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Items: 1 to 20 of 210

1.

Metagenomics Reveals Dysbiosis and a Potentially Pathogenic N. flavescens Strain in Duodenum of Adult Celiac Patients.

D'Argenio V, Casaburi G, Precone V, Pagliuca C, Colicchio R, Sarnataro D, Discepolo V, Kim SM, Russo I, Del Vecchio Blanco G, Horner DS, Chiara M, Pesole G, Salvatore P, Monteleone G, Ciacci C, Caporaso GJ, Jabrì B, Salvatore F, Sacchetti L.

Am J Gastroenterol. 2016 Apr 5. doi: 10.1038/ajg.2016.95. [Epub ahead of print]

PMID:
27045926
2.

Deep RNA profiling identified CLOCK and molecular clock genes as pathophysiological signatures in collagen VI myopathy.

Scotton C, Bovolenta M, Schwartz E, Falzarano MS, Martoni E, Passarelli C, Armaroli A, Osman H, Rodolico C, Messina S, Pegoraro E, D'Amico A, Bertini E, Gualandi F, Neri M, Selvatici R, Boffi P, Maioli MA, Lochmüller H, Straub V, Bushby K, Castrignanò T, Pesole G, Sabatelli P, Merlini L, Braghetta P, Bonaldo P, Bernardi P, Foley R, Cirak S, Zaharieva I, Muntoni F, Capitanio D, Gelfi C, Kotelnikova E, Yuryev A, Lebowitz M, Zhang X, Hodge BA, Esser KA, Ferlini A.

J Cell Sci. 2016 Apr 15;129(8):1671-84. doi: 10.1242/jcs.175927. Epub 2016 Mar 4.

PMID:
26945058
3.

Intestinal microbiota sustains inflammation and autoimmunity induced by hypomorphic RAG defects.

Rigoni R, Fontana E, Guglielmetti S, Fosso B, D'Erchia AM, Maina V, Taverniti V, Castiello MC, Mantero S, Pacchiana G, Musio S, Pedotti R, Selmi C, Mora JR, Pesole G, Vezzoni P, Poliani PL, Grassi F, Villa A, Cassani B.

J Exp Med. 2016 Mar 7;213(3):355-75. doi: 10.1084/jem.20151116. Epub 2016 Feb 29.

PMID:
26926994
4.

Corrigendum: Profiling RNA editing in human tissues: towards the inosinome Atlas.

Picardi E, Manzari C, Mastropasqua F, Aiello I, D'Erchia AM, Pesole G.

Sci Rep. 2016 Feb 8;6:20755. doi: 10.1038/srep20755. No abstract available.

5.

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.

Genome Biol Evol. 2015 Oct 15;7(11):3062-9. doi: 10.1093/gbe/evv198.

6.

Profiling RNA editing in human tissues: towards the inosinome Atlas.

Picardi E, Manzari C, Mastropasqua F, Aiello I, D'Erchia AM, Pesole G.

Sci Rep. 2015 Oct 9;5:14941. doi: 10.1038/srep14941.

7.

BALB/c and C57BL/6 Mice Differ in Polyreactive IgA Abundance, which Impacts the Generation of Antigen-Specific IgA and Microbiota Diversity.

Fransen F, Zagato E, Mazzini E, Fosso B, Manzari C, El Aidy S, Chiavelli A, D'Erchia AM, Sethi MK, Pabst O, Marzano M, Moretti S, Romani L, Penna G, Pesole G, Rescigno M.

Immunity. 2015 Sep 15;43(3):527-40. doi: 10.1016/j.immuni.2015.08.011. Epub 2015 Sep 8.

PMID:
26362264
8.

Diversity of hydrolases from hydrothermal vent sediments of the Levante Bay, Vulcano Island (Aeolian archipelago) identified by activity-based metagenomics and biochemical characterization of new esterases and an arabinopyranosidase.

Placido A, Hai T, Ferrer M, Chernikova TN, Distaso M, Armstrong D, Yakunin AF, Toshchakov SV, Yakimov MM, Kublanov IV, Golyshina OV, Pesole G, Ceci LR, Golyshin PN.

Appl Microbiol Biotechnol. 2015 Dec;99(23):10031-46. doi: 10.1007/s00253-015-6873-x. Epub 2015 Aug 13.

