Three-dimensional modeling of chromatin structure from interaction frequency data using Markov chain Monte Carlo sampling

Chromatin conformation signatures: ideal human disease biomarkers?

(2010) Jennifer L Crutchley et al.   Biomarkers in Medicine

The three-dimensional folding of the α-globin gene domain reveals formation of chromatin globules

(2010) Davide Baù et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

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

ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing

(2010) Guoliang Li et al.   GENOME BIOLOGY

Global identification of yeast chromosome interactions using Genome conformation capture

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

A Model for all Genomes: The Role of Transcription Factories

(2009) Peter R. Cook   JOURNAL OF MOLECULAR BIOLOGY

Computational Methods for Evaluating Phylogenetic Models of Coding Sequence Evolution with Dependence between Codons

(2009) N. Rodrigue et al.   MOLECULAR BIOLOGY AND EVOLUTION

Chromosome crosstalk in three dimensions

(2009) Anita Göndör et al.   NATURE

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line

(2009) Harukazu Suzuki et al.   NATURE GENETICS

Spatially confined folding of chromatin in the interphase nucleus

(2009) J. Mateos-Langerak et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

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

Discovery and Annotation of Functional Chromatin Signatures in the Human Genome

(2009) Gary Hon et al.   PLoS Computational Biology

Chromatin conformation signatures of cellular differentiation

(2009) James Fraser et al.   GENOME BIOLOGY

Prediction of regulatory elements in mammalian genomes using chromatin signatures

(2008) Kyoung-Jae Won et al.   BMC BIOINFORMATICS

Eukaryotic gene regulation in three dimensions and its impact on genome evolution

(2008) M Madan Babu et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Nucleosome positioning in human HOX gene clusters

(2008) P. V. Kharchenko et al.   GENOME RESEARCH

A generative, probabilistic model of local protein structure

(2008) Wouter Boomsma et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

ChromaSig: A Probabilistic Approach to Finding Common Chromatin Signatures in the Human Genome

(2008) Gary Hon et al.   PLoS Computational Biology