Chromosome conformation maps in fission yeast reveal cell cycle dependent sub nuclear structure

Transcription Factories: Genome Organization and Gene Regulation

(2013) Argyris Papantonis et al.   CHEMICAL REVIEWS

The pluripotent genome in three dimensions is shaped around pluripotency factors

(2013) Elzo de Wit et al.   NATURE

Functional implications of genome topology

(2013) Giacomo Cavalli et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Genome conformation capture reveals that the Escherichia coli chromosome is organized by replication and transcription

(2013) Cedric Cagliero et al.   NUCLEIC ACIDS RESEARCH

Organization of the Mitotic Chromosome

(2013) N. Naumova et al.   SCIENCE

Mitotic bookmarking by transcription factors

(2013) Stephan Kadauke et al.   Epigenetics & Chromatin

Three-Dimensional Folding and Functional Organization Principles of the Drosophila Genome

(2012) Tom Sexton et al.   CELL

A Predictive Computational Model of the Dynamic 3D Interphase Yeast Nucleus

(2012) Hua Wong et al.   CURRENT BIOLOGY

Pluripotency in 3D: genome organization in pluripotent cells

(2012) Matthew Denholtz et al.   CURRENT OPINION IN CELL BIOLOGY

DNA replication through hard-to-replicate sites, including both highly transcribed RNA Pol II and Pol III genes, requires the S. pombe Pfh1 helicase

(2012) N. Sabouri et al.   GENES & DEVELOPMENT

Physical tethering and volume exclusion determine higher-order genome organization in budding yeast

(2012) H. Tjong et al.   GENOME RESEARCH

CENP-B Cooperates with Set1 in Bidirectional Transcriptional Silencing and Genome Organization of Retrotransposons

(2012) D. R. Lorenz et al.   MOLECULAR AND CELLULAR BIOLOGY

Epigenetic Regulation of Condensin-Mediated Genome Organization during the Cell Cycle and upon DNA Damage through Histone H3 Lysine 56 Acetylation

(2012) Atsunari Tanaka et al.   MOLECULAR CELL

The long-range interaction landscape of gene promoters

(2012) Amartya Sanyal et al.   NATURE

Topological domains in mammalian genomes identified by analysis of chromatin interactions

(2012) Jesse R. Dixon et al.   NATURE

Spatial partitioning of the regulatory landscape of the X-inactivation centre

(2012) Elphège P. Nora et al.   NATURE

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Chromosome positioning and the clustering of functionally related loci in yeast is driven by chromosomal interactions

(2012) Lutz R. Gehlen et al.   Nucleus

Gene bookmarking accelerates the kinetics of post-mitotic transcriptional re-activation

(2011) Rui Zhao et al.   NATURE CELL BIOLOGY

Advancing our understanding of functional genome organisation through studies in the fission yeast

(2010) Ida Olsson et al.   CURRENT GENETICS

Chromatin structure: does the 30-nm fibre exist in vivo?

(2010) Kazuhiro Maeshima et al.   CURRENT OPINION IN CELL BIOLOGY

Building mitotic chromosomes

(2010) Shinya Ohta et al.   CURRENT OPINION IN CELL BIOLOGY

Molecular Maps of the Reorganization of Genome-Nuclear Lamina Interactions during Differentiation

(2010) Daan Peric-Hupkes et al.   MOLECULAR CELL

Driving the cell cycle with a minimal CDK control network

(2010) Damien Coudreuse et al.   NATURE

Mapping of long-range associations throughout the fission yeast genome reveals global genome organization linked to transcriptional regulation

(2010) Hideki Tanizawa et al.   NUCLEIC ACIDS RESEARCH

Condensed Mitotic Chromosome Structure at Nanometer Resolution Using PALM and EGFP- Histones

(2010) Atsushi Matsuda et al.   PLoS One

Activation of Estrogen-Responsive Genes Does Not Require Their Nuclear Co-Localization

(2010) Silvia Kocanova et al.   PLoS Genetics

Transcriptional memory at the nuclear periphery

(2009) Jason H Brickner   CURRENT OPINION IN CELL BIOLOGY

Global identification of yeast chromosome interactions using Genome conformation capture

(2009) C.D.M. Rodley et al.   FUNGAL GENETICS AND BIOLOGY

A physiological role for gene loops in yeast

(2009) Jean-Philippe Lainé et al.   GENES & DEVELOPMENT

Gene loops function to maintain transcriptional memory through interaction with the nuclear pore complex

(2009) Sue Mei Tan-Wong et al.   GENES & DEVELOPMENT

Centromeric Localization of Dispersed Pol III Genes in Fission Yeast

(2009) Osamu Iwasaki et al.   MOLECULAR BIOLOGY OF THE CELL

Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells

(2009) Stefan Schoenfelder et al.   NATURE GENETICS

Topological origins of chromosomal territories

(2009) Julien Dorier et al.   NUCLEIC ACIDS RESEARCH

Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome

(2009) E. Lieberman-Aiden et al.   SCIENCE

SOAP: short oligonucleotide alignment program

(2008) R. Li et al.   BIOINFORMATICS

Reorganization of chromatin is an early response to nitrogen starvation in Schizosaccharomyces pombe

(2008) Jenny Alfredsson-Timmins et al.   CHROMOSOMA

RNA Interference Guides Histone Modification during the S Phase of Chromosomal Replication

(2008) Anna Kloc et al.   CURRENT BIOLOGY

High-resolution statistical mapping reveals gene territories in live yeast

(2008) Axel B Berger et al.   NATURE METHODS

Structure and Dynamics of Interphase Chromosomes

(2008) Angelo Rosa et al.   PLoS Computational Biology

Recruitment to the Nuclear Periphery Can Alter Expression of Genes in Human Cells

(2008) Lee E. Finlan et al.   PLoS Genetics