Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 26

1.

MALVA: Genotyping by Mapping-free ALlele Detection of Known VAriants.

Denti L, Previtali M, Bernardini G, Schönhuth A, Bonizzoni P.

iScience. 2019 Aug 30;18:20-27. doi: 10.1016/j.isci.2019.07.011. Epub 2019 Jul 12.

2.

Multithread Multistring Burrows-Wheeler Transform and Longest Common Prefix Array.

Bonizzoni P, Della Vedova G, Pirola Y, Previtali M, Rizzi R.

J Comput Biol. 2019 Sep;26(9):948-961. doi: 10.1089/cmb.2018.0230. Epub 2019 May 29.

PMID:
31140836
3.

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

Denti L, Rizzi R, Beretta S, Vedova GD, Previtali M, Bonizzoni P.

BMC Bioinformatics. 2018 Nov 20;19(1):444. doi: 10.1186/s12859-018-2436-3.

4.

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

Beretta S, Patterson MD, Zaccaria S, Della Vedova G, Bonizzoni P.

BMC Bioinformatics. 2018 Jul 3;19(1):252. doi: 10.1186/s12859-018-2253-8.

5.

FSG: Fast String Graph Construction for De Novo Assembly.

Bonizzoni P, Vedova GD, Pirola Y, Previtali M, Rizzi R.

J Comput Biol. 2017 Oct;24(10):953-968. doi: 10.1089/cmb.2017.0089. Epub 2017 Jul 17.

PMID:
28715269
6.

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

Bonizzoni P, Dondi R, Klau GW, Pirola Y, Pisanti N, Zaccaria S.

J Comput Biol. 2016 Sep;23(9):718-36. doi: 10.1089/cmb.2015.0220. Epub 2016 Jun 9.

PMID:
27280382
7.

Existence of constants in regular splicing languages.

Bonizzoni P, Jonoska N.

Inf Comput. 2015 Jun;242:340-353.

8.

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

Bonizzoni P, Vedova GD, Pirola Y, Previtali M, Rizzi R.

J Comput Biol. 2016 Mar;23(3):137-49. doi: 10.1089/cmb.2015.0172.

PMID:
26953874
9.

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

Pirola Y, Zaccaria S, Dondi R, Klau GW, Pisanti N, Bonizzoni P.

Bioinformatics. 2016 Jun 1;32(11):1610-7. doi: 10.1093/bioinformatics/btv495. Epub 2015 Aug 26.

PMID:
26315913
10.

Transcriptome assembly and alternative splicing analysis.

Bonizzoni P, Della Vedova G, Pesole G, Picardi E, Pirola Y, Rizzi R.

Methods Mol Biol. 2015;1269:173-88. doi: 10.1007/978-1-4939-2291-8_11.

PMID:
25577379
11.

Explaining evolution via constrained persistent perfect phylogeny.

Bonizzoni P, Carrieri AP, Della Vedova G, Trucco G.

BMC Genomics. 2014;15 Suppl 6:S10. doi: 10.1186/1471-2164-15-S6-S10. Epub 2014 Oct 17.

12.

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

Beretta S, Bonizzoni P, Vedova GD, Pirola Y, Rizzi R.

J Comput Biol. 2014 Jan;21(1):16-40. doi: 10.1089/cmb.2013.0112. Epub 2013 Nov 7.

13.

Further steps in TANGO: improved taxonomic assignment in metagenomics.

Alonso-Alemany D, Barré A, Beretta S, Bonizzoni P, Nikolski M, Valiente G.

Bioinformatics. 2014 Jan 1;30(1):17-23. doi: 10.1093/bioinformatics/btt256. Epub 2013 May 3.

PMID:
23645816
14.

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

Pirola Y, Della Vedova G, Biffani S, Stella A, Bonizzoni P.

IEEE/ACM Trans Comput Biol Bioinform. 2012 Nov-Dec;9(6):1582-94.

PMID:
22848137
15.

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

Pirola Y, Rizzi R, Picardi E, Pesole G, Della Vedova G, Bonizzoni P.

BMC Bioinformatics. 2012 Apr 12;13 Suppl 5:S2. doi: 10.1186/1471-2105-13-S5-S2.

16.

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

Pirola Y, Bonizzoni P, Jiang T.

IEEE/ACM Trans Comput Biol Bioinform. 2012 Jan-Feb;9(1):12-25. doi: 10.1109/TCBB.2011.51. Epub 2011 Mar 3.

PMID:
21383417
17.

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

Martelli PL, D'Antonio M, Bonizzoni P, Castrignanò T, D'Erchia AM, D'Onorio De Meo P, Fariselli P, Finelli M, Licciulli F, Mangiulli M, Mignone F, Pavesi G, Picardi E, Rizzi R, Rossi I, Valletti A, Zauli A, Zambelli F, Casadio R, Pesole G.

Nucleic Acids Res. 2011 Jan;39(Database issue):D80-5. doi: 10.1093/nar/gkq1073. Epub 2010 Nov 4.

18.

Pure parsimony xor haplotyping.

Bonizzoni P, Della Vedova G, Dondi R, Pirola Y, Rizzi R.

IEEE/ACM Trans Comput Biol Bioinform. 2010 Oct-Dec;7(4):598-610. doi: 10.1109/TCBB.2010.52.

PMID:
20498511
19.

Detecting alternative gene structures from spliced ESTs: a computational approach.

Bonizzoni P, Mauri G, Pesole G, Picardi E, Pirola Y, Rizzi R.

J Comput Biol. 2009 Jan;16(1):43-66. doi: 10.1089/cmb.2008.0028.

PMID:
19119993
20.

ASPicDB: a database resource for alternative splicing analysis.

Castrignanò T, D'Antonio M, Anselmo A, Carrabino D, D'Onorio De Meo A, D'Erchia AM, Licciulli F, Mangiulli M, Mignone F, Pavesi G, Picardi E, Riva A, Rizzi R, Bonizzoni P, Pesole G.

Bioinformatics. 2008 May 15;24(10):1300-4. doi: 10.1093/bioinformatics/btn113. Epub 2008 Apr 3.

PMID:
18388144
21.

Experimental analysis of a new algorithm for partial haplotype completion.

Bonizzoni P, Della Vedova G, Dondi R, Mariani L.

Int J Bioinform Res Appl. 2005;1(4):461-73.

PMID:
18048149
22.

Exemplar longest common subsequence.

Bonizzoni P, Della Vedova G, Dondi R, Fertin G, Rizzi R, Vialette S.

IEEE/ACM Trans Comput Biol Bioinform. 2007 Oct-Dec;4(4):535-43.

PMID:
17975265
23.

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

Castrignanò T, Rizzi R, Talamo IG, De Meo PD, Anselmo A, Bonizzoni P, Pesole G.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W440-3.

24.

Computational methods for alternative splicing prediction.

Bonizzoni P, Rizzi R, Pesole G.

Brief Funct Genomic Proteomic. 2006 Mar;5(1):46-51. Epub 2006 Feb 20. Review.

PMID:
16769678
26.

[The utilization of the psychiatric services of Local Health Unit No. IX (Genoa 1.): a follow-up (at 2 years) of cases from the period of 1 July 1984-30 June 1986].

Storer C, Pistorio A, Comelli M, Bonizzoni P.

Epidemiol Prev. 1991 Sep-Dec;13(48-49):201-2. Italian. No abstract available.

PMID:
1843317

Supplemental Content

Loading ...
Support Center