Model based approaches to array CGH data analysis

SP Shah - 2008 - open.library.ubc.ca
DNA copy number alterations (CNAs) are genetic changes that can produce adverse effects
in numerous human diseases, including cancer. CNAs are segments of DNA that have been …

Flexible and accurate detection of genomic copy-number changes from aCGH

OM Rueda, R Díaz-Uriarte - PLoS Computational Biology, 2007 - journals.plos.org
Genomic DNA copy-number alterations (CNAs) are associated with complex diseases,
including cancer: CNAs are indeed related to tumoral grade, metastasis, and patient …

Modeling recurrent DNA copy number alterations in array CGH data

SP Shah, WL Lam, RT Ng, KP Murphy - Bioinformatics, 2007 - academic.oup.com
Motivation: Recurrent DNA copy number alterations (CNA) measured with array comparative
genomic hybridization (aCGH) reveal important molecular features of human genetics and …

Integrating copy number polymorphisms into array CGH analysis using a robust HMM

SP Shah, X Xuan, RJ DeLeeuw, M Khojasteh… - …, 2006 - academic.oup.com
Motivation: Array comparative genomic hybridization (aCGH) is a pervasive technique used
to identify chromosomal aberrations in human diseases, including cancer. Aberrations are …

Signal extraction and breakpoint identification for array CGH data using robust state space model

B Zhu, JMG Taylor, PXK Song - arXiv preprint arXiv:1201.5169, 2012 - arxiv.org
Array comparative genomic hybridization (CGH) is a high resolution technique to assess
DNA copy number variation. Identifying breakpoints where copy number changes will …

Hidden markov model inference copy number change in array-CGH data

Y Zhang - 2005 - dspace.mit.edu
Cancer development and progression typically features genomic instability frequently
resulting in genomic changes involving DNA copy number gains or losses. Identifying the …

A statistical change point model approach for the detection of DNA copy number variations in array CGH data

J Chen, YP Wang - IEEE/ACM Transactions on Computational …, 2008 - ieeexplore.ieee.org
Array comparative genomic hybridization (aCGH) provides a high-resolution and high-
throughput technique for screening of copy number variations (CNVs) within the entire …

A statistical approach for array CGH data analysis

F Picard, S Robin, M Lavielle, C Vaisse, JJ Daudin - BMC bioinformatics, 2005 - Springer
Background Microarray-CGH experiments are used to detect and map chromosomal
imbalances, by hybridizing targets of genomic DNA from a test and a reference sample to …

Detecting copy number variations from array CGH data based on a conditional random field model

XL Yin, J Li - Journal of bioinformatics and computational biology, 2010 - World Scientific
Array comparative genomic hybridization (aCGH) allows identification of copy number
alterations across genomes. The key computational challenge in analyzing copy number …

Combfit: a normalization method for array CGH data

S Oba, N Tomioka, M Ohira, S Ishii - IPSJ Digital Courier, 2006 - jstage.jst.go.jp
The recently developed array-based comparative genomic hybridization (array CGH)
technique measures DNA copy number aberrations that occur as causes or consequences …