Feber, A, Guilhamon, P, Lechner, M, Fenton, TR, Wilson, GA, Thirlwell, C, Morris, TJ, Flanagan, AM, Teschendorff, AE, Kelly, JD, and others. (2014) Using high-density DNA methylation arrays to profile copy number alterations. Genome Biology, 15 (2). ISSN 1474-760X. (doi:10.1186/gb-2014-15-2-r30) (KAR id:61509)
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Language: English 
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| Official URL: http://dx.doi.org/10.1186/gb-2014-15-2-r30 |
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Abstract
The integration of genomic and epigenomic data is an increasingly popular approach for studying the complex mechanisms driving cancer development. We have developed a method for evaluating both methylation and copy number from high-density DNA methylation arrays. Comparing copy number data from Infinium HumanMethylation450 BeadChips and SNP arrays, we demonstrate that Infinium arrays detect copy number alterations with the sensitivity of SNP platforms. These results show that high-density methylation arrays provide a robust and economic platform for detecting copy number and methylation changes in a single experiment. Our method is available in the ChAMP Bioconductor package: http://www.bioconductor.org/packages/2.13/bioc/html/ChAMP.html.
| Item Type: | Article |
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| DOI/Identification number: | 10.1186/gb-2014-15-2-r30 |
| Additional information: | © 2014 Feber et al.; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
| Uncontrolled keywords: | Algorithms, DNA Copy Number Variations, DNA Methylation, Genome, Human, Humans, Oligonucleotide Array Sequence Analysis, Polymorphism, Single Nucleotide, Software |
| Divisions: | Divisions > Division of Natural Sciences > Biosciences |
| Depositing User: | Tim Fenton |
| Date Deposited: | 25 Apr 2017 07:34 UTC |
| Last Modified: | 05 Nov 2024 10:55 UTC |
| Resource URI: | https://kar.kent.ac.uk/id/eprint/61509 (The current URI for this page, for reference purposes) |
University of Kent Author Information
Fenton, TR.
| Creator's ORCID: |
 https://orcid.org/0000-0002-4737-8233
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