Visualization of Genomic Changes by Segmented Smoothing Using an L-0 Penalty

Ralph Rippe; JJ Meulman; Paul Eilers

doi:10.1371/journal.pone.0038230

Visualization of Genomic Changes by Segmented Smoothing Using an L-0 Penalty

Ralph Rippe, JJ Meulman, Paul Eilers

Epidemiology

Research output: Contribution to journal › Article › Academic › peer-review

28 Citations (Scopus)

12 Downloads (Pure)

Abstract

Copy number variations (CNV) and allelic imbalance in tumor tissue can show strong segmentation. Their graphical presentation can be enhanced by appropriate smoothing. Existing signal and scatterplot smoothers do not respect segmentation well. We present novel algorithms that use a penalty on the L-0 norm of differences of neighboring values. Visualization is our main goal, but we compare classification performance to that of VEGA.

Original language	Undefined/Unknown
Journal	PLoS One (print)
Volume	7
Issue number	6
DOIs	https://doi.org/10.1371/journal.pone.0038230
Publication status	Published - 2012

Research programs

EMC NIHES-01-66-01

Access to Document

10.1371/journal.pone.0038230

metis_181151_OA.pdfFinal published version, 2.9 MB

http://hdl.handle.net/1765/65060

Cite this

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