Histone chaperone CAF‐1 promotes HIV‐1 latency by leading the formation of phase‐separated suppressive nuclear bodies

Phase separation of TAZ compartmentalizes the transcription machinery to promote gene expression

(2020) Yi Lu et al.   NATURE CELL BIOLOGY

TRIM28 promotes HIV-1 latency by SUMOylating CDK9 and inhibiting P-TEFb

(2019) Xiancai Ma et al.   eLife

Considerations and Challenges in Studying Liquid-Liquid Phase Separation and Biomolecular Condensates

(2019) Simon Alberti et al.   CELL

Redox State Controls Phase Separation of the Yeast Ataxin-2 Protein via Reversible Oxidation of Its Methionine-Rich Low-Complexity Domain

(2019) Masato Kato et al.   CELL

Arabidopsis FLL2 promotes liquid–liquid phase separation of polyadenylation complexes

(2019) Xiaofeng Fang et al.   NATURE

Phase separation of Polycomb-repressive complex 1 is governed by a charged disordered region of CBX2

(2019) Aaron J. Plys et al.   GENES & DEVELOPMENT

Deep latency: A new insight into a functional HIV cure

(2019) Maher M. Elsheikh et al.   EBioMedicine

Measles Virus Forms Inclusion Bodies with Properties of Liquid Organelles

(2019) Yuqin Zhou et al.   JOURNAL OF VIROLOGY

Histone Modifications Regulate Chromatin Compartmentalization by Contributing to a Phase Separation Mechanism

(2019) Liang Wang et al.   MOLECULAR CELL

Pol II phosphorylation regulates a switch between transcriptional and splicing condensates

(2019) Yang Eric Guo et al.   NATURE

HP1 reshapes nucleosome core to promote phase separation of heterochromatin

(2019) S. Sanulli et al.   NATURE

Chromatin Assembly Factor 1 (CAF-1) facilitates the establishment of facultative heterochromatin during pluripotency exit

(2019) Liang Cheng et al.   NUCLEIC ACIDS RESEARCH

Phase separation of YAP reorganizes genome topology for long-term YAP target gene expression

(2019) Danfeng Cai et al.   NATURE CELL BIOLOGY

Novel Latency Reversal Agents for HIV-1 Cure

(2018) Adam M. Spivak et al.   Annual Review of Medicine

Functional Domains of NEAT1 Architectural lncRNA Induce Paraspeckle Assembly through Phase Separation

(2018) Tomohiro Yamazaki et al.   MOLECULAR CELL

Reprogramming of H3K9me3-dependent heterochromatin during mammalian embryo development

(2018) Chenfei Wang et al.   NATURE CELL BIOLOGY

Histone deacetylation promotes transcriptional silencing at facultative heterochromatin

(2018) Beth R Watts et al.   NUCLEIC ACIDS RESEARCH

Coactivator condensation at super-enhancers links phase separation and gene control

(2018) Benjamin R. Sabari et al.   SCIENCE

Epigenetic regulation of HIV-1 latency: focus on polycomb group (PcG) proteins

(2018) Sheraz Khan et al.   Clinical Epigenetics

Depleting Trim28 in adult mice is well tolerated and reduces levels of α-synuclein and tau

(2018) Maxime WC Rousseaux et al.   eLife

Phase-separation mechanism for C-terminal hyperphosphorylation of RNA polymerase II

(2018) Huasong Lu et al.   NATURE

Phase Transitions Drive the Formation of Vesicular Stomatitis Virus Replication Compartments

(2018) Bianca S. Heinrich et al.   mBio

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

(2018) Ann Boija et al.   CELL

Acetylation of intrinsically disordered regions regulates phase separation

(2018) Makoto Saito et al.   Nature Chemical Biology

Phase separation drives heterochromatin domain formation

(2017) Amy R. Strom et al.   NATURE

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

(2017) Adam G. Larson et al.   NATURE

Biomolecular condensates: organizers of cellular biochemistry

(2017) Salman F. Banani et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The Molecular Basis for Human Immunodeficiency Virus Latency

(2017) Uri Mbonye et al.   Annual Review of Virology

Compositional Control of Phase-Separated Cellular Bodies

(2016) Salman F. Banani et al.   CELL

Chimeric Antigen Receptor T Cells Guided by the Single-Chain Fv of a Broadly Neutralizing Antibody Specifically and Effectively Eradicate Virus Reactivated from Latency in CD4 + T Lymphocytes Isolated from HIV-1-Infected Individuals Receiving Suppressive Combined Antiretroviral Therapy

(2016) Bingfeng Liu et al.   JOURNAL OF VIROLOGY

Development of an Attenuated Tat Protein as a Highly-effective Agent to Specifically Activate HIV-1 Latency

(2016) Guannan Geng et al.   MOLECULAR THERAPY

Development of 5‘ LTR DNA methylation of latent HIV-1 provirus in cell line models and in long-term-infected individuals

(2016) Kateřina Trejbalová et al.   Clinical Epigenetics

HIV-1 functional cure: will the dream come true?

