دورية أكاديمية
BPRMeth: a flexible Bioconductor package for modelling methylation profiles.
| العنوان: | BPRMeth: a flexible Bioconductor package for modelling methylation profiles. |
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| المؤلفون: | Kapourani CA; School of Informatics, University of Edinburgh, Edinburgh, UK., Sanguinetti G; School of Informatics, University of Edinburgh, Edinburgh, UK.; Synthetic and Systems Biology, University of Edinburgh, Edinburgh, UK. |
| المصدر: | Bioinformatics (Oxford, England) [Bioinformatics] 2018 Jul 15; Vol. 34 (14), pp. 2485-2486. |
| نوع المنشور: | Journal Article; Research Support, Non-U.S. Gov't |
| اللغة: | English |
| بيانات الدورية: | Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE |
| أسماء مطبوعة: | Original Publication: Oxford : Oxford University Press, c1998- |
| مواضيع طبية MeSH: | DNA Methylation* , Software*, Epigenomics/*instrumentation, Linear Models |
| مستخلص: | Motivation: High-throughput measurements of DNA methylation are increasingly becoming a mainstay of biomedical investigations. While the methylation status of individual cytosines can sometimes be informative, several recent papers have shown that the functional role of DNA methylation is better captured by a quantitative analysis of the spatial variation of methylation across a genomic region. Results: Here, we present BPRMeth, a Bioconductor package that quantifies methylation profiles by generalized linear model regression. The original implementation has been enhanced in two important ways: we introduced a fast, variational inference approach that enables the quantification of Bayesian posterior confidence measures on the model, and we adapted the method to use several observation models, making it suitable for a diverse range of platforms including single-cell analyses and methylation arrays. Availability and Implementation: http://bioconductor.org/packages/BPRMeth. Supplementary Information: Supplementary data are available at Bioinformatics online. |
| References: | Hum Genet. 2011 Jun;129(6):585-95. (PMID: 21519831) Nat Commun. 2018 Feb 22;9(1):781. (PMID: 29472610) Nucleic Acids Res. 2013 Aug;41(14):6816-27. (PMID: 23748561) Bioinformatics. 2015 Mar 15;31(6):809-16. (PMID: 25398611) Bioinformatics. 2016 Sep 1;32(17):i405-i412. (PMID: 27587656) |
| تواريخ الأحداث: | Date Created: 20180310 Date Completed: 20190911 Latest Revision: 20190911 |
| رمز التحديث: | 20221213 |
| مُعرف محوري في PubMed: | PMC6041802 |
| DOI: | 10.1093/bioinformatics/bty129 |
| PMID: | 29522078 |
| قاعدة البيانات: | MEDLINE |
| تدمد: | 1367-4811 |
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| DOI: | 10.1093/bioinformatics/bty129 |