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PICS: Probabilistic Inference for ChIP-seq.

• Authors : Xuekui Zhang¹; Robertson, Gordon²; Krzywinski, Martin²

• Source: Biometrics. Mar2011, Vol. 67 Issue 1, p151-163. 13p. 2 Diagrams, 2 Charts, 4 Graphs.

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Rapid innovation in ChIP-seq peak-calling algorithms is outdistancing benchmarking efforts.

• Authors : Szalkowski, Adam M.; Schmid, Christoph D.

• Source: Briefings in Bioinformatics. Nov2011, Vol. 12 Issue 6, p626-633. 8p.

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ChIP-Seq: technical considerations for obtaining high-quality data.

• Authors : Kidder, Benjamin L¹; Hu, Gangqing¹; Zhao, Keji¹

• Source: Nature Immunology. Oct2011, Vol. 12 Issue 10, p918-922. 5p.

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Comparison of Four ChIP-Seq Analytical Algorithms Using Rice Endosperm H3K27 Trimethylation Profiling Data.

• Authors : Malone, Brandon M.^1,2; Feng Tan³; Bridges, Susan M.^1,2

• Source: PLoS ONE. 2011, Vol. 6 Issue 9, p1-12. 12p.

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Discovering Transcription Factor Binding Sites in Highly Repetitive Regions of Genomes with Multi-Read Analysis of ChIP-Seq Data.

• Authors : Chung, Dongjun^1,2; Kuan, Pei Fen³; Li, Bo⁴

• Source: PLoS Computational Biology. Jul2011, Vol. 7 Issue 7, p1-17. 17p. 2 Charts, 7 Graphs.

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An Integrated Pipeline for the Genome-Wide Analysis of Transcription Factor Binding Sites from ChIP-Seq.

• Authors : Mercier, Eloi¹; Droit, Arnaud^1,2; Leping Li³

• Source: PLoS ONE. 2011, Vol. 6 Issue 2, p1-11. 11p.

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Pinpointing transcription factor binding sites from ChIP-seq data with SeqSite.

• Authors : Xi Wang^1,2; Xuegong Zhang¹

• Source: BMC Systems Biology. 2011 Supplement 2, Vol. 5 Issue Suppl 2, p1-14. 14p. 1 Chart, 6 Graphs.

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Searching ChIP-seq genomic islands for combinatorial regulatory codes in mouse embryonic stem cells.

• Source: BMC Genomics. 2011 Supplement 2, Vol. 12 Issue Suppl 2, p515-532. 18p.

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ChIPseqR: analysis of ChIP-seq experiments.

• Authors : Humburg, Peter^1,2,3 ; Helliwell, Chris A.⁴; Bulger, David¹

• Source: BMC Bioinformatics. 2011, Vol. 12 Issue 1, p39-55. 17p.

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Shape-based peak identification for ChIP-Seq.

• Authors : Hower, Valerie¹ ; Evans, Steven N.^1,2; Pachter, Lior^1,3

• Source: BMC Bioinformatics. 2011, Vol. 12 Issue 1, p1-9. 9p. 1 Diagram, 4 Charts, 3 Graphs.

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