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

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 [I...

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Detalles Bibliográficos
Autores principales: Rippe, Ralph C. A., Meulman, Jacqueline J., Eilers, Paul H. C.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2012
Materias:
Research Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3367998/
https://www.ncbi.nlm.nih.gov/pubmed/22679492
http://dx.doi.org/10.1371/journal.pone.0038230
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author Rippe, Ralph C. A.
Meulman, Jacqueline J.
Eilers, Paul H. C.
author_facet Rippe, Ralph C. A.
Meulman, Jacqueline J.
Eilers, Paul H. C.
author_sort Rippe, Ralph C. A.
collection PubMed
description 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 [Image: see text] norm of differences of neighboring values. Visualization is our main goal, but we compare classification performance to that of VEGA.
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spelling pubmed-33679982012-06-07 Visualization of Genomic Changes by Segmented Smoothing Using an L (0) Penalty Rippe, Ralph C. A. Meulman, Jacqueline J. Eilers, Paul H. C. PLoS One Research Article 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 [Image: see text] norm of differences of neighboring values. Visualization is our main goal, but we compare classification performance to that of VEGA. Public Library of Science 2012-06-05 /pmc/articles/PMC3367998/ /pubmed/22679492 http://dx.doi.org/10.1371/journal.pone.0038230 Text en Rippe et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
spellingShingle Research Article
Rippe, Ralph C. A.
Meulman, Jacqueline J.
Eilers, Paul H. C.
Visualization of Genomic Changes by Segmented Smoothing Using an L (0) Penalty
title Visualization of Genomic Changes by Segmented Smoothing Using an L (0) Penalty
title_full Visualization of Genomic Changes by Segmented Smoothing Using an L (0) Penalty
title_fullStr Visualization of Genomic Changes by Segmented Smoothing Using an L (0) Penalty
title_full_unstemmed Visualization of Genomic Changes by Segmented Smoothing Using an L (0) Penalty
title_short Visualization of Genomic Changes by Segmented Smoothing Using an L (0) Penalty
title_sort visualization of genomic changes by segmented smoothing using an l (0) penalty
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3367998/
https://www.ncbi.nlm.nih.gov/pubmed/22679492
http://dx.doi.org/10.1371/journal.pone.0038230
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