The 4D nucleome: Evidence for a dynamic nuclear landscape based on co-aligned active and inactive nuclear compartments

What is superresolution microscopy?

(2015) John Bechhoefer   AMERICAN JOURNAL OF PHYSICS

Super-resolution imaging for cell biologists

(2015) Eugenio F. Fornasiero et al.   BIOESSAYS

The Role of Chromosome Domains in Shaping the Functional Genome

(2015) Tom Sexton et al.   CELL

Nuclear lamins are not required for lamina-associated domain organization in mouse embryonic stem cells

(2015) M. Amendola et al.   EMBO REPORTS

The viscoelastic properties of chromatin and the nucleoplasm revealed by scale-dependent protein mobility

(2015) Fabian Erdel et al.   JOURNAL OF PHYSICS-CONDENSED MATTER

Remodeling of the Nuclear Envelope and Lamina during Bovine Preimplantation Development and Its Functional Implications

(2015) Jens Popken et al.   PLoS One

Multicolor CRISPR labeling of chromosomal loci in human cells

(2015) Hanhui Ma et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Eukaryogenesis, how special really?

(2015) Austin Booth et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Live cell immunogold labelling of RNA polymerase II

(2015) Igor Orlov et al.   Scientific Reports

The International Nucleome Consortium

(2015) Satoshi Tashiro et al.   Nucleus

The International Nucleome Consortium

(2015) Satoshi Tashiro et al.   Nucleus

Nuclear matrix and structural and functional compartmentalization of the eucaryotic cell nucleus

(2014) S. V. Razin et al.   BIOCHEMISTRY-MOSCOW

Better Imaging through Chemistry

(2014) Ernst H.K. Stelzer   CELL

Predictive Polymer Modeling Reveals Coupled Fluctuations in Chromosome Conformation and Transcription

(2014) Luca Giorgetti et al.   CELL

Stable C0T-1 Repeat RNA Is Abundant and Is Associated with Euchromatic Interphase Chromosomes

(2014) Lisa L. Hall et al.   CELL

A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping

(2014) Suhas S.P. Rao et al.   CELL

A requiem to the nuclear matrix: from a controversial concept to 3D organization of the nucleus

(2014) S. V. Razin et al.   CHROMOSOMA

Chromatin as dynamic 10-nm fibers

(2014) Kazuhiro Maeshima et al.   CHROMOSOMA

HSP70 Transgene Directed Motion to Nuclear Speckles Facilitates Heat Shock Activation

(2014) Nimish Khanna et al.   CURRENT BIOLOGY

Models of chromosome structure

(2014) Mario Nicodemi et al.   CURRENT OPINION IN CELL BIOLOGY

Mechanisms and dynamics of nuclear lamina–genome interactions

(2014) Mario Amendola et al.   CURRENT OPINION IN CELL BIOLOGY

Geometry of the nucleus: a perspective on gene expression regulation

(2014) Maxime Woringer et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Transcription in the context of the 3D nucleus

(2014) Kerstin S. Wendt et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Spatial genome organization: contrasting views from chromosome conformation capture and fluorescence in situ hybridization

(2014) Iain Williamson et al.   GENES & DEVELOPMENT

Recollections of a scientific journey published in human genetics: from chromosome territories to interphase cytogenetics and comparative genome hybridization

(2014) Thomas Cremer et al.   HUMAN GENETICS

Specificity, propagation, and memory of pericentric heterochromatin

(2014) K. Muller-Ott et al.   Molecular Systems Biology

Origins of major archaeal clades correspond to gene acquisitions from bacteria

(2014) Shijulal Nelson-Sathi et al.   NATURE

CTCF: an architectural protein bridging genome topology and function

(2014) Chin-Tong Ong et al.   NATURE REVIEWS GENETICS

Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre

(2014) Ezgi Hacisuleyman et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

From a melt of rings to chromosome territories: the role of topological constraints in genome folding

(2014) Jonathan D Halverson et al.   REPORTS ON PROGRESS IN PHYSICS

Chromatin decondensation is sufficient to alter nuclear organization in embryonic stem cells

(2014) Pierre Therizols et al.   SCIENCE

INO80 and SWR complexes: relating structure to function in chromatin remodeling

(2014) Christian B. Gerhold et al.   TRENDS IN CELL BIOLOGY

Multimodal nanoparticles as alignment and correlation markers in fluorescence/soft X-ray cryo-microscopy/tomography of nucleoplasmic reticulum and apoptosis in mammalian cells

(2014) Christoph Hagen et al.   ULTRAMICROSCOPY

Three-dimensional super-resolution microscopy of the inactive X chromosome territory reveals a collapse of its active nuclear compartment harboring distinct Xist RNA foci

(2014) Daniel Smeets et al.   Epigenetics & Chromatin

Retrieving the intracellular topology from multi-scale protein mobility mapping in living cells

(2014) Michael Baum et al.   Nature Communications

Activation of DNA Damage Response Signaling by Condensed Chromatin

(2014) Rebecca C. Burgess et al.   Cell Reports

Depletion of the Chromatin Looping Proteins CTCF and Cohesin Causes Chromatin Compaction: Insight into Chromatin Folding by Polymer Modelling

(2014) Mariliis Tark-Dame et al.   PLoS Computational Biology

The Case for Junk DNA

(2014) Alexander F. Palazzo et al.   PLoS Genetics

Fluorescence and SEM correlative microscopy for nanomanipulation of subcellular structures

(2014) Zheng Gong et al.   Light-Science & Applications

Reprogramming of fibroblast nuclei in cloned bovine embryos involves major structural remodeling with both striking similarities and differences to nuclear phenotypes ofin vitrofertilized embryos

(2014) Jens Popken et al.   Nucleus

Retrotransposon Alu is enriched in the epichromatin of HL-60 cells

(2014) Ada L Olins et al.   Nucleus

Visualization of specific DNA sequences in living mouse embryonic stem cells with a programmable fluorescent CRISPR/Cas system

(2014) Tobias Anton et al.   Nucleus

Single molecule localization microscopy of the distribution of chromatin using Hoechst and DAPI fluorescent probes

(2014) Aleksander T Szczurek et al.   Nucleus

Dynamic Imaging of Genomic Loci in Living Human Cells by an Optimized CRISPR/Cas System

(2013) Baohui Chen et al.   CELL

Single-Cell Dynamics of Genome-Nuclear Lamina Interactions

(2013) Jop Kind et al.   CELL

LBR and Lamin A/C Sequentially Tether Peripheral Heterochromatin and Inversely Regulate Differentiation

(2013) Irina Solovei et al.   CELL

Fluorescence microscopy-A historical and technical perspective

(2013) Malte Renz   CYTOMETRY PART A

Cohesin-mediated interactions organize chromosomal domain architecture

(2013) Sevil Sofueva et al.   EMBO JOURNAL

Structure-driven homology pairing of chromatin fibers: the role of electrostatics and protein-induced bridging

(2013) A. G. Cherstvy et al.   JOURNAL OF BIOLOGICAL PHYSICS

Revisiting Point FRAP to Quantitatively Characterize Anomalous Diffusion in Live Cells

(2013) Matthew K. Daddysman et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Correlative microscopy methods that maximize specimen fidelity and data completeness, and improve molecular localization capabilities

(2013) Elizabeth A. Smith et al.   JOURNAL OF STRUCTURAL BIOLOGY

The Hierarchy of the 3D Genome

(2013) Johan H. Gibcus et al.   MOLECULAR CELL

Species conserved DNA damage response at the inactive human X chromosome

(2013) Iris Müller et al.   MUTATION RESEARCH-GENETIC TOXICOLOGY AND ENVIRONMENTAL MUTAGENESIS

TET enzymes, TDG and the dynamics of DNA demethylation

(2013) Rahul M. Kohli et al.   NATURE

Single-cell Hi-C reveals cell-to-cell variability in chromosome structure

(2013) Takashi Nagano et al.   NATURE

An archaeal origin of eukaryotes supports only two primary domains of life

(2013) Tom A. Williams et al.   NATURE

Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data

(2013) Job Dekker et al.   NATURE REVIEWS GENETICS

Transcription forms and remodels supercoiling domains unfolding large-scale chromatin structures

(2013) Catherine Naughton et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Live visualization of chromatin dynamics with fluorescent TALEs

(2013) Yusuke Miyanari et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Targeting and tracing of specific DNA sequences with dTALEs in living cells

(2013) Katharina Thanisch et al.   NUCLEIC ACIDS RESEARCH

Spatial Dynamics of Chromosome Translocations in Living Cells

(2013) V. Roukos et al.   SCIENCE

Resolution enhancement techniques in microscopy

(2013) Christoph Cremer et al.   European Physical Journal H

Polymer models of chromatin organization

(2013) Mariano Barbieri et al.   Frontiers in Genetics

The potential of 3D-FISH and super-resolution structured illumination microscopy for studies of 3D nuclear architecture

(2012) Yolanda Markaki et al.   BIOESSAYS

Superresolution imaging of transcription units on newt lampbrush chromosomes

(2012) Rainer Kaufmann et al.   CHROMOSOME RESEARCH

Nuclear architecture by RNA

(2012) Maïwen Caudron-Herger et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Topological domains in mammalian genomes identified by analysis of chromatin interactions

(2012) Jesse R. Dixon et al.   NATURE

Intracellular Electric Field and pH Optimize Protein Localization and Movement

(2012) Jessica Cunningham et al.   PLoS One

Recruitment Kinetics of DNA Repair Proteins Mdc1 and Rad52 but Not 53BP1 Depend on Damage Complexity

(2012) Volker Hable et al.   PLoS One

Complexity of chromatin folding is captured by the strings and binders switch model

(2012) M. Barbieri et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Chromosomes without a 30-nm chromatin fiber

(2012) Yasumasa Joti et al.   Nucleus

Double-strand break-induced transcriptional silencing is associated with loss of tri-methylation at H3K4

(2011) Doris M. Seiler et al.   CHROMOSOME RESEARCH

Super-resolution fluorescence imaging of chromosomal DNA

(2011) Patrick J.M. Zessin et al.   JOURNAL OF STRUCTURAL BIOLOGY

Distinct Properties of Human HMGN5 Reveal a Rapidly Evolving but Functionally Conserved Nucleosome Binding Protein

(2011) C. Malicet et al.   MOLECULAR AND CELLULAR BIOLOGY

Combinatorial selection of short triplex forming oligonucleotides for fluorescence in situ hybridisation COMBO-FISH

(2011) Eberhard Schmitt et al.   Journal of Computational Science

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

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

Genome–nuclear lamina interactions and gene regulation

(2010) Jop Kind et al.   CURRENT OPINION IN CELL BIOLOGY

Evolutionary origin of the cell nucleus and its functional architecture

(2010) Jan Postberg et al.   Essays in Biochemistry

Transcribed DNA is preferentially located in the perichromatin region of mammalian cell nuclei

(2010) Janusz Niedojadlo et al.   EXPERIMENTAL CELL RESEARCH

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

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

Dynamics of single mRNP nucleocytoplasmic transport and export through the nuclear pore in living cells

(2010) Amir Mor et al.   NATURE CELL BIOLOGY

Open chromatin in pluripotency and reprogramming

(2010) Alexandre Gaspar-Maia et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

In Vivo Chromatin Organization of Mouse Rod Photoreceptors Correlates with Histone Modifications

(2010) Caroline Kizilyaprak et al.   PLoS One

Diffusion-Driven Looping Provides a Consistent Framework for Chromatin Organization

(2010) Manfred Bohn et al.   PLoS One

Chromosome Territories

(2010) T. Cremer et al.   Cold Spring Harbor Perspectives in Biology

Nuclear Architecture of Rod Photoreceptor Cells Adapts to Vision in Mammalian Evolution

(2009) Irina Solovei et al.   CELL

Revealing the high-resolution three-dimensional network of chromatin and interchromatin space: A novel electron-microscopic approach to reconstructing nuclear architecture

(2009) Jacques Rouquette et al.   CHROMOSOME RESEARCH

Matrin 3: Chromosomal distribution and protein interactions

(2009) Michael J. Zeitz et al.   JOURNAL OF CELLULAR BIOCHEMISTRY

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

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

Elucidating chromatin and nuclear domain architecture with electron spectroscopic imaging

(2008) David P. Bazett-Jones et al.   CHROMOSOME RESEARCH

High-precision structural analysis of subnuclear complexes in fixed and live cells via spatially modulated illumination (SMI) microscopy

(2008) Jürgen Reymann et al.   CHROMOSOME RESEARCH

Focused ion beam (FIB) combined with high resolution scanning electron microscopy: A promising tool for 3D analysis of chromosome architecture

(2008) Elizabeth Schroeder-Reiter et al.   JOURNAL OF STRUCTURAL BIOLOGY

Analysis of cryo-electron microscopy images does not support the existence of 30-nm chromatin fibers in mitotic chromosomes in situ

(2008) M. Eltsov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Competition effect in DNA damage response

(2008) Christoph Greubel et al.   RADIATION AND ENVIRONMENTAL BIOPHYSICS

Subdiffraction Multicolor Imaging of the Nuclear Periphery with 3D Structured Illumination Microscopy

(2008) L. Schermelleh et al.   SCIENCE

High Data Output and Automated 3D Correlative Light-Electron Microscopy Method

(2008) Giuseppe Vicidomini et al.   TRAFFIC