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

Author:
  • Björn Nilsson
  • Mikael Johansson
  • Anders Heyden
  • Sven Nelander
  • Thoas Fioretos
Publishing year: 2008
Language: English
Publication/Series: Genome Biology
Volume: 9
Issue: 1
Document type: Journal article
Publisher: BioMed Central

Abstract english

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.

Keywords

  • Medical Genetics

Other

Published
  • Hematogenomics
  • ISSN: 1474-7596
Thoas Fioretos
E-mail: thoas.fioretos [at] med.lu.se

Principal investigator

Division of Clinical Genetics

+46 46 222 45 95

+46 70 334 33 67

BMC C13

66