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Results: 1 to 20 of 36

1.

BioMaS: a modular pipeline for Bioinformatic analysis of Metagenomic AmpliconS.

Fosso B, Santamaria M, Marzano M, Alonso-Alemany D, Valiente G, Donvito G, Monaco A, Notarangelo P, Pesole G.

BMC Bioinformatics. 2015 Jul 1;16:203. doi: 10.1186/s12859-015-0595-z.

2.

Oral administration of nano-emulsion curcumin in mice suppresses inflammatory-induced NFκB signaling and macrophage migration.

Young NA, Bruss MS, Gardner M, Willis WL, Mo X, Valiente GR, Cao Y, Liu Z, Jarjour WN, Wu LC.

PLoS One. 2014 Nov 4;9(11):e111559. doi: 10.1371/journal.pone.0111559. eCollection 2014.

3.

The comparison of tree-sibling time consistent phylogenetic networks is graph isomorphism-complete.

Cardona G, Llabrés M, Rosselló F, Valiente G.

ScientificWorldJournal. 2014;2014:254279. doi: 10.1155/2014/254279. Epub 2014 Apr 2.

4.

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.

5.

Bioinformatics approaches and tools for metagenomic analysis. Editorial.

Valiente G, Pesole G.

Brief Bioinform. 2012 Nov;13(6):645. doi: 10.1093/bib/bbs079. No abstract available.

6.

Reference databases for taxonomic assignment in metagenomics.

Santamaria M, Fosso B, Consiglio A, De Caro G, Grillo G, Licciulli F, Liuni S, Marzano M, Alonso-Alemany D, Valiente G, Pesole G.

Brief Bioinform. 2012 Nov;13(6):682-95. doi: 10.1093/bib/bbs036. Epub 2012 Jul 10. Review.

7.

Computational challenges of sequence classification in microbiomic data.

Ribeca P, Valiente G.

Brief Bioinform. 2011 Nov;12(6):614-25. doi: 10.1093/bib/bbr019. Epub 2011 Apr 18.

8.

Flexible taxonomic assignment of ambiguous sequencing reads.

Clemente JC, Jansson J, Valiente G.

BMC Bioinformatics. 2011 Jan 7;12:8. doi: 10.1186/1471-2105-12-8.

9.

Comparison of galled trees.

Cardona G, Llabrés M, Rosselló F, Valiente G.

IEEE/ACM Trans Comput Biol Bioinform. 2011 Mar-Apr;8(2):410-27. doi: 10.1109/TCBB.2010.60.

PMID:
20660951
10.

Characterization of phylogenetic networks with NetTest.

Arenas M, Patricio M, Posada D, Valiente G.

BMC Bioinformatics. 2010 May 20;11:268. doi: 10.1186/1471-2105-11-268.

11.

An optimized TOPS+ comparison method for enhanced TOPS models.

Veeramalai M, Gilbert D, Valiente G.

BMC Bioinformatics. 2010 Mar 17;11:138. doi: 10.1186/1471-2105-11-138.

12.

Accurate taxonomic assignment of short pyrosequencing reads.

Clemente JC, Jansson J, Valiente G.

Pac Symp Biocomput. 2010:3-9.

13.

On Nakhleh's metric for reduced phylogenetic networks.

Cardona G, Llabrés M, Rosselló F, Valiente G.

IEEE/ACM Trans Comput Biol Bioinform. 2009 Oct-Dec;6(4):629-38. doi: 10.1109/TCBB.2009.33.

PMID:
19875861
14.

Comparison of tree-child phylogenetic networks.

Cardona G, Rosselló F, Valiente G.

IEEE/ACM Trans Comput Biol Bioinform. 2009 Oct-Dec;6(4):552-69. doi: 10.1109/TCBB.2007.70270.

PMID:
19875855
15.

Nodal distances for rooted phylogenetic trees.

Cardona G, Llabrés M, Rosselló F, Valiente G.

J Math Biol. 2010 Aug;61(2):253-76. doi: 10.1007/s00285-009-0295-2. Epub 2009 Sep 16.

PMID:
19760227
16.

Metrics for phylogenetic networks II: nodal and triplets metrics.

Cardona G, Llabrés M, Rosselló F, Valiente G.

IEEE/ACM Trans Comput Biol Bioinform. 2009 Jul-Sep;6(3):454-69. doi: 10.1109/TCBB.2008.127.

PMID:
19644173
17.

All that glisters is not galled.

Rosselló F, Valiente G.

Math Biosci. 2009 Sep;221(1):54-9. doi: 10.1016/j.mbs.2009.06.007. Epub 2009 Jul 2.

PMID:
19576908
18.

Optimized ancestral state reconstruction using Sankoff parsimony.

Clemente JC, Ikeo K, Valiente G, Gojobori T.

BMC Bioinformatics. 2009 Feb 7;10:51. doi: 10.1186/1471-2105-10-51.

19.

Metrics for phylogenetic networks I: generalizations of the Robinson-Foulds metric.

Cardona G, Llabrés M, Rosselló F, Valiente G.

IEEE/ACM Trans Comput Biol Bioinform. 2009 Jan-Mar;6(1):46-61. doi: 10.1109/TCBB.2008.70.

PMID:
19179698
20.

Efficient reconstruction of metabolic pathways by bidirectional chemical search.

Félix L, Rosselló F, Valiente G.

Bull Math Biol. 2009 Apr;71(3):750-69. doi: 10.1007/s11538-008-9380-8. Epub 2008 Dec 20.

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