ChAMP: updated methylation analysis pipeline for Illumina BeadChips

The Illumina Infinium HumanMethylationEPIC BeadChip is the new platform for high-throughput DNA methylation analysis, effectively doubling the coverage compared to the older 450 K array. Here we present a significantly updated and improved version of the Bioconductor package ChAMP, which can be used...

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Veröffentlicht in:Bioinformatics (Oxford, England) Jg. 33; H. 24; S. 3982 - 3984
Hauptverfasser: Tian, Yuan, Morris, Tiffany J, Webster, Amy P, Yang, Zhen, Beck, Stephan, Feber, Andrew, Teschendorff, Andrew E
Format: Journal Article
Sprache:Englisch
Veröffentlicht: England Oxford University Press 15.12.2017
Schlagworte:
Applications Notes
DNA Methylation
Oligonucleotide Array Sequence Analysis - methods
Software
ISSN:1367-4803, 1367-4811, 1367-4811
Online-Zugang:Volltext
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Zusammenfassung:The Illumina Infinium HumanMethylationEPIC BeadChip is the new platform for high-throughput DNA methylation analysis, effectively doubling the coverage compared to the older 450 K array. Here we present a significantly updated and improved version of the Bioconductor package ChAMP, which can be used to analyze EPIC and 450k data. Many enhanced functionalities have been added, including correction for cell-type heterogeneity, network analysis and a series of interactive graphical user interfaces. ChAMP is a BioC package available from https://bioconductor.org/packages/release/bioc/html/ChAMP.html. a.teschendorff@ucl.ac.uk or s.beck@ucl.ac.uk or a.feber@ucl.ac.uk. Supplementary data are available at Bioinformatics online.
Bibliographie:ObjectType-Article-1
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ISSN:1367-4803
1367-4811
1367-4811
DOI:10.1093/bioinformatics/btx513