Model-based analysis of two-color arrays (MA2C)
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* Corresponding author: X Shirley Liu xsliu@jimmy.harvard.edu
- † Equal contributors
Genome Biology 2007, 8:R178 doi:10.1186/gb-2007-8-8-r178
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Cited by
BioMed Central: 8 citations
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Research article
An evaluation of two-channel ChIP-on-chip and DNA methylation microarray normalization strategies. Michiel E Adriaens, Magali Jaillard, Lars MT Eijssen, Claus-Dieter Mayer, Chris TA Evelo BMC Genomics 2012, 13:42 (25 January 2012) |
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Software
Cistrome: an integrative platform for transcriptional regulation studies Tao Liu, Jorge A Ortiz, Len Taing, Clifford A Meyer, Bernett Lee, Yong Zhang, Hyunjin Shin, Swee S Wong, Jian Ma, Ying Lei, Utz J Pape, Michael Poidinger, Yiwen Chen, Kevin Yeung, Myles Brown, Yaron Turpaz, X Shirley Liu Genome Biology 2011, 12:R83 (22 August 2011) A Galaxy-based web application for integrative analysis of ChIP data
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Method
Modeling non-uniformity in short-read rates in RNA-Seq data Jun Li, Hui Jiang, Wing Wong Genome Biology 2010, 11:R50 (11 May 2010) Methods for modeling read counts from short read RNA-seq data. |
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Method
Desmond S Lun, Ashley Sherrid, Brian Weiner, David R Sherman, James E Galagan Genome Biology 2009, 10:R142 (22 December 2009) CSdeconv is a novel method for determining the location of transcription factor binding from ChIP-seq data that discriminates closely-spaced sites. |
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Methodology article
Comparison of sequence-dependent tiling array normalization approaches Ho-Ryun Chung, Martin Vingron BMC Bioinformatics 2009, 10:204 (30 June 2009) |
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Methodology article
Improved ChIP-chip analysis by a mixture model approach Wei Sun, Michael J Buck, Mukund Patel, Ian J Davis BMC Bioinformatics 2009, 10:173 (7 June 2009) |
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Research article
Probe signal correction for differential methylation hybridization experiments Dustin P Potter, Pearlly Yan, Tim HM Huang, Shili Lin BMC Bioinformatics 2008, 9:453 (23 October 2008) |
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Method
Model-based Analysis of ChIP-Seq (MACS) Yong Zhang, Tao Liu, Clifford A Meyer, Jérôme Eeckhoute, David S Johnson, Bradley E Bernstein, Chad Nusbaum, Richard M Myers, Myles Brown, Wei Li, X Shirley Liu Genome Biology 2008, 9:R137 (17 September 2008) MACS performs model-based analysis of ChIP-Seq data generated by short read sequencers. |