CopyNumber450kCancer: baseline correction for accurate copy number calling from the 450k methylation array

CopyNumber450kCancer : baseline correction for accurate copy number calling from the 450k methylation array

Bäcklin, Christofer L. (author): Uppsala universitet,Molekylär medicin,Cancerfarmakologi och beräkningsmedicin

(creator_code:org_t)

2015-11-09
2016
English.
In: Bioinformatics. - : Oxford University Press (OUP). - 1367-4803 .- 1367-4811. ; 32:7, s. 1080-1082

Related links:: https://uu.diva-port... (primary) (Raw object); show more...; https://academic.oup...; https://urn.kb.se/re...; https://doi.org/10.1...; show less...

Abstract Subject headings

The Illumina Infinium HumanMethylation450 BeadChip (450k) is widely used for the evaluation of DNA methylation levels in large-scale datasets, particularly in cancer. The 450k design allows copy number variant (CNV) calling using existing bioinformatics tools. However, in cancer samples, numerous large-scale aberrations cause shifting in the probe intensities and thereby may result in erroneous CNV calling. Therefore, a baseline correction process is needed. We suggest the maximum peak of probe segment density to correct the shift in the intensities in cancer samples.

By the author/editor: Marzouka, Nour-a ...; Nordlund, Jessic ...; Bäcklin, Christo ...; Lönnerholm, Gudm ...; Syvänen, Ann-Chr ...; Almlöf, Jonas Ca ...

About the subject

MEDICAL AND HEALTH SCIENCES: MEDICAL AND HEAL ...; and Medical Biotechn ...; and Medical Biotechn ...

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