9.

Functional Integration of mRNA Translational Control Programs.

MacNicol MC, Cragle CE, Arumugam K, Fosso B, Pesole G, MacNicol AM.

Biomolecules. 2015 Jul 21;5(3):1580-99. doi: 10.3390/biom5031580. Review.

10.

Comparative Genomics of Listeria Sensu Lato: Genus-Wide Differences in Evolutionary Dynamics and the Progressive Gain of Complex, Potentially Pathogenicity-Related Traits through Lateral Gene Transfer.

Chiara M, Caruso M, D'Erchia AM, Manzari C, Fraccalvieri R, Goffredo E, Latorre L, Miccolupo A, Padalino I, Santagada G, Chiocco D, Pesole G, Horner DS, Parisi A.

Genome Biol Evol. 2015 Jul 15;7(8):2154-72. doi: 10.1093/gbe/evv131.

11.

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.

12.

RAP: RNA-Seq Analysis Pipeline, a new cloud-based NGS web application.

D'Antonio M, D'Onorio De Meo P, Pallocca M, Picardi E, D'Erchia AM, Calogero RA, Castrignanò T, Pesole G.

BMC Genomics. 2015;16:S3. doi: 10.1186/1471-2164-16-S6-S3. Epub 2015 Jun 1.

13.

MSA-PAD: DNA multiple sequence alignment framework based on PFAM accessed domain information.

Balech B, Vicario S, Donvito G, Monaco A, Notarangelo P, Pesole G.

Bioinformatics. 2015 Aug 1;31(15):2571-3. doi: 10.1093/bioinformatics/btv141. Epub 2015 Mar 26.

PMID:
25819080
14.

Draft genome sequence of Acinetobacter sp. neg1 capable of degrading ochratoxin A.

Fanelli F, Chiara M, Liuzzi VC, Haidukowski M, Tristezza M, Caterina M, D'Erchia AM, Pesole G, Horner DS, Mule G.

FEMS Microbiol Lett. 2015 Apr;362(7). pii: fnv004. doi: 10.1093/femsle/fnv004. Epub 2015 Jan 18.

15.

Using REDItools to Detect RNA Editing Events in NGS Datasets.

Picardi E, D'Erchia AM, Montalvo A, Pesole G.

Curr Protoc Bioinformatics. 2015 Mar 9;49:12.12.1-15. doi: 10.1002/0471250953.bi1212s49.

PMID:
25754992
16.

Epstein-Barr virus genetic variants are associated with multiple sclerosis.

Mechelli R, Manzari C, Policano C, Annese A, Picardi E, Umeton R, Fornasiero A, D'Erchia AM, Buscarinu MC, Agliardi C, Annibali V, Serafini B, Rosicarelli B, Romano S, Angelini DF, Ricigliano VA, Buttari F, Battistini L, Centonze D, Guerini FR, D'Alfonso S, Pesole G, Salvetti M, Ristori G.

Neurology. 2015 Mar 31;84(13):1362-8. doi: 10.1212/WNL.0000000000001420. Epub 2015 Mar 4.

17.

ASPicDB: a database web tool for alternative splicing analysis.

D'Antonio M, Castrgnanò T, Pallocca M, D'Erchia AM, Picardi E, Pesole G.

Methods Mol Biol. 2015;1269:365-78. doi: 10.1007/978-1-4939-2291-8_23.

PMID:
25577391
18.

A guideline for the annotation of UTR regulatory elements in the UTRsite collection.

Giulietti M, Grillo G, Liuni S, Pesole G.

Methods Mol Biol. 2015;1269:339-48. doi: 10.1007/978-1-4939-2291-8_21.

PMID:
25577389
19.

Exploring the RNA editing potential of RNA-Seq data by ExpEdit.

D'Antonio M, Picardi E, Castrignanò T, D'Erchia AM, Pesole G.

Methods Mol Biol. 2015;1269:327-38. doi: 10.1007/978-1-4939-2291-8_20.

PMID:
25577388
20.

Detection of post-transcriptional RNA editing events.

Picardi E, D'Erchia AM, Gallo A, Pesole G.

Methods Mol Biol. 2015;1269:189-205. doi: 10.1007/978-1-4939-2291-8_12.

PMID:
25577380
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