Enhancing HIV-1 latency reversal through regulating the elongating RNA Pol II pause-release by a small-molecule disruptor of PAF1C

Heat shock induces premature transcript termination and reconfigures the human transcriptome

(2022) Simona Cugusi et al.   MOLECULAR CELL

Coordinated regulation of RNA polymerase II pausing and elongation progression by PAF1

(2022) Zhenning Wang et al.   Science Advances

SPT6 functions in transcriptional pause/release via PAF1C recruitment

(2022) Yuki Aoi et al.   MOLECULAR CELL

Epigenomic characterization of latent HIV infection identifies latency regulating transcription factors

(2021) Stuart R. Jefferys et al.   PLoS Pathogens

Biochemical insights into Paf1 complex–induced stimulation of Rad6/Bre1-mediated H2B monoubiquitination

(2021) Feilong Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Synergistic Chromatin-Modifying Treatments Reactivate Latent HIV and Decrease Migration of Multiple Host-Cell Types

(2021) Alexandra Blanco et al.   Viruses-Basel

A KDM4A-PAF1-mediated epigenomic network is essential for acute myeloid leukemia cell self-renewal and survival

(2021) Matthew E. Massett et al.   Cell Death & Disease

Stochastic pausing at latent HIV-1 promoters generates transcriptional bursting

(2021) Katjana Tantale et al.   Nature Communications

Transcriptional regulator CTR9 promotes hepatocellular carcinoma progression and metastasis via increasing PEG10 transcriptional activity

(2021) Bin Zhang et al.   ACTA PHARMACOLOGICA SINICA

Transcription recycling assays identify PAF1 as a driver for RNA Pol II recycling

(2021) Zhong Chen et al.   Nature Communications

Current Status of Latency Reversing Agents Facing the Heterogeneity of HIV-1 Cellular and Tissue Reservoirs

(2020) Amina Ait-Ammar et al.   Frontiers in Microbiology

Prodrugs of PKC modulators show enhanced HIV latency reversal and an expanded therapeutic window

(2020) Jack L. Sloane et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Competition between PAF1 and MLL1/COMPASS confers the opposing function of LEDGF/p75 in HIV latency and proviral reactivation

(2020) Ru Gao et al.   Science Advances

Structure of complete Pol II–DSIF–PAF–SPT6 transcription complex reveals RTF1 allosteric activation

(2020) Seychelle M. Vos et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

HSF1 inhibition attenuates HIV-1 latency reversal mediated by several candidate LRAs In Vitro and Ex Vivo

(2020) Andrew Timmons et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Causes and consequences of RNA polymerase II stalling during transcript elongation

(2020) Melvin Noe Gonzalez et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

PD-1 blockade potentiates HIV latency reversal ex vivo in CD4+ T cells from ART-suppressed individuals

(2019) Rémi Fromentin et al.   Nature Communications

Promoter-proximal pausing of RNA polymerase II: a nexus of gene regulation

(2019) Leighton Core et al.   GENES & DEVELOPMENT

The PAF1c Subunit CDC73 Is Required for Mouse Hematopoietic Stem Cell Maintenance but Displays Leukemia-Specific Gene Regulation

(2019) Nirmalya Saha et al.   Stem Cell Reports

Paf1C regulates RNA polymerase II progression by modulating elongation rate

(2019) Liming Hou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Latency reversal agents affect differently the latent reservoir present in distinct CD4+ T subpopulations

(2019) Judith Grau-Expósito et al.   PLoS Pathogens

RNA Polymerase II Promoter-Proximal Pausing and Release to Elongation Are Key Steps Regulating Herpes Simplex Virus 1 Transcription

(2019) Claire H. Birkenheuer et al.   JOURNAL OF VIROLOGY

Getting the “Kill” into “Shock and Kill”: Strategies to Eliminate Latent HIV

(2018) Youry Kim et al.   Cell Host & Microbe

Cyclin-dependent kinase 7 (CDK7)-mediated phosphorylation of the CDK9 activation loop promotes P-TEFb assembly with Tat and proviral HIV reactivation

(2018) Uri Mbonye et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A New Quinoline BRD4 Inhibitor Targets a Distinct Latent HIV-1 Reservoir for Reactivation from Other “Shock” Drugs

(2018) Erik Abner et al.   JOURNAL OF VIROLOGY

HIV latency in isolated patient CD4 + T cells may be due to blocks in HIV transcriptional elongation, completion, and splicing

