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SVM²: an improved paired-end-based tool for the detection of small genomic structural variations using high-throughput single-genome resequencing data.
Chiara M, Pesole G, Horner DS. Chiara M, et al. Nucleic Acids Res. 2012 Oct;40(18):e145. doi: 10.1093/nar/gks606. Epub 2012 Jun 25. Nucleic Acids Res. 2012. PMID: 22735696 Free PMC article.
Bioinformatics approaches for genomics and post genomics applications of next-generation sequencing.
Horner DS, Pavesi G, Castrignanò T, De Meo PD, Liuni S, Sammeth M, Picardi E, Pesole G. Horner DS, et al. Brief Bioinform. 2010 Mar;11(2):181-97. doi: 10.1093/bib/bbp046. Epub 2009 Oct 27. Brief Bioinform. 2010. PMID: 19864250 Review.
SMRT long reads and Direct Label and Stain optical maps allow the generation of a high-quality genome assembly for the European barn swallow (Hirundo rustica rustica).
Formenti G, Chiara M, Poveda L, Francoijs KJ, Bonisoli-Alquati A, Canova L, Gianfranceschi L, Horner DS, Saino N. Formenti G, et al. Among authors: horner ds. Gigascience. 2019 Jan 1;8(1):giy142. doi: 10.1093/gigascience/giy142. Gigascience. 2019. PMID: 30496513 Free PMC article.
Genome Sequencing of Multiple Isolates Highlights Subtelomeric Genomic Diversity within Fusarium fujikuroi.
Chiara M, Fanelli F, Mulè G, Logrieco AF, Pesole G, Leslie JF, Horner DS, Toomajian C. Chiara M, et al. Genome Biol Evol. 2015 Oct 15;7(11):3062-9. doi: 10.1093/gbe/evv198. Genome Biol Evol. 2015. PMID: 26475319 Free PMC article.
Large-scale detection and analysis of RNA editing in grape mtDNA by RNA deep-sequencing.
Picardi E, Horner DS, Chiara M, Schiavon R, Valle G, Pesole G. Picardi E, et al. Nucleic Acids Res. 2010 Aug;38(14):4755-67. doi: 10.1093/nar/gkq202. Epub 2010 Apr 12. Nucleic Acids Res. 2010. PMID: 20385587 Free PMC article.
A-GAME: improving the assembly of pooled functional metagenomics sequence data.
Chiara M, Placido A, Picardi E, Ceci LR, Horner DS, Pesole G. Chiara M, et al. Among authors: horner ds. BMC Genomics. 2018 Jan 12;19(1):44. doi: 10.1186/s12864-017-4369-z. BMC Genomics. 2018. PMID: 29329522 Free PMC article.
Transcriptomic analysis of nickel exposure in Sphingobium sp. ba1 cells using RNA-seq.
Volpicella M, Leoni C, Manzari C, Chiara M, Picardi E, Piancone E, Italiano F, D'Erchia A, Trotta M, Horner DS, Pesole G, Ceci LR. Volpicella M, et al. Sci Rep. 2017 Aug 15;7(1):8262. doi: 10.1038/s41598-017-08934-7. Sci Rep. 2017. PMID: 28811613 Free PMC article.
CoVaCS: a consensus variant calling system.
Chiara M, Gioiosa S, Chillemi G, D'Antonio M, Flati T, Picardi E, Zambelli F, Horner DS, Pesole G, Castrignanò T. Chiara M, et al. Among authors: horner ds. BMC Genomics. 2018 Feb 5;19(1):120. doi: 10.1186/s12864-018-4508-1. BMC Genomics. 2018. PMID: 29402227 Free PMC article.
Correction: High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera.
Mica E, Piccolo V, Delledonne M, Ferrarini A, Pezzotti M, Casati C, Del Fabbro C, Valle G, Policriti A, Morgante M, Pesole G, Pè ME, Horner DS. Mica E, et al. BMC Genomics. 2010 Feb 12;11:109. doi: 10.1186/1471-2164-11-109. BMC Genomics. 2010. PMID: 20152027 Free PMC article.
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