دورية أكاديمية
iSmaRT: a toolkit for a comprehensive analysis of small RNA-Seq data
| العنوان: | iSmaRT: a toolkit for a comprehensive analysis of small RNA-Seq data |
|---|---|
| المؤلفون: | Panero, Riccardo, Rinaldi, Antonio, Memoli, Domenico, Nassa, Giovanni, Ravo, Maria, Rizzo, Francesca, Tarallo, Roberta, Milanesi, Luciano, Weisz, Alessandro, Giurato, Giorgio |
| المساهمون: | Bar-Joseph, Ziv |
| المصدر: | Bioinformatics ; volume 33, issue 6, page 938-940 ; ISSN 1367-4803 1367-4811 |
| بيانات النشر: | Oxford University Press (OUP) |
| سنة النشر: | 2016 |
| مصطلحات موضوعية: | Computational Mathematics, Computational Theory and Mathematics, Computer Science Applications, Molecular Biology, Biochemistry, Statistics and Probability |
| الوصف: | Summary The interest in investigating the biological roles of small non-coding RNAs (sncRNAs) is increasing, due to the pleiotropic effects of these molecules exert in many biological contexts. While several methods and tools are available to study microRNAs (miRNAs), only few focus on novel classes of sncRNAs, in particular PIWI-interacting RNAs (piRNAs). To overcome these limitations, we implemented iSmaRT (integrative Small RNA Tool-kit), an automated pipeline to analyze smallRNA-Seq data. Availability and Implementation iSmaRT is a collection of bioinformatics tools and own algorithms, interconnected through a Graphical User Interface (GUI). In addition to performing comprehensive analyses on miRNAs, it implements specific computational modules to analyze piRNAs, predicting novel ones and identifying their RNA targets. A smallRNA-Seq dataset generated from brain samples of Huntington’s Disease patients was used here to illustrate iSmaRT performances, demonstrating how the pipeline can provide, in a rapid and user friendly way, a comprehensive analysis of different classes of sncRNAs. iSmaRT is freely available on the web at ftp://labmedmolge-1.unisa.it (User: iSmart - Password: password) Supplementary information Supplementary data are available at Bioinformatics online. |
| نوع الوثيقة: | article in journal/newspaper |
| اللغة: | English |
| DOI: | 10.1093/bioinformatics/btw734 |
| الإتاحة: | https://doi.org/10.1093/bioinformatics/btw734Test https://academic.oup.com/bioinformatics/article-pdf/33/6/938/49038221/bioinformatics_33_6_938.pdfTest |
| حقوق: | https://academic.oup.com/journals/pages/about_us/legal/noticesTest |
| رقم الانضمام: | edsbas.A38106D8 |
| قاعدة البيانات: | BASE |
| DOI: | 10.1093/bioinformatics/btw734 |
|---|