ChIPOTle: a user-friendly tool for the analysis of ChIP-chip data
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* Corresponding author: Jason D Lieb jlieb@bio.unc.edu
Genome Biology 2005, 6:R97 doi:10.1186/gb-2005-6-11-r97
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BioMed Central: 6 citations
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Methodology article
Strategies for analyzing highly enriched IP-chip datasets Simon RV Knott, Christopher J Viggiani, Oscar M Aparicio, Simon Tavaré BMC Bioinformatics 2009, 10:305 (22 September 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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Method
Model-based analysis of two-color arrays (MA2C) Jun S Song, W Evan Johnson, Xiaopeng Zhu, Xinmin Zhang, Wei Li, Arjun K Manrai, Jun S Liu, Runsheng Chen, X Shirley Liu Genome Biology 2007, 8:R178 (29 August 2007) A normalization method based on probe GC content for two-color tiling arrays and an algorithm for detecting peak regions are presented. They are available in a stand-alone Java program. |
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Research
Alicia Alonso, Björn Fritz, Dan Hasson, György Abrusan, Fanny Cheung, Kinya Yoda, Bernhard Radlwimmer, Andreas G Ladurner, Peter E Warburton Genome Biology 2007, 8:R148 (25 July 2007) The distribution of centromeric chromatin-associated proteins across human neocentromeric DNA shows that this chromatin consists of several CENP-A-containing sub-domains. |
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Software
Ringo – an R/Bioconductor package for analyzing ChIP-chip readouts Joern Toedling, Oleg Sklyar, Wolfgang Huber BMC Bioinformatics 2007, 8:221 (26 June 2007) |
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Research article
Normalization and experimental design for ChIP-chip data Shouyong Peng, Artyom A Alekseyenko, Erica Larschan, Mitzi I Kuroda, Peter J Park BMC Bioinformatics 2007, 8:219 (25 June 2007) |