Chromatin architectures at fission yeast transcriptional promoters and replication origins

ArchTEx: accurate extraction and visualization of next-generation sequence data

(2012) William K. M. Lai et al.   BIOINFORMATICS

Nucleosomal organization of replication origins and meiotic recombination hotspots in fission yeast

(2011) Elisa de Castro et al.   EMBO JOURNAL

Tup1 stabilizes promoter nucleosome positioning and occupancy at transcriptionally plastic genes

(2011) Jason M. Rizzo et al.   NUCLEIC ACIDS RESEARCH

ArchAlign: Coordinate-free chromatin alignment reveals novel architectures

(2011) William Lai et al.   GENOME BIOLOGY

Eukaryotic Chromosome DNA Replication: Where, When, and How?

(2010) Hisao Masai et al.   Annual Review of Biochemistry

Topoisomerase I regulates open chromatin and controls gene expression in vivo

(2010) Mickaël Durand-Dubief et al.   EMBO JOURNAL

Conserved nucleosome positioning defines replication origins

(2010) M. L. Eaton et al.   GENES & DEVELOPMENT

Schizosaccharomyces pombe genome-wide nucleosome mapping reveals positioning mechanisms distinct from those of Saccharomyces cerevisiae

(2010) Alexandra B Lantermann et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Pre-replication complex proteins assemble at regions of low nucleosome occupancy within the Chinese hamster dihydrofolate reductase initiation zone

(2010) Yoav Lubelsky et al.   NUCLEIC ACIDS RESEARCH

Chromatin Higher-order Structure and Dynamics

(2010) C. L. Woodcock et al.   Cold Spring Harbor Perspectives in Biology

Diversity of Eukaryotic DNA Replication Origins Revealed by Genome-Wide Analysis of Chromatin Structure

(2010) Nicolas M. Berbenetz et al.   PLoS Genetics

Contribution of histone sequence preferences to nucleosome organization: proposed definitions and methodology

(2010) Noam Kaplan et al.   GENOME BIOLOGY

High-resolution nucleosome mapping reveals transcription-dependent promoter packaging

(2009) A. Weiner et al.   GENOME RESEARCH

Drosophila ORC localizes to open chromatin and marks sites of cohesin complex loading

(2009) H. K. MacAlpine et al.   GENOME RESEARCH

Genome-wide mapping of nucleosome positions in Schizosaccharomyces pombe

(2009) Alexandra Lantermann et al.   METHODS

Nucleosome positioning and gene regulation: advances through genomics

(2009) Cizhong Jiang et al.   NATURE REVIEWS GENETICS

The Schizosaccharomyces pombe JmjC-Protein, Msc1, Prevents H2A.Z Localization in Centromeric and Subtelomeric Chromatin Domains

(2009) Luke Buchanan et al.   PLoS Genetics

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Histones: Annotating Chromatin

(2008) Eric I. Campos et al.   Annual Review of Genetics

A high-resolution map of nucleosome positioning on a fission yeast centromere

(2008) J. S. Song et al.   GENOME RESEARCH

Analysis of Chromosome III Replicators Reveals an Unusual Structure for the ARS318 Silencer Origin and a Conserved WTW Sequence within the Origin Recognition Complex Binding Site

(2008) F. Chang et al.   MOLECULAR AND CELLULAR BIOLOGY

The DNA-encoded nucleosome organization of a eukaryotic genome

(2008) Noam Kaplan et al.   NATURE

Dynamic Remodeling of Individual Nucleosomes Across a Eukaryotic Genome in Response to Transcriptional Perturbation

(2008) Sushma Shivaswamy et al.   PLOS BIOLOGY

Distinct Modes of Regulation by Chromatin Encoded through Nucleosome Positioning Signals

(2008) Yair Field et al.   PLoS Computational Biology