(2015) Chao Liu et al.   BMC Medicine

A Hardwired HIV Latency Program

(2015) Brandon S. Razooky et al.   CELL

Systematic Identification of Factors for Provirus Silencing in Embryonic Stem Cells

(2015) Bin Xia Yang et al.   CELL

HIV-1 Integration Landscape during Latent and Active Infection

(2015) Lillian B. Cohn et al.   CELL

The Integrase Cofactor LEDGF/p75 Associates with Iws1 and Spt6 for Postintegration Silencing of HIV-1 Gene Expression in Latently Infected Cells

(2015) Annabelle Gérard et al.   Cell Host & Microbe

FACT Proteins, SUPT16H and SSRP1, Are Transcriptional Suppressors of HIV-1 and HTLV-1 That Facilitate Viral Latency

(2015) Huachao Huang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

System-wide Analysis of SUMOylation Dynamics in Response to Replication Stress Reveals Novel Small Ubiquitin-like Modified Target Proteins and Acceptor Lysines Relevant for Genome Stability

(2015) Zhenyu Xiao et al.   MOLECULAR & CELLULAR PROTEOMICS

Nuclear architecture dictates HIV-1 integration site selection

(2015) Bruna Marini et al.   NATURE

The histone chaperone CAF-1 safeguards somatic cell identity

(2015) Sihem Cheloufi et al.   NATURE

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

Polymer physics of intracellular phase transitions

(2015) Clifford P. Brangwynne et al.   Nature Physics

Histone chaperone CAF-1 mediates repressive histone modifications to protect preimplantation mouse embryos from endogenous retrotransposons

(2015) Yuki Hatanaka et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Constitutive heterochromatin formation and transcription in mammals

(2015) Nehmé Saksouk et al.   Epigenetics & Chromatin

Liquid-Liquid Phase Separation in Biology

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

Improved vectors and genome-wide libraries for CRISPR screening

(2014) Neville E Sanjana et al.   NATURE METHODS

Proliferation of cells with HIV integrated into cancer genes contributes to persistent infection

(2014) T. A. Wagner et al.   SCIENCE

Specific HIV integration sites are linked to clonal expansion and persistence of infected cells

(2014) F. Maldarelli et al.   SCIENCE

An Integrated Overview of HIV-1 Latency

(2013) Debbie S. Ruelas et al.   CELL

Proximity to PML Nuclear Bodies Regulates HIV-1 Latency in CD4+ T Cells

(2013) Marina Lusic et al.   Cell Host & Microbe

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

(2013) Job Dekker et al.   NATURE REVIEWS GENETICS

Involvement of histone methyltransferase GLP in HIV-1 latency through catalysis of H3K9 dimethylation

(2013) Donglin Ding et al.   VIROLOGY

Shock and kill

(2012) Steven G. Deeks   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Subnuclear segregation of genes and core promoter factors in myogenesis

(2011) Jie Yao et al.   GENES & DEVELOPMENT

Epigenetic Silencing of HIV-1 by the Histone H3 Lysine 27 Methyltransferase Enhancer of Zeste 2

(2011) J. Friedman et al.   JOURNAL OF VIROLOGY

Histone hypoacetylation is required to maintain late replication timing of constitutive heterochromatin

(2011) Corella S. Casas-Delucchi et al.   NUCLEIC ACIDS RESEARCH

Biogenesis and function of nuclear bodies

(2011) Yuntao S. Mao et al.   TRENDS IN GENETICS

Involvement of Histone H3 Lysine 9 (H3K9) Methyltransferase G9a in the Maintenance of HIV-1 Latency and Its Reactivation by BIX01294

(2010) Kenichi Imai et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Direct Conversion of C. elegans Germ Cells into Specific Neuron Types

(2010) B. Tursun et al.   SCIENCE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

The HP1α–CAF1–SetDB1-containing complex provides H3K9me1 for Suv39-mediated K9me3 in pericentric heterochromatin

(2009) Alejandra Loyola et al.   EMBO REPORTS

CpG Methylation Controls Reactivation of HIV from Latency

(2009) Jana Blazkova et al.   PLoS Pathogens

Epigenetic Regulation of HIV-1 Latency by Cytosine Methylation

(2009) Steven E. Kauder et al.   PLoS Pathogens

QUMA: quantification tool for methylation analysis

(2008) Y. Kumaki et al.   NUCLEIC ACIDS RESEARCH