دورية أكاديمية
circRNAprofiler: an R-based computational framework for the downstream analysis of circular RNAs.
| العنوان: | circRNAprofiler: an R-based computational framework for the downstream analysis of circular RNAs. |
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| المؤلفون: | Aufiero S; Department of Experimental Cardiology, Amsterdam UMC, location AMC, Amsterdam, The Netherlands. s.aufiero@amsterdamumc.nl.; Department of Clinical Epidemiology, Biostatistics and Bioinformatics, Amsterdam UMC, Location AMC, Amsterdam, The Netherlands. s.aufiero@amsterdamumc.nl., Reckman YJ; Department of Experimental Cardiology, Amsterdam UMC, location AMC, Amsterdam, The Netherlands., Tijsen AJ; Department of Experimental Cardiology, Amsterdam UMC, location AMC, Amsterdam, The Netherlands., Pinto YM; Department of Experimental Cardiology, Amsterdam UMC, location AMC, Amsterdam, The Netherlands., Creemers EE; Department of Experimental Cardiology, Amsterdam UMC, location AMC, Amsterdam, The Netherlands. |
| المصدر: | BMC bioinformatics [BMC Bioinformatics] 2020 Apr 29; Vol. 21 (1), pp. 164. Date of Electronic Publication: 2020 Apr 29. |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: BioMed Central Country of Publication: England NLM ID: 100965194 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2105 (Electronic) Linking ISSN: 14712105 NLM ISO Abbreviation: BMC Bioinformatics Subsets: MEDLINE |
| أسماء مطبوعة: | Original Publication: [London] : BioMed Central, 2000- |
| مواضيع طبية MeSH: | Software*, Computational Biology/*methods , RNA, Circular/*genetics, Binding Sites/genetics ; Gene Expression Regulation ; Genome ; Genome-Wide Association Study ; Humans ; Introns/genetics ; MicroRNAs/genetics ; MicroRNAs/metabolism ; Polymorphism, Single Nucleotide/genetics ; Repetitive Sequences, Nucleic Acid/genetics |
| مستخلص: | Background: Circular RNAs (circRNAs) are a newly appreciated class of non-coding RNA molecules. Numerous tools have been developed for the detection of circRNAs, however computational tools to perform downstream functional analysis of circRNAs are scarce. Results: We present circRNAprofiler, an R-based computational framework that runs after circRNAs have been identified. It allows to combine circRNAs detected by multiple publicly available annotation-based circRNA detection tools and to analyze their expression, genomic context, evolutionary conservation, biogenesis and putative functions. Conclusions: Overall, the circRNA analysis workflow implemented by circRNAprofiler is highly automated and customizable, and the results of the analyses can be used as starting point for further investigation in the role of specific circRNAs in any physiological or pathological condition. |
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| فهرسة مساهمة: | Keywords: Annotation; Differential expression analysis; Functional prediction; R-package; Sequence analysis; circRNA |
| المشرفين على المادة: | 0 (MicroRNAs) 0 (RNA, Circular) |
| تواريخ الأحداث: | Date Created: 20200501 Date Completed: 20200703 Latest Revision: 20200703 |
| رمز التحديث: | 20221213 |
| مُعرف محوري في PubMed: | PMC7191743 |
| DOI: | 10.1186/s12859-020-3500-3 |
| PMID: | 32349660 |
| قاعدة البيانات: | MEDLINE |
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Full Text Finder | تدمد: | 1471-2105 |
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| DOI: | 10.1186/s12859-020-3500-3 |