Species-specific regulation of XIST by the JPX/FTX orthologs

Gene regulation in time and space during X-chromosome inactivation

(2022) Agnese Loda et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Promoter-proximal CTCF binding promotes distal enhancer-dependent gene activation

(2021) Naoki Kubo et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

First female with Allan-Herndon-Dudley syndrome and partial deletion of X-inactivation center

(2021) Juan F. Quesada-Espinosa et al.   NEUROGENETICS

Resolving the 3D Landscape of Transcription-Linked Mammalian Chromatin Folding

(2020) Tsung-Han S. Hsieh et al.   MOLECULAR CELL

Galaxy HiCExplorer 3: a web server for reproducible Hi-C, capture Hi-C and single-cell Hi-C data analysis, quality control and visualization

(2020) Joachim Wolff et al.   NUCLEIC ACIDS RESEARCH

Functional Long Non-coding RNAs Evolve from Junk Transcripts

(2020) Alexander F. Palazzo et al.   CELL

A symmetric toggle switch explains the onset of random X inactivation in different mammals

(2019) Verena Mutzel et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Functional Conservation of lncRNA JPX despite Sequence and Structural Divergence

(2019) Heather M. Karner et al.   JOURNAL OF MOLECULAR BIOLOGY

Activity-by-contact model of enhancer–promoter regulation from thousands of CRISPR perturbations

(2019) Charles P. Fulco et al.   NATURE GENETICS

Regulation of gene expression by cis-acting long non-coding RNAs

(2019) Noa Gil et al.   NATURE REVIEWS GENETICS

A primate-specific retroviral enhancer wires the XACT lncRNA into the core pluripotency network in humans

(2019) Miguel Casanova et al.   Nature Communications

Promoter of lncRNA Gene PVT1 Is a Tumor-Suppressor DNA Boundary Element

(2018) Seung Woo Cho et al.   CELL

Exit from Naive Pluripotency Induces a Transient X Chromosome Inactivation-like State in Males

(2018) Elsa J. Sousa et al.   Cell Stem Cell

Integrated analysis of single-cell embryo data yields a unified transcriptome signature for the human pre-implantation epiblast

(2018) Giuliano G. Stirparo et al.   DEVELOPMENT

The Ftx Noncoding Locus Controls X Chromosome Inactivation Independently of Its RNA Products

(2018) Giulia Furlan et al.   MOLECULAR CELL

LncRNA Jpx induces Xist expression in mice using both trans and cis mechanisms

(2018) Sarah Carmona et al.   PLoS Genetics

Promoter-Enhancer Communication Occurs Primarily within Insulated Neighborhoods

(2018) Fei Sun et al.   MOLECULAR CELL

The 4D nucleome project

(2017) Job Dekker et al.   NATURE

CTCF and cohesin regulate chromatin loop stability with distinct dynamics

(2017) Anders S Hansen et al.   eLife

Establishment of X chromosome inactivation and epigenomic features of the inactive X depend on cellular contexts

(2016) Céline Vallot et al.   BIOESSAYS

Insulated Neighborhoods: Structural and Functional Units of Mammalian Gene Control

(2016) Denes Hnisz et al.   CELL

Single-Cell RNA-Seq Reveals Lineage and X Chromosome Dynamics in Human Preimplantation Embryos

(2016) Sophie Petropoulos et al.   CELL

3D Chromosome Regulatory Landscape of Human Pluripotent Cells

(2016) Xiong Ji et al.   Cell Stem Cell

Divergent lncRNAs Regulate Gene Expression and Lineage Differentiation in Pluripotent Cells

(2016) Sai Luo et al.   Cell Stem Cell

Unlinking an lncRNA from Its Associated cis Element

(2016) Vikram R. Paralkar et al.   MOLECULAR CELL

Melanoma addiction to the long non-coding RNA SAMMSON

(2016) Eleonora Leucci et al.   NATURE

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

(2016) Jesse M. Engreitz et al.   NATURE

Systematic mapping of functional enhancer–promoter connections with CRISPR interference

(2016) Charles P. Fulco et al.   SCIENCE

Function and evolution of the long noncoding RNA circuitry orchestrating X-chromosome inactivation in mammals

