Negative Elongation Factor Is Required for the Maintenance of Proviral Latency but Does Not Induce Promoter-Proximal Pausing of RNA Polymerase II on the HIV Long Terminal Repeat

Defining NELF-E RNA Binding in HIV-1 and Promoter-Proximal Pause Regions

(2014) John M. Pagano et al.   PLoS Genetics

SR Proteins Collaborate with 7SK and Promoter-Associated Nascent RNA to Release Paused Polymerase

(2013) Xiong Ji et al.   CELL

Negative Elongation Factor (NELF) Coordinates RNA Polymerase II Pausing, Premature Termination, and Chromatin Remodeling to Regulate HIV Transcription

(2013) Malini Natarajan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

HIV latency and integration site placement in five cell-based models

(2013) Scott Sherrill-Mix et al.   Retrovirology

The AFF4 scaffold binds human P-TEFb adjacent to HIV Tat

(2013) Ursula Schulze-Gahmen et al.   eLife

Microprocessor, Setx, Xrn2, and Rrp6 Co-operate to Induce Premature Termination of Transcription by RNAPII

(2012) Alexandre Wagschal et al.   CELL

Control of HIV Latency by Epigenetic and Non-Epigenetic Mechanisms

(2012) Jonathan Karn et al.   CURRENT HIV RESEARCH

Regulating the regulators: the pervasive effects of Pol II pausing on stimulus-responsive gene networks

(2012) D. A. Gilchrist et al.   GENES & DEVELOPMENT

Transition Step during Assembly of HIV Tat:P-TEFb Transcription Complexes and Transfer to TAR RNA

(2012) I. D'Orso et al.   MOLECULAR AND CELLULAR BIOLOGY

mRNA Decapping Factors and the Exonuclease Xrn2 Function in Widespread Premature Termination of RNA Polymerase II Transcription

(2012) Kris Brannan et al.   MOLECULAR CELL

Functional Association of Gdown1 with RNA Polymerase II Poised on Human Genes

(2012) Bo Cheng et al.   MOLECULAR CELL

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

(2012) Karen Adelman et al.   NATURE REVIEWS GENETICS

HIV-1 Tat recruits transcription elongation factors dispersed along a flexible AFF4 scaffold

(2012) S. Chou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Defining the Status of RNA Polymerase at Promoters

(2012) Leighton J. Core et al.   Cell Reports

Promoter-proximal Pol II: When stalling speeds things up

(2011) Sergei Nechaev et al.   CELL CYCLE

T-Cell Receptor Signaling Enhances Transcriptional Elongation from Latent HIV Proviruses by Activating P-TEFb through an ERK-Dependent Pathway

(2011) Young Kyeung Kim et al.   JOURNAL OF MOLECULAR BIOLOGY

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

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

Chromatin Reassembly Factors Are Involved in Transcriptional Interference Promoting HIV Latency

(2011) E. Gallastegui et al.   JOURNAL OF VIROLOGY

Repressive LTR Nucleosome Positioning by the BAF Complex Is Required for HIV Latency

(2011) Haleh Rafati et al.   PLOS BIOLOGY

c-Myc Regulates Transcriptional Pause Release

(2010) Peter B. Rahl et al.   CELL

Pausing of RNA Polymerase II Disrupts DNA-Specified Nucleosome Organization to Enable Precise Gene Regulation

(2010) Daniel A. Gilchrist et al.   CELL

Establishment of HIV Latency in Primary CD4+ Cells Is due to Epigenetic Transcriptional Silencing and P-TEFb Restriction

(2010) M. Tyagi et al.   JOURNAL OF VIROLOGY

HIV-1 Tat and Host AFF4 Recruit Two Transcription Elongation Factors into a Bifunctional Complex for Coordinated Activation of HIV-1 Transcription

(2010) Nanhai He et al.   MOLECULAR CELL

AFF4, a Component of the ELL/P-TEFb Elongation Complex and a Shared Subunit of MLL Chimeras, Can Link Transcription Elongation to Leukemia

