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dc.contributor.authorMaksimovic, J
dc.contributor.authorPhipson, B
dc.contributor.authorOshlack, A
dc.date.accessioned2020-12-21T02:33:22Z
dc.date.available2020-12-21T02:33:22Z
dc.date.issued2016
dc.identifier.citationMaksimovic, J., Phipson, B. & Oshlack, A. (2016). A cross-package Bioconductor workflow for analysing methylation array data.. F1000Res, 5, pp.1281-. https://doi.org/10.12688/f1000research.8839.3.
dc.identifier.issn2046-1402
dc.identifier.urihttp://hdl.handle.net/11343/256973
dc.description.abstractMethylation in the human genome is known to be associated with development and disease. The Illumina Infinium methylation arrays are by far the most common way to interrogate methylation across the human genome. This paper provides a Bioconductor workflow using multiple packages for the analysis of methylation array data. Specifically, we demonstrate the steps involved in a typical differential methylation analysis pipeline including: quality control, filtering, normalization, data exploration and statistical testing for probe-wise differential methylation. We further outline other analyses such as differential methylation of regions, differential variability analysis, estimating cell type composition and gene ontology testing. Finally, we provide some examples of how to visualise methylation array data.
dc.languageeng
dc.publisherF1000 Research Ltd
dc.rights.urihttps://creativecommons.org/licenses/by/4.0
dc.titleA cross-package Bioconductor workflow for analysing methylation array data.
dc.typeJournal Article
dc.identifier.doi10.12688/f1000research.8839.3
melbourne.affiliation.departmentSchool of Physics
melbourne.affiliation.departmentPaediatrics (RCH)
melbourne.source.titleF1000Research
melbourne.source.volume5
melbourne.source.pages1281-
dc.rights.licenseCC BY
melbourne.elementsid1234909
melbourne.openaccess.pmchttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC4916993
melbourne.contributor.authorOshlack, Alicia
melbourne.contributor.authorMaksimovic, Jovana
melbourne.contributor.authorPhipson, Belinda
dc.identifier.eissn2046-1402
melbourne.accessrightsOpen Access


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