Ficarra E - Search Results

1

Bellerophontes: an RNA-Seq data analysis framework for chimeric transcripts discovery based on accurate fusion model.

Abate F, Acquaviva A, Paciello G, Foti C, Ficarra E, Ferrarini A, Delledonne M, Iacobucci I, Soverini S, Martinelli G, Macii E. Abate F, et al. Among authors: ficarra e. Bioinformatics. 2012 Aug 15;28(16):2114-21. doi: 10.1093/bioinformatics/bts334. Epub 2012 Jun 17. Bioinformatics. 2012. PMID: 22711792

2

miREE: miRNA recognition elements ensemble.

Reyes-Herrera PH, Ficarra E, Acquaviva A, Macii E. Reyes-Herrera PH, et al. Among authors: ficarra e. BMC Bioinformatics. 2011 Nov 24;12:454. doi: 10.1186/1471-2105-12-454. BMC Bioinformatics. 2011. PMID: 22115078 Free PMC article.

3

isomiR-SEA: an RNA-Seq analysis tool for miRNAs/isomiRs expression level profiling and miRNA-mRNA interaction sites evaluation.

Urgese G, Paciello G, Acquaviva A, Ficarra E. Urgese G, et al. Among authors: ficarra e. BMC Bioinformatics. 2016 Mar 31;17:148. doi: 10.1186/s12859-016-0958-0. BMC Bioinformatics. 2016. PMID: 27036505 Free PMC article.

4

FuGePrior: A novel gene fusion prioritization algorithm based on accurate fusion structure analysis in cancer RNA-seq samples.

Paciello G, Ficarra E. Paciello G, et al. Among authors: ficarra e. BMC Bioinformatics. 2017 Jan 23;18(1):58. doi: 10.1186/s12859-016-1450-6. BMC Bioinformatics. 2017. PMID: 28114882 Free PMC article.

5

Pegasus: a comprehensive annotation and prediction tool for detection of driver gene fusions in cancer.

Abate F, Zairis S, Ficarra E, Acquaviva A, Wiggins CH, Frattini V, Lasorella A, Iavarone A, Inghirami G, Rabadan R. Abate F, et al. Among authors: ficarra e. BMC Syst Biol. 2014 Sep 4;8:97. doi: 10.1186/s12918-014-0097-z. BMC Syst Biol. 2014. PMID: 25183062 Free PMC article.

6

VDJSeq-Solver: in silico V(D)J recombination detection tool.

Paciello G, Acquaviva A, Pighi C, Ferrarini A, Macii E, Zamo' A, Ficarra E. Paciello G, et al. Among authors: ficarra e. PLoS One. 2015 Mar 23;10(3):e0118192. doi: 10.1371/journal.pone.0118192. eCollection 2015. PLoS One. 2015. PMID: 25799103 Free PMC article.

7

Automated segmentation of cells with IHC membrane staining.

Ficarra E, Di Cataldo S, Acquaviva A, Macii E. Ficarra E, et al. IEEE Trans Biomed Eng. 2011 May;58(5):1421-9. doi: 10.1109/TBME.2011.2106499. Epub 2011 Jan 17. IEEE Trans Biomed Eng. 2011. PMID: 21245003 Free article.

8

A molecular dynamics study of a miRNA:mRNA interaction.

Paciello G, Acquaviva A, Ficarra E, Deriu MA, Macii E. Paciello G, et al. Among authors: ficarra e. J Mol Model. 2011 Nov;17(11):2895-906. doi: 10.1007/s00894-011-0991-x. Epub 2011 Feb 12. J Mol Model. 2011. PMID: 21318233

9

Acceleration of coarse grain molecular dynamics on GPU architectures.

Shkurti A, Orsi M, Macii E, Ficarra E, Acquaviva A. Shkurti A, et al. Among authors: ficarra e. J Comput Chem. 2013 Apr 5;34(10):803-18. doi: 10.1002/jcc.23183. Epub 2012 Dec 28. J Comput Chem. 2013. PMID: 23280763

10

Gelsius: a literature-based workflow for determining quantitative associations between genes and biological processes.

Abate F, Acquaviva A, Ficarra E, Piva R, Macii E. Abate F, et al. Among authors: ficarra e. IEEE/ACM Trans Comput Biol Bioinform. 2013 May-Jun;10(3):619-31. doi: 10.1109/TCBB.2013.11. IEEE/ACM Trans Comput Biol Bioinform. 2013. PMID: 24091396

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