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Detrended fluctuation analysis of genome-wide
copy number profiles of glioblastomas using array-based comparative genomic
hybridization
Yukiko Nakahara, Tetsuya Shiraishi, Hiroaki Okamoto, Toshihiro Mineta,
Tsuyoshi Oishi, Kohsuke Sasaki, Kazuo Tabuchi
Department of
Neurosurgery, Faculty of Medicine, Saga University, Saga 849-8501 (Y.N., T.S.,
H.O., T.M., T.O., K.T.); Department of Pathology, Yamaguchi University School of
Medicine, Ube 755-8505 (K.S.); Japan
We examined whole genomic aberrations of biopsied samples from 19 independent
glioblastomas by array-based comparative genomic hybridization analysis.
The highest frequencies of copy number gains were observed on RFC2
(73.3%), EGFR (63.2%), and FGR, ELN, CDKN1C , FES,
TOP2A, and ARSA (57.9% each).
The highest frequencies of copy number losses were detected on TBR1
(52.6%), BMI1 (52.6%), EGR2 (47.4%), DMBT1 (47.4%), MTAP
(42.1%), and FGFR2 (42.1%).
The copy number gains of CDKN1C and INS and the copy number losses
of TBR1 were significantly correlated with longer survival of
patients.
High-level amplifications were identified on EGFR, SAS/CDK4, PDGFRA,
MDM2, and ARSA.
These genes are assumed to be involved in tumorigenesis or progression of
glioblastomas.
The first attempts to apply detrended fluctuation analysis to copy number
profiles by considering the reading direction as the time axis demonstrated that
higher long-term fractal scaling exponents (α2) correlated well with longer
survival of glioblastoma patients.
The present study indicates that array-based comparative genomic hybridization
analysis has great potential for assessment of copy number changes and altered
chromosomal regions of brain tumors.
Furthermore, we show that nonlinear analysis methods of whole genome copy number
profiles may provide prognostic information about glioblastoma patients.
© 2004 Duke University Press
Source: http://lysander.ingentaselect.com/cgi-bin/linker?ini=dup_no&reqidx=/cw/dup/15228517/v6n4/s3/p281
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