Transcriptomic Analysis Implicates the p53 Signaling Pathway in the Establishment of HIV-1 Latency in Central Memory CD4 T Cells in an In Vitro Model

The p53 inhibitor, pifithrin-α, disrupts microtubule organization, arrests growth, and induces polyploidy in the rainbow trout gill