(2016) Giulia Furlan et al.   Wiley Interdisciplinary Reviews-RNA

Juicebox Provides a Visualization System for Hi-C Contact Maps with Unlimited Zoom

(2016) Neva C. Durand et al.   Cell Systems

Enhancer Evolution across 20 Mammalian Species

(2015) Diego Villar et al.   CELL

Erosion of X Chromosome Inactivation in Human Pluripotent Cells Initiates with XACT Coating and Depends on a Specific Heterochromatin Landscape

(2015) Céline Vallot et al.   Cell Stem Cell

Multiplexed analysis of chromosome conformation at vastly improved sensitivity

(2015) James O J Davies et al.   NATURE METHODS

Principles of Long Noncoding RNA Evolution Derived from Direct Comparison of Transcriptomes in 17 Species

(2015) Hadas Hezroni et al.   Cell Reports

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

(2014) Suhas S.P. Rao et al.   CELL

Control of Cell Identity Genes Occurs in Insulated Neighborhoods in Mammalian Chromosomes

(2014) Jill M. Dowen et al.   CELL

Evolutionary dynamics and tissue specificity of human long noncoding RNAs in six mammals

(2014) S. Washietl et al.   GENOME RESEARCH

The Trans-Activator RNF12 and Cis-Acting Elements Effectuate X Chromosome Inactivation Independent of X-Pairing

(2014) Tahsin Stefan Barakat et al.   MOLECULAR CELL

The evolution of lncRNA repertoires and expression patterns in tetrapods

(2014) Anamaria Necsulea et al.   NATURE

A prominent and conserved role for YY1 in Xist transcriptional activation

(2014) Mélanie Makhlouf et al.   Nature Communications

Jpx RNA Activates Xist by Evicting CTCF

(2013) Sha Sun et al.   CELL

CRISPR-Mediated Modular RNA-Guided Regulation of Transcription in Eukaryotes

(2013) Luke A. Gilbert et al.   CELL

XACT, a long noncoding transcript coating the active X chromosome in human pluripotent cells

(2013) Céline Vallot et al.   NATURE GENETICS

Single-cell RNA-Seq profiling of human preimplantation embryos and embryonic stem cells

(2013) Liying Yan et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Extensive Promoter-Centered Chromatin Interactions Provide a Topological Basis for Transcription Regulation

(2012) Guoliang Li et al.   CELL

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

Iterative correction of Hi-C data reveals hallmarks of chromosome organization

(2012) Maxim Imakaev et al.   NATURE METHODS

Passaging and colony expansion of human pluripotent stem cells by enzyme-free dissociation in chemically defined culture conditions

(2012) Jeanette Beers et al.   Nature Protocols

Origin and evolution of the long non-coding genes in the X-inactivation center

(2011) Antonio Romito et al.   BIOCHIMIE

Conserved Function of lincRNAs in Vertebrate Embryonic Development despite Rapid Sequence Evolution

(2011) Igor Ulitsky et al.   CELL

Derivation of Pre-X Inactivation Human Embryonic Stem Cells under Physiological Oxygen Concentrations

(2010) Christopher J. Lengner et al.   CELL

The Long Noncoding RNA, Jpx, Is a Molecular Switch for X Chromosome Inactivation

(2010) Di Tian et al.   CELL

The Nuclear-Retained Noncoding RNA MALAT1 Regulates Alternative Splicing by Modulating SR Splicing Factor Phosphorylation

(2010) Vidisha Tripathi et al.   MOLECULAR CELL

Maternal Rnf12/RLIM is required for imprinted X-chromosome inactivation in mice

(2010) JongDae Shin et al.   NATURE

Molecular coupling of Tsix regulation and pluripotency

(2010) Pablo Navarro et al.   NATURE

Higher order chromatin structure at the X-inactivation center via looping DNA

(2008) Chia-Lun Tsai et al.   DEVELOPMENTAL BIOLOGY

A Dual Origin of the Xist Gene from a Protein-Coding Gene and a Set of Transposable Elements

(2008) Eugeny A. Elisaphenko et al.   PLoS One