MeDIP-HMM: genome-wide identification of distinct DNA methylation states from high-density tiling arrays

Heritable genome-wide variation of gene expression and promoter methylation between wild and domesticated chickens

(2012) Daniel Nätt et al.   BMC GENOMICS

Parsimonious Higher-Order Hidden Markov Models for Improved Array-CGH Analysis with Applications to Arabidopsis thaliana

(2012) Michael Seifert et al.   PLoS Computational Biology

Genomic Imprinting: A Mammalian Epigenetic Discovery Model

(2011) Denise P. Barlow   Annual Review of Genetics

Exploiting prior knowledge and gene distances in the analysis of tumor expression profiles with extended Hidden Markov Models

(2011) Michael Seifert et al.   BIOINFORMATICS

Gene silencing in X-chromosome inactivation: advances in understanding facultative heterochromatin formation

(2011) Anton Wutz   NATURE REVIEWS GENETICS

Genome-wide evidence for local DNA methylation spreading from small RNA-targeted sequences in Arabidopsis

(2011) Ikhlak Ahmed et al.   NUCLEIC ACIDS RESEARCH

Additive inheritance of histone modifications in Arabidopsis thaliana intra-specific hybrids

(2011) Ali M. Banaei Moghaddam et al.   PLANT JOURNAL

DNA Methylation: A Timeline of Methods and Applications

(2011) Alan Harrison et al.   Frontiers in Genetics

Comparing genome-wide chromatin profiles using ChIP-chip or ChIP-seq

(2010) Frank Johannes et al.   BIOINFORMATICS

Repeat elements and the Arabidopsis DNA methylation landscape

(2010) F K Teixeira et al.   HEREDITY

Targets and dynamics of promoter DNA methylation during early mouse development

(2010) Julie Borgel et al.   NATURE GENETICS

Establishing, maintaining and modifying DNA methylation patterns in plants and animals

(2010) Julie A. Law et al.   NATURE REVIEWS GENETICS

Utilizing gene pair orientations for HMM-based analysis of promoter array ChIP-chip data

(2009) M. Seifert et al.   BIOINFORMATICS

A New Data Mining Approach for the Detection of Bacterial Promoters Combining Stochastic and Combinatorial Methods

(2009) Catherine Eng et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Human DNA methylomes at base resolution show widespread epigenomic differences

(2009) Ryan Lister et al.   NATURE

ChIPmix: mixture model of regressions for two-color ChIP-chip analysis

(2008) M.-L. Martin-Magniette et al.   BIOINFORMATICS

Parameter estimation for robust HMM analysis of ChIP-chip data

(2008) Peter Humburg et al.   BMC BIOINFORMATICS

Highly Integrated Single-Base Resolution Maps of the Epigenome in Arabidopsis

(2008) Ryan Lister et al.   CELL

Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks

(2008) Daniel Zilberman et al.   NATURE

Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning

(2008) Shawn J. Cokus et al.   NATURE

Genome-Wide Association of Histone H3 Lysine Nine Methylation with CHG DNA Methylation in Arabidopsis thaliana

(2008) Yana V. Bernatavichute et al.   PLoS One

The methylome: approaches for global DNA methylation profiling

(2008) Stephan Beck et al.   TRENDS IN GENETICS