(2010) Chengqi Lin et al.   MOLECULAR CELL

HIV-1 Tat Assembles a Multifunctional Transcription Elongation Complex and Stably Associates with the 7SK snRNP

(2010) Bijan Sobhian et al.   MOLECULAR CELL

RNA-mediated displacement of an inhibitory snRNP complex activates transcription elongation

(2010) Iván D'Orso et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Interactions between DSIF (DRB sensitivity inducing factor), NELF (negative elongation factor), and the Drosophila RNA polymerase II transcription elongation complex

(2010) A. Missra et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Epigenetic regulation of CD8+ T-lymphocyte mediated suppression of HIV-1 replication

(2010) Kevin O. Saunders et al.   VIROLOGY

Stochastic gene expression as a molecular switch for viral latency

(2009) Abhyudai Singh et al.   CURRENT OPINION IN MICROBIOLOGY

A Limited Group of Class I Histone Deacetylases Acts To Repress Human Immunodeficiency Virus Type 1 Expression

(2009) K. S. Keedy et al.   JOURNAL OF VIROLOGY

ChIP-seq: Using high-throughput sequencing to discover protein–DNA interactions

(2009) Dominic Schmidt et al.   METHODS

Architecture and secondary structure of an entire HIV-1 RNA genome

(2009) Joseph M. Watts et al.   NATURE

Immediate mediators of the inflammatory response are poised for gene activation through RNA polymerase II stalling

(2009) K. Adelman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Challenge of Finding a Cure for HIV Infection

(2009) D. D. Richman et al.   SCIENCE

Latently-infected CD4+ T cells are enriched for HIV-1 Tat variants with impaired transactivation activity

(2009) Steven Yukl et al.   VIROLOGY

Control of Stochastic Gene Expression by Host Factors at the HIV Promoter

(2009) John C. Burnett et al.   PLoS Pathogens

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

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

(2009) Ben Langmead et al.   GENOME BIOLOGY

Induction of HIV-1 latency and reactivation in primary memory CD4+ T cells

(2008) A. Bosque et al.   BLOOD

Rapid, Transcription-Independent Loss of Nucleosomes over a Large Chromatin Domain at Hsp70 Loci

(2008) Steven J. Petesch et al.   CELL

Orientation-Dependent Regulation of Integrated HIV-1 Expression by Host Gene Transcriptional Readthrough

(2008) Yefei Han et al.   Cell Host & Microbe

Transcriptional Interference Antagonizes Proviral Gene Expression to Promote HIV Latency

(2008) Tina Lenasi et al.   Cell Host & Microbe

NELF-mediated stalling of Pol II can enhance gene expression by blocking promoter-proximal nucleosome assembly

(2008) D. A. Gilchrist et al.   GENES & DEVELOPMENT

Viral reservoirs, residual viremia, and the potential of highly active antiretroviral therapy to eradicate HIV infection

(2008) Lin Shen et al.   JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Epigenetic Silencing of Human Immunodeficiency Virus (HIV) Transcription by Formation of Restrictive Chromatin Structures at the Viral Long Terminal Repeat Drives the Progressive Entry of HIV into Latency

(2008) R. Pearson et al.   JOURNAL OF VIROLOGY

Transcription-Dependent Gene Looping of the HIV-1 Provirus Is Dictated by Recognition of Pre-mRNA Processing Signals

(2008) Kelly J. Perkins et al.   MOLECULAR CELL

Analysis of factor interactions with RNA polymerase II elongation complexes using a new electrophoretic mobility shift assay

(2008) B. Cheng et al.   NUCLEIC ACIDS RESEARCH

Transcription Regulation Through Promoter-Proximal Pausing of RNA Polymerase II

(2008) L. J. Core et al.   SCIENCE

Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters

(2008) Leighton J. Core et al.   SCIENCE

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY