Nuclear Lamin B1 Interactions With Chromatin During the Circadian Cycle Are Uncoupled From Periodic Gene Expression

Interplay of lamin A and lamin B LADs on the radial positioning of chromatin

(2019) Frida Forsberg et al.   Nucleus

Tissue-specific BMAL1 cistromes reveal that rhythmic transcription is associated with rhythmic enhancer–enhancer interactions

(2019) Joshua R. Beytebiere et al.   GENES & DEVELOPMENT

Long-range interactions between topologically associating domains shape the four-dimensional genome during differentiation

(2019) Jonas Paulsen et al.   NATURE GENETICS

Heterochromatin drives compartmentalization of inverted and conventional nuclei

(2019) Martin Falk et al.   NATURE

Clock-dependent chromatin topology modulates circadian transcription and behavior

(2018) Jérôme Mermet et al.   GENES & DEVELOPMENT

Generation of circadian rhythms in the suprachiasmatic nucleus

(2018) Michael H. Hastings et al.   NATURE REVIEWS NEUROSCIENCE

Rev-erbα dynamically modulates chromatin looping to control circadian gene transcription

(2018) Yong Hoon Kim et al.   SCIENCE

Lamin B1 mapping reveals the existence of dynamic and functional euchromatin lamin B1 domains

(2018) Laura Pascual-Reguant et al.   Nature Communications

Rhythms of the Genome: Circadian Dynamics from Chromatin Topology, Tissue-Specific Gene Expression, to Behavior

(2018) Jake Yeung et al.   TRENDS IN GENETICS

Transcription factor activity rhythms and tissue-specific chromatin interactions explain circadian gene expression across organs

(2017) Jake Yeung et al.   GENOME RESEARCH

Constrained release of lamina-associated enhancers and genes from the nuclear envelope during T-cell activation facilitates their association in chromosome compartments

(2017) Michael I. Robson et al.   GENOME RESEARCH

Lamins in the nuclear interior − life outside the lamina

(2017) Nana Naetar et al.   JOURNAL OF CELL SCIENCE

Lamin B2 Modulates Nucleolar Morphology, Dynamics, and Function

(2017) Ayantika Sen Gupta et al.   MOLECULAR AND CELLULAR BIOLOGY

MetaCycle: an integrated R package to evaluate periodicity in large scale data

(2016) Gang Wu et al.   BIOINFORMATICS

Tissue-Specific Gene Repositioning by Muscle Nuclear Membrane Proteins Enhances Repression of Critical Developmental Genes during Myogenesis

(2016) Michael I. Robson et al.   MOLECULAR CELL

Transcriptional architecture of the mammalian circadian clock

(2016) Joseph S. Takahashi   NATURE REVIEWS GENETICS

Distinct Roles of HDAC3 in the Core Circadian Negative Feedback Loop Are Critical for Clock Function

(2016) Guangsen Shi et al.   Cell Reports

Long-Range Chromosome Interactions Mediated by Cohesin Shape Circadian Gene Expression

(2016) Yichi Xu et al.   PLoS Genetics

Identification of Gene Positioning Factors Using High-Throughput Imaging Mapping

(2015) Sigal Shachar et al.   CELL

Prepatterning of differentiation-driven nuclear lamin A/C-associated chromatin domains by GlcNAcylated histone H2B

(2015) Torunn Rønningen et al.   GENOME RESEARCH

Directed targeting of chromatin to the nuclear lamina is mediated by chromatin state and A-type lamins

(2015) Jennifer C. Harr et al.   JOURNAL OF CELL BIOLOGY

PARP1- and CTCF-Mediated Interactions between Active and Repressed Chromatin at the Lamina Promote Oscillating Transcription

(2015) Honglei Zhao et al.   MOLECULAR CELL

NAD+-SIRT1 control of H3K4 trimethylation through circadian deacetylation of MLL1

(2015) Lorena Aguilar-Arnal et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Discrete functions of nuclear receptor Rev-erb  couple metabolism to the clock

(2015) Y. Zhang et al.   SCIENCE

Loss of lamin A function increases chromatin dynamics in the nuclear interior

(2015) I. Bronshtein et al.   Nature Communications

NAD+-SIRT1 control of H3K4 trimethylation through circadian deacetylation of MLL1

(2015) Lorena Aguilar-Arnal et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Lamin A Is an Endogenous SIRT6 Activator and Promotes SIRT6-Mediated DNA Repair

(2015) Shrestha Ghosh et al.   Cell Reports

Partitioning Circadian Transcription by SIRT6 Leads to Segregated Control of Cellular Metabolism

(2014) Selma Masri et al.   CELL

Circadian Enhancers Coordinate Multiple Phases of Rhythmic Gene Transcription In Vivo

(2014) Bin Fang et al.   CELL

Enriched domain detector: a program for detection of wide genomic enrichment domains robust against local variations

(2014) Eivind Lund et al.   NUCLEIC ACIDS RESEARCH

Timing of circadian genes in mammalian tissues

(2014) Anja Korenčič et al.   Scientific Reports

Nuclear envelope protein MAN1 regulates clock through BMAL1

(2014) Shu-Ting Lin et al.   eLife

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

(2013) Irina Solovei et al.   CELL

Emerin and histone deacetylase 3 (HDAC3) cooperatively regulate expression and nuclear positions of MyoD, Myf5, and Pax7 genes during myogenesis

(2013) Justin Demmerle et al.   CHROMOSOME RESEARCH

Lamin A/C-promoter interactions specify chromatin state-dependent transcription outcomes

(2013) E. Lund et al.   GENOME RESEARCH

Cycles in spatial and temporal chromosomal organization driven by the circadian clock

(2013) Lorena Aguilar-Arnal et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

BEDOPS: high-performance genomic feature operations

(2012) Shane Neph et al.   BIOINFORMATICS

DNA Sequence-Dependent Compartmentalization and Silencing of Chromatin at the Nuclear Lamina

(2012) Joseph M. Zullo et al.   CELL

Circadian Oscillations of Protein-Coding and Regulatory RNAs in a Highly Dynamic Mammalian Liver Epigenome

(2012) Christopher Vollmers et al.   Cell Metabolism

Resveratrol Rescues SIRT1-Dependent Adult Stem Cell Decline and Alleviates Progeroid Features in Laminopathy-Based Progeria

(2012) Baohua Liu et al.   Cell Metabolism

Constitutive nuclear lamina-genome interactions are highly conserved and associated with A/T-rich sequence

(2012) W. Meuleman et al.   GENOME RESEARCH

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The nuclear lamins: flexibility in function

(2012) Brian Burke et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Transcriptional Architecture and Chromatin Landscape of the Core Circadian Clock in Mammals

(2012) N. Koike et al.   SCIENCE

Refeeding after Fasting Elicits Insulin-Dependent Regulation of Per2 and Rev-erbα with Shifts in the Liver Clock

(2011) Yu Tahara et al.   JOURNAL OF BIOLOGICAL RHYTHMS

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

A Circadian Rhythm Orchestrated by Histone Deacetylase 3 Controls Hepatic Lipid Metabolism

(2011) D. Feng et al.   SCIENCE

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

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

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

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Harmonics of Circadian Gene Transcription in Mammals

(2009) Michael E. Hughes et al.   PLoS Genetics

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

(2009) Ben Langmead et al.   GENOME BIOLOGY

The NAD+-Dependent Deacetylase SIRT1 Modulates CLOCK-Mediated Chromatin Remodeling and Circadian Control

(2008) Yasukazu Nakahata et al.   CELL

Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions

(2008) Lars Guelen et al.   NATURE