5. Pellegrini M, Ferrari R. Epigenetic analysis: ChIP-chip and ChIP-seq. Methods Mol Biol.
2012;802:377–87.
6. Langmead B, Trapnell C, Pop M, Salzberg SL. Ultrafast and memory-efficient alignment of short
DNA sequences to the human genome. Genome Biol. 2009;10(3):R25.
7. Boeva V, Popova T, Bleakley K, Chiche P, Cappo J, Schleiermacher G, et al. Control-FREEC: a
tool for assessing copy number and allelic content using next-generation sequencing data.
Bioinformatics. 2012;28(3):423–5.
8. Quinlan AR. BEDTools: the Swiss-army tool for genome feature analysis. Curr Protoc Bioinformatics. 2014;47:11–2. 1–34
9. Quinlan AR, Hall IM. BEDTools: a flexible suite of utilities for comparing genomic features.
Bioinformatics. 2010;26(6):841–2.
10. Kappelmann-Fenzl M, Gebhard C, Matthies AO, Kuphal S, Rehli M, Bosserhoff AK. C-Jun
drives melanoma progression in PTEN wild type melanoma cells. Cell Death Dis. 2019;10
(8):584.
11. Zambelli F, Pesole G, Pavesi G. Motif discovery and transcription factor binding sites before and
after the next-generation sequencing era. Brief Bioinform. 2013;14(2):225–37.
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M. Kappelmann-Fenzl