(2018) Steven A. Yukl et al.   Science Translational Medicine

Barriers for HIV Cure: The Latent Reservoir

(2018) Sergio Castro-Gonzalez et al.   AIDS RESEARCH AND HUMAN RETROVIRUSES

Structure of activated transcription complex Pol II–DSIF–PAF–SPT6

(2018) Seychelle M. Vos et al.   NATURE

Transcriptional elongation factor Paf1 core complex adopts a spirally wrapped solenoidal topology

(2018) Pujuan Deng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Paf1 and Ctr9 subcomplex formation is essential for Paf1 complex assembly and functional regulation

(2018) Ying Xie et al.   Nature Communications

Single-molecule nascent RNA sequencing identifies regulatory domain architecture at promoters and enhancers

(2018) Jacob M. Tome et al.   NATURE GENETICS

PAF1 regulation of promoter-proximal pause release via enhancer activation

(2017) Fei Xavier Chen et al.   SCIENCE

Transcriptional response to stress is pre-wired by promoter and enhancer architecture

(2017) Anniina Vihervaara et al.   Nature Communications

Architecture of the RNA polymerase II-Paf1C-TFIIS transcription elongation complex

(2017) Youwei Xu et al.   Nature Communications

Molecular mechanisms of HIV latency

(2016) Daniele C. Cary et al.   JOURNAL OF CLINICAL INVESTIGATION

The Histone Modification Domain of Paf1 Complex Subunit Rtf1 Directly Stimulates H2B Ubiquitylation through an Interaction with Rad6

(2016) S. Branden Van Oss et al.   MOLECULAR CELL

Ubiquitin-Dependent Turnover of MYC Antagonizes MYC/PAF1C Complex Accumulation to Drive Transcriptional Elongation

(2016) Laura A. Jaenicke et al.   MOLECULAR CELL

Mammalian Heat Shock Response and Mechanisms Underlying Its Genome-wide Transcriptional Regulation

(2016) Dig B. Mahat et al.   MOLECULAR CELL

Base-pair-resolution genome-wide mapping of active RNA polymerases using precision nuclear run-on (PRO-seq)

(2016) Dig Bijay Mahat et al.   Nature Protocols

The Effect of Latency Reversal Agents on Primary CD8 + T Cells: Implications for Shock and Kill Strategies for Human Immunodeficiency Virus Eradication

(2016) Victoria E. Walker-Sperling et al.   EBioMedicine

PAF1, a Molecular Regulator of Promoter-Proximal Pausing by RNA Polymerase II

(2015) Fei Xavier Chen et al.   CELL

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Crystal structure of HIV-1 Tat complexed with human P-TEFb and AFF4

(2014) Jianyou Gu et al.   CELL CYCLE

Normalization of RNA-seq data using factor analysis of control genes or samples

(2014) Davide Risso et al.   NATURE BIOTECHNOLOGY

Replication-Competent Noninduced Proviruses in the Latent Reservoir Increase Barrier to HIV-1 Cure

(2013) Ya-Chi Ho et al.   CELL

BET bromodomain-targeting compounds reactivate HIV from latency via a Tat-independent mechanism

(2013) Daniela Boehm et al.   CELL CYCLE

Transcriptional elongation checkpoint control in development and disease

(2013) E. Smith et al.   GENES & DEVELOPMENT

Structural insights into Paf1 complex assembly and histone binding

(2013) Xinlei Chu et al.   NUCLEIC ACIDS RESEARCH

Monitoring Drug Target Engagement in Cells and Tissues Using the Cellular Thermal Shift Assay

(2013) D. M. Molina et al.   SCIENCE

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans

(2012) Karen Adelman et al.   NATURE REVIEWS GENETICS

The BET bromodomain inhibitor JQ1 activates HIV latency through antagonizing Brd4 inhibition of Tat-transactivation

(2012) Zichong Li et al.   NUCLEIC ACIDS RESEARCH

The multicenter AIDS Cohort Study, 1983 to …

(2011) R. Detels et al.   PUBLIC HEALTH

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

The PAF Complex Synergizes with MLL Fusion Proteins at HOX Loci to Promote Leukemogenesis

(2010) Andrew G. Muntean et al.   CANCER CELL

TIF1γ Controls Erythroid Cell Fate by Regulating Transcription Elongation

(2010) Xiaoying Bai et al.   CELL

New Substructure Filters for Removal of Pan Assay Interference Compounds (PAINS) from Screening Libraries and for Their Exclusion in Bioassays

(2010) Jonathan B. Baell et al.   JOURNAL OF MEDICINAL CHEMISTRY

RAD6-Mediated Transcription-Coupled H2B Ubiquitylation Directly Stimulates H3K4 Methylation in Human Cells

(2009) Jaehoon Kim et al.   CELL

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

(2009) Ben Langmead et al.   GENOME BIOLOGY