@article{Robinson01122012,
author = {Robinson, Mark D. and Strbenac, Dario and Stirzaker, Clare and Statham, Aaron L. and Song, Jenny and Speed, Terence P. and Clark, Susan J.}, 
title = {Copy-number-aware differential analysis of quantitative DNA sequencing data},
volume = {22}, 
number = {12}, 
pages = {2489-2496}, 
year = {2012}, 
doi = {10.1101/gr.139055.112}, 
abstract ={Developments in microarray and high-throughput sequencing (HTS) technologies have resulted in a rapid expansion of research into epigenomic changes that occur in normal development and in the progression of disease, such as cancer. Not surprisingly, copy number variation (CNV) has a direct effect on HTS read densities and can therefore bias differential detection results. We have developed a flexible approach called ABCD-DNA (affinity-based copy-number-aware differential quantitative DNA sequencing analyses) that integrates CNV and other systematic factors directly into the differential enrichment engine.}, 
URL = {http://genome.cshlp.org/content/22/12/2489.abstract}, 
eprint = {http://genome.cshlp.org/content/22/12/2489.full.pdf+html}, 
journal = {Genome Research} 
}