An improved method for detecting and delineating genomic regions with altered gene expression in cancer

by: Bjorn Nilsson, Mikael Johansson, Anders Heyden, Sven Nelander, Thoas Fioretos

Genome Biology, Vol. 9, No. 1. (2008)

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Abstract

Genomic regions with altered gene expression are a characteristic feature of cancer cells. We present a novel method for identifying such regions in gene expression maps. This method is based on total variation (TV) minimization, a classical signal restoration technique. In systematic evaluations, we show that our method combines top-notch detection performance with an ability to delineate relevant regions without excessive over-segmentation, making it a significant advance over existing methods. Software -- Rendersome -- is provided.

@article{citeulike:2271639, abstract = {Genomic regions with altered gene expression are a characteristic feature of cancer cells. We present a novel method for identifying such regions in gene expression maps. This method is based on total variation (TV) minimization, a classical signal restoration technique. In systematic evaluations, we show that our method combines top-notch detection performance with an ability to delineate relevant regions without excessive over-segmentation, making it a significant advance over existing methods. Software -- Rendersome -- is provided.}, author = {Nilsson, Bjorn and Johansson, Mikael and Heyden, Anders and Nelander, Sven and Fioretos, Thoas }, citeulike-article-id = {2271639}, doi = {10.1186/gb-2008-9-1-r13}, journal = {Genome Biology}, keywords = {copy-number, gene\_expression, integration}, number = {1}, posted-at = {2008-07-17 14:18:14}, priority = {2}, title = {An improved method for detecting and delineating genomic regions with altered gene expression in cancer}, url = {http://dx.doi.org/10.1186/gb-2008-9-1-r13}, volume = {9}, year = {2008} }

RIS record

TY - JOUR ID - citeulike:2271639 L3 - citeulike-article-id:2271639 TI - An improved method for detecting and delineating genomic regions with altered gene expression in cancer JF - Genome Biology VL - 9 IS - 1 N2 - Genomic regions with altered gene expression are a characteristic feature of cancer cells. We present a novel method for identifying such regions in gene expression maps. This method is based on total variation (TV) minimization, a classical signal restoration technique. In systematic evaluations, we show that our method combines top-notch detection performance with an ability to delineate relevant regions without excessive over-segmentation, making it a significant advance over existing methods. Software -- Rendersome -- is provided. KW - copy-number KW - gene_expression KW - integration AU - Nilsson, Bjorn AU - Johansson, Mikael AU - Heyden, Anders AU - Nelander, Sven AU - Fioretos, Thoas PY - 2008/// UR - http://dx.doi.org/10.1186/gb-2008-9-1-r13 ER -

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