1. Landscaping Plant Epigenetics
Peter C. McKeown and Charles Spillane
2. The Gene Balance Hypothesis: Dosage Effects in Plants
James A. Birchler and Reiner A. Veitia
3. High-throughput RNA-Seq for Allelic or Locus-specific Expression Analysis in Arabidopsis Related Species, Hybrids, and Allotetraploids
Danny W-K. Ng, Xiaoli Shi, Gyoungju Nah, and Z. Jeffrey Chen
4. Inference of Allele-specific Expression from RNA-seq Data
Paul K. Korir and Cathal Seoighe
5. Screening for Imprinted Genes using High Resolution Melting Analysis of PCR Amplicons
Robert Day and Richard Macknight
6. Analysis of Genomic Imprinting by Quantitative Allele-specific Expression by Pyrosequencing(R)
Peter C. McKeown, Antoine Fort, and Charles Spillane
7. Endosperm-specific Chromatin Profiling by Fluorescence-activated Nuclei Sorting and Chip-on-chip
Isabelle Weinhofer and Claudia Köhler
8. Imaging Sexual Reproduction in Arabidopsis using Fluorescent Markers
Mathieu Ingouff
9. Genome-wide Analysis of DNA Methylation in Arabidopsis using MeDIP-chip
Sandra Cortijo, René Wardenaar, Maria Colomé-Tatché, Frank Johannes, and Vincent Colot
10. Methylation-Sensitive Amplified Polymorphism (MSAP) Marker to Investigate Drought-stress Response in Montepulciano and Sangiovese Grape Cultivars
Emidio Albertini and Gianpiero Marconi
11. Detecting Histone Modifications in Plants
Jie Song, Bas Rutjens, and Caroline Dean
12. Quantitatively Profiling Genome-wide Patterns of Histone Modifications in Arabidopsis thaliana using ChIP-seq
Chongyuan Luo and Eric Lam
13. Analysis of Retrotransposon Activity in Plants
Christopher DeFraia and R. Keith Slotkin
14. Detecting Epigenetic Effects of Transposable Elements in Plants
Christian Parisod, Armel Salmon, Malika Ainouche, and Marie-Angèle Grandbastien
15. Detection and Investigation of Transitive Gene Silencing Effects in Plants
Leen Vermeersch, Nancy De Winne, and Ann Depicker
