List of works - Paola Bonizzoni

A Decision Procedure for Reflexive Regular Splicing Languages

A characterization of (regular) circular languages generated by monotone complete splicing systems

scientific article published in November 2010

A fast and practical approach to genotype phasing and imputation on a pedigree with erroneous and incomplete information

scientific article published in November 2012

APPROXIMATING THE MAXIMUM ISOMORPHIC AGREEMENT SUBTREE IS HARD

ASGAL: aligning RNA-Seq data to a splicing graph to detect novel alternative splicing events

scientific article published on 20 November 2018

ASPIC: a novel method to predict the exon-intron structure of a gene that is optimally compatible to a set of transcript sequences

scientific article

ASPIC: a web resource for alternative splicing prediction and transcript isoforms characterization

scientific article published on July 2006

ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing

scientific article

ASPicDB: a database resource for alternative splicing analysis.

scientific article published on 3 April 2008

An efficient algorithm for haplotype inference on pedigrees with recombinations and mutations.

scientific article published on 3 March 2011

Circular splicing and regularity

scientific article published on 15 June 2004

Computational methods for alternative splicing prediction

scientific article published on 20 February 2006

Computing the multi-string BWT and LCP array in external memory

scientific article published in March 2021

DNA and circular splicing?

scientific article published in 2001

Detecting alternative gene structures from spliced ESTs: a computational approach

scientific article

Does Relaxing the Infinite Sites Assumption Give Better Tumor Phylogenies? An ILP-Based Comparative Approach

scientific article published on 01 September 2019

Editorial

Exemplar longest common subsequence.

scientific article published in October 2007

Experimenting an approximation algorithm for the LCS

Explaining evolution via constrained persistent perfect phylogeny

scientific article published on 17 October 2014

FSG: Fast String Graph Construction for De Novo Assembly.

scientific article published on 17 July 2017

Fingerprint Clustering with Bounded Number of Missing Values

Further steps in TANGO: improved taxonomic assignment in metagenomics.

scientific article published on 3 May 2013

HapCHAT: adaptive haplotype assembly for efficiently leveraging high coverage in long reads.

scientific article published on 3 July 2018

HapCol: accurate and memory-efficient haplotype assembly from long reads

scientific article

LSG: An External-Memory Tool to Compute String Graphs for Next-Generation Sequencing Data Assembly.

scientific article

MALVIRUS: an integrated web application for viral variant calling

scientific article published on 05 May 2020

Modeling alternative splicing variants from RNA-Seq data with isoform graphs

scientific article

On automata on infinite trees

On the Approximation of Correlation Clustering and Consensus Clustering

On the Minimum Error Correction Problem for Haplotype Assembly in Diploid and Polyploid Genomes.

scientific article

On the regularity of circular splicing languages: a survey and new developments

scientific article published on 20 October 2009

PIntron: a fast method for detecting the gene structure due to alternative splicing via maximal pairings of a pattern and a text ⬇️

scientific article

Picture Languages Generated by Assembling Tiles

Pure parsimony xor haplotyping.

scientific article published in October 2010

RecGraph: recombination-aware alignment of sequences to variation graphs

scientific article published on 27 April 2024

Restricted and Swap Common Superstring: A Parameterized View

Separating some splicing models

scientific article published in September 2001

The structure of reflexive regular splicing languages via Schützenberger constants

scientific article published in April 2005

List of works by Paola Bonizzoni

A Decision Procedure for Reflexive Regular Splicing Languages

A characterization of (regular) circular languages generated by monotone complete splicing systems

A fast and practical approach to genotype phasing and imputation on a pedigree with erroneous and incomplete information

APPROXIMATING THE MAXIMUM ISOMORPHIC AGREEMENT SUBTREE IS HARD

ASGAL: aligning RNA-Seq data to a splicing graph to detect novel alternative splicing events

ASPIC: a novel method to predict the exon-intron structure of a gene that is optimally compatible to a set of transcript sequences

ASPIC: a web resource for alternative splicing prediction and transcript isoforms characterization

ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing

ASPicDB: a database resource for alternative splicing analysis.

An efficient algorithm for haplotype inference on pedigrees with recombinations and mutations.

Circular splicing and regularity

Computational methods for alternative splicing prediction

Computing the multi-string BWT and LCP array in external memory

DNA and circular splicing?

Detecting alternative gene structures from spliced ESTs: a computational approach

Does Relaxing the Infinite Sites Assumption Give Better Tumor Phylogenies? An ILP-Based Comparative Approach

Editorial

Exemplar longest common subsequence.

Experimenting an approximation algorithm for the LCS

Explaining evolution via constrained persistent perfect phylogeny

FSG: Fast String Graph Construction for De Novo Assembly.

Fingerprint Clustering with Bounded Number of Missing Values

Further steps in TANGO: improved taxonomic assignment in metagenomics.

HapCHAT: adaptive haplotype assembly for efficiently leveraging high coverage in long reads.

HapCol: accurate and memory-efficient haplotype assembly from long reads

LSG: An External-Memory Tool to Compute String Graphs for Next-Generation Sequencing Data Assembly.

MALVIRUS: an integrated web application for viral variant calling

Modeling alternative splicing variants from RNA-Seq data with isoform graphs

On automata on infinite trees

On the Approximation of Correlation Clustering and Consensus Clustering

On the Minimum Error Correction Problem for Haplotype Assembly in Diploid and Polyploid Genomes.

On the regularity of circular splicing languages: a survey and new developments

PIntron: a fast method for detecting the gene structure due to alternative splicing via maximal pairings of a pattern and a text ⬇️

Picture Languages Generated by Assembling Tiles

Pure parsimony xor haplotyping.

RecGraph: recombination-aware alignment of sequences to variation graphs

Restricted and Swap Common Superstring: A Parameterized View

Separating some splicing models

The structure of reflexive regular splicing languages via Schützenberger constants

Transcriptome Assembly and Alternative Splicing Analysis