Xist spatially amplifies SHARP/SPEN recruitment to balance chromosome-wide silencing and specificity to the X chromosome

Nuclear compartmentalization as a mechanism of quantitative control of gene expression

(2021) Prashant Bhat et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Time-resolved structured illumination microscopy reveals key principles of Xist RNA spreading

(2021) Lisa Rodermund et al.   SCIENCE

Integrated analysis of Xist upregulation and X-chromosome inactivation with single-cell and single-allele resolution

(2021) Guido Pacini et al.   Nature Communications

RNA promotes the formation of spatial compartments in the nucleus

(2021) Sofia A. Quinodoz et al.   CELL

Xist nucleates local protein gradients to propagate silencing across the X chromosome

(2021) Yolanda Markaki et al.   CELL

SPEN integrates transcriptional and epigenetic control of X-inactivation

(2020) François Dossin et al.   NATURE

SARS-CoV-2 Disrupts Splicing, Translation, and Protein Trafficking to Suppress Host Defenses

(2020) Abhik K. Banerjee et al.   CELL

Kinetics of Xist-induced gene silencing can be predicted from combinations of epigenetic and genomic features

(2019) Lisa Barros de Andrade e Sousa et al.   GENOME RESEARCH

Systematic allelic analysis defines the interplay of key pathways in X chromosome inactivation

(2019) Tatyana B. Nesterova et al.   Nature Communications

Evaluating phase separation in live cells: diagnosis, caveats, and functional consequences

(2019) David T. McSwiggen et al.   GENES & DEVELOPMENT

Higher-Order Inter-chromosomal Hubs Shape 3D Genome Organization in the Nucleus

(2018) Sofia A. Quinodoz et al.   CELL

Functional Classification and Experimental Dissection of Long Noncoding RNAs

(2018) Florian Kopp et al.   CELL

A User’s Guide for Phase Separation Assays with Purified Proteins

(2018) Simon Alberti et al.   JOURNAL OF MOLECULAR BIOLOGY

EasyFRAP-web: a web-based tool for the analysis of fluorescence recovery after photobleaching data

(2018) Grigorios Koulouras et al.   NUCLEIC ACIDS RESEARCH

Transcription Factors Activate Genes through the Phase-Separation Capacity of Their Activation Domains

(2018) Ann Boija et al.   CELL

Mapping Local and Global Liquid Phase Behavior in Living Cells Using Photo-Oligomerizable Seeds

(2018) Dan Bracha et al.   CELL

The Implication of Early Chromatin Changes in X Chromosome Inactivation

(2018) Jan Jakub Żylicz et al.   CELL

Intrinsically disordered sequences enable modulation of protein phase separation through distributed tyrosine motifs

(2017) Yuan Lin et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Prolonged Mek1/2 suppression impairs the developmental potential of embryonic stem cells

(2017) Jiho Choi et al.   NATURE

Phase separation drives heterochromatin domain formation

(2017) Amy R. Strom et al.   NATURE

Derivation of ground-state female ES cells maintaining gamete-derived DNA methylation

(2017) Masaki Yagi et al.   NATURE

Liquid droplet formation by HP1α suggests a role for phase separation in heterochromatin

(2017) Adam G. Larson et al.   NATURE

Quantitative predictions of protein interactions with long noncoding RNAs

(2017) Davide Cirillo et al.   NATURE METHODS

Liquid phase condensation in cell physiology and disease

(2017) Yongdae Shin et al.   SCIENCE

RNA Duplex Map in Living Cells Reveals Higher-Order Transcriptome Structure

(2016) Zhipeng Lu et al.   CELL

Compositional Control of Phase-Separated Cellular Bodies

(2016) Salman F. Banani et al.   CELL

Local regulation of gene expression by lncRNA promoters, transcription and splicing

(2016) Jesse M. Engreitz et al.   NATURE

Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP)

(2016) Eric L Van Nostrand et al.   NATURE METHODS

Endogenous microRNA sponges: evidence and controversy

(2016) Daniel W. Thomson et al.   NATURE REVIEWS GENETICS

Physiological and pathophysiological role of nonsense-mediated mRNA decay

(2016) Franziska Ottens et al.   PFLUGERS ARCHIV-EUROPEAN JOURNAL OF PHYSIOLOGY

Systematic Discovery of Xist RNA Binding Proteins

(2015) Ci Chu et al.   CELL

Formation and Maturation of Phase-Separated Liquid Droplets by RNA-Binding Proteins

(2015) Yuan Lin et al.   MOLECULAR CELL

The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3

(2015) Colleen A. McHugh et al.   NATURE

The Xist RNA-PRC2 complex at 20-nm resolution reveals a low Xist stoichiometry and suggests a hit-and-run mechanism in mouse cells

(2015) Hongjae Sunwoo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A comprehensive Xist interactome reveals cohesin repulsion and an RNA-directed chromosome conformation

(2015) A. Minajigi et al.   SCIENCE

A Pooled shRNA Screen Identifies Rbm15, Spen, and Wtap as Factors Required for Xist RNA-Mediated Silencing

(2015) Benoit Moindrot et al.   Cell Reports

Identification of Spen as a Crucial Factor for Xist Function through Forward Genetic Screening in Haploid Embryonic Stem Cells

(2015) Asun Monfort et al.   Cell Reports

Liquid-Liquid Phase Separation in Biology

(2014) Anthony A. Hyman et al.   Annual Review of Cell and Developmental Biology

The Two Active X Chromosomes in Female ESCs Block Exit from the Pluripotent State by Modulating the ESC Signaling Network

(2014) Edda G. Schulz et al.   Cell Stem Cell

The crystal structure of the Split End protein SHARP adds a new layer of complexity to proteins containing RNA recognition motifs

(2014) Fabiana Arieti et al.   NUCLEIC ACIDS RESEARCH

Molecular diffusion and binding analyzed with FRAP

(2014) Malte Wachsmuth   PROTOPLASMA

High-resolution Xist binding maps reveal two-step spreading during X-chromosome inactivation

(2013) Matthew D. Simon et al.   NATURE

Genome engineering using the CRISPR-Cas9 system

(2013) F Ann Ran et al.   Nature Protocols

Nuclear receptor co-repressors are required for the histone-deacetylase activity of HDAC3 in vivo

(2013) Seo-Hee You et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Xist lncRNA Exploits Three-Dimensional Genome Architecture to Spread Across the X Chromosome

(2013) J. M. Engreitz et al.   SCIENCE

A Long Noncoding RNA Mediates Both Activation and Repression of Immune Response Genes

(2013) S. Carpenter et al.   SCIENCE

Cell-free Formation of RNA Granules: Low Complexity Sequence Domains Form Dynamic Fibers within Hydrogels

(2012) Masato Kato et al.   CELL

A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression

(2011) Kevin C. Wang et al.   NATURE

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Lessons from X-chromosome inactivation: long ncRNA as guides and tethers to the epigenome

(2009) J. T. Lee   GENES & DEVELOPMENT

Auto- and Cross-Regulation of the hnRNP L Proteins by Alternative Splicing

(2009) O. Rossbach et al.   MOLECULAR AND CELLULAR BIOLOGY

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

(2009) Mitchell Guttman et al.   NATURE

The Air Noncoding RNA Epigenetically Silences Transcription by Targeting G9a to Chromatin

(2008) T. Nagano et al.   SCIENCE

Combining the polymerase incomplete primer extension method for cloning and mutagenesis with microscreening to accelerate structural genomics efforts

(2007) Heath E. Klock et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS