Part I: OverView
1. A Brief Introduction to Tiling Microarrays: Principles, Concepts, and Applications
Christophe Lemetre and Zhengdong D. Zhang
Part II: Transcriptional Regulation and Expression
2. Design of Tiling Arrays and their Application to Bacterial Transcriptome Analysis
Takeshi Akama, Kazuaki Nakamura, Akito Tanoue, and Koichi Suzuki
3. Transcript Profiling in Arabidopsis with Genome Tiling Microarrays
Diana Coman, Wilhelm Gruissem, and Lars Hennig
4. Genome-wide Analysis of Transcription Factor Binding Sites in Skeletal Muscle Cells using ChIP-seq
Chung-Il An and Nobuko Hagiwara
5. Analysis of Allele-Specific Gene Expression Using a Target-Oriented Tiling Microarray Assay
Huiyong Zhang, Xing-Wang Deng, and Lei Li
Part III: Genetics and Epigenetics Regulation
6. Detection of Epigenetic Alterations Using Tiling Arrays
Hoi-Hung Cheung and Owen M Rennert
7. Investigating Gene Promoter Methylation in a Mouse Model of Status Epilepticus
Suzanne F. C. Miller-Delaney, Sudipto Das, Raymond L. Stallings, and David C. Henshall
Part IV: Data Analysis
8. Integrative Analysis of ChIP-chip and ChIP-seq Dataset
Lihua Julie Zhu
9. HAT: A Novel Statistical Approach to Discover Functional Regions in the Genome
Erdogan Taskesen, Bas Wouters, and Ruud Delwel
10. Inference of Alternative Splicing from Tiling Array Data
Johannes Eichner
11. Analysis of
in vivo Occupancy of Aebp1, a Transcription Factor, using High Resolution Tiling Array
Swati Sinha, Sainitin Donakonda, and Satyanarayana MR Rao
12. Application of the Simple and Efficient MPeak Modeling in Binding Peak Identification in CHIP-CHIP Studies
Ming Zheng, Yunmin Li, and Yun-Fai Chris Lau
13. Evaluation of MeDIP-chip in the Context of Whole Genome Bisulphite Sequencing (WGBS-seq) in Arabidopsis
Rene Wardenaar, Haiyin Liu, Vincent Colot, Maria Colome-Tatche, Frank Johannes
14. Mapping Genomic Features of Tiling Microarray Data by TileMapper
Hoi-Hung Cheung, Janek Claus, Sumeeta Singh, Chandan Sastry, Owen M Rennert, Wai-Yee Chan, Tin-Lap Lee
