizzi

J Comput Biol· September 2019

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FSG: Fast String Graph Construction for De Novo Assembly.
Paola Bonizzoni, Gianluca Della Vedova, Yuri Pirola, Marco Previtali, Raffaella Rizzi

J Comput Biol· October 2017

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Use of SNP genotypes to identify carriers of harmful recessive mutations in cattle populations.
Filippo Biscarini, Hermann Schwarzenbacher, Hubert Pausch, Ezequiel L Nicolazzi, Yuri Pirola

BMC Genomics· November 2016

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On the Minimum Error Correction Problem for Haplotype Assembly in Diploid and Polyploid Genomes.
Paola Bonizzoni, Riccardo Dondi, Gunnar W Klau, Yuri Pirola, Nadia Pisanti

J Comput Biol· September 2016

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Transcriptional profiling of immortalized and K-ras-transformed mouse fibroblasts upon PKA stimulation by forskolin in low glucose availability.
Ferdinando Chiaradonna, Yuri Pirola, Francesca Ricciardiello, Roberta Palorini

Genom Data· September 2016

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HapCol: accurate and memory-efficient haplotype assembly from long reads.
Yuri Pirola, Simone Zaccaria, Riccardo Dondi, Gunnar W Klau, Nadia Pisanti

Bioinformatics· June 2016

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LSG: An External-Memory Tool to Compute String Graphs for Next-Generation Sequencing Data Assembly.
Paola Bonizzoni, Gianluca Della Vedova, Yuri Pirola, Marco Previtali, Raffaella Rizzi

J Comput Biol· March 2016

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Protein Kinase A Activation Promotes Cancer Cell Resistance to Glucose Starvation and Anoikis.
Roberta Palorini, Giuseppina Votta, Yuri Pirola, Humberto De Vitto, Sara De Palma

PLoS Genet· March 2016

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Transcriptome assembly and alternative splicing analysis.
Paola Bonizzoni, Gianluca Della Vedova, Graziano Pesole, Ernesto Picardi, Yuri Pirola

Methods Mol Biol· September 2015

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An efficient algorithm for haplotype inference on pedigrees with recombinations and mutations.
Yuri Pirola, Paola Bonizzoni, Tao Jiang

IEEE/ACM Trans Comput Biol Bioinform· April 2014

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Modeling alternative splicing variants from RNA-Seq data with isoform graphs.
Stefano Beretta, Paola Bonizzoni, Gianluca Della Vedova, Yuri Pirola, Raffaella Rizzi

J Comput Biol· January 2014

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A fast and practical approach to genotype phasing and imputation on a pedigree with erroneous and incomplete information.
Yuri Pirola, Gianluca Della Vedova, Stefano Biffani, Alessandra Stella, Paola Bonizzoni

IEEE/ACM Trans Comput Biol Bioinform· July 2013

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PIntron: a fast method for detecting the gene structure due to alternative splicing via maximal pairings of a pattern and a text.
Yuri Pirola, Raffaella Rizzi, Ernesto Picardi, Graziano Pesole, Gianluca Della Vedova

BMC Bioinformatics· April 2012

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Pure parsimony xor haplotyping.
Paola Bonizzoni, Gianluca Della Vedova, Riccardo Dondi, Yuri Pirola, Romeo Rizzi

IEEE/ACM Trans Comput Biol Bioinform· February 2011

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Detecting alternative gene structures from spliced ESTs: a computational approach.
Paola Bonizzoni, Giancarlo Mauri, Graziano Pesole, Ernesto Picardi, Yuri Pirola

J Comput Biol· January 2009

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