Academic Journal
HPC-REDItools: a novel HPC-aware tool for improved large scale RNA-editing analysis
| العنوان: | HPC-REDItools: a novel HPC-aware tool for improved large scale RNA-editing analysis |
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| المؤلفون: | Tiziano Flati, Silvia Gioiosa, Nicola Spallanzani, Ilario Tagliaferri, Maria Angela Diroma, Graziano Pesole, Giovanni Chillemi, Ernesto Picardi, Tiziana Castrignanò |
| المصدر: | BMC Bioinformatics, Vol 21, Iss S10, Pp 1-12 (2020) |
| بيانات النشر: | BMC, 2020. |
| سنة النشر: | 2020 |
| المجموعة: | LCC:Computer applications to medicine. Medical informatics LCC:Biology (General) |
| مصطلحات موضوعية: | RNA-editing, High Performance Computing, REDItools, Next Generation Sequencing, Sequence Analysis, Bioinformatics pipeline, Computer applications to medicine. Medical informatics, R858-859.7, Biology (General), QH301-705.5 |
| الوصف: | Abstract Background RNA editing is a widespread co-/post-transcriptional mechanism that alters primary RNA sequences through the modification of specific nucleotides and it can increase both the transcriptome and proteome diversity. The automatic detection of RNA-editing from RNA-seq data is computational intensive and limited to small data sets, thus preventing a reliable genome-wide characterisation of such process. Results In this work we introduce HPC-REDItools, an upgraded tool for accurate RNA-editing events discovery from large dataset repositories. Availability: https://github.com/BioinfoUNIBA/REDItools2 . Conclusions HPC-REDItools is dramatically faster than the previous version, REDItools, enabling big-data analysis by means of a MPI-based implementation and scaling almost linearly with the number of available cores. |
| نوع الوثيقة: | article |
| وصف الملف: | electronic resource |
| اللغة: | English |
| تدمد: | 1471-2105 |
| Relation: | http://link.springer.com/article/10.1186/s12859-020-03562-x; https://doaj.org/toc/1471-2105 |
| DOI: | 10.1186/s12859-020-03562-x |
| URL الوصول: | https://doaj.org/article/28c7a7237b57452fa233d7110d28bdb9 |
| رقم الانضمام: | edsdoj.28c7a7237b57452fa233d7110d28bdb9 |
| قاعدة البيانات: | Directory of Open Access Journals |
Full Text Finder | تدمد: | 14712105 |
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| DOI: | 10.1186/s12859-020-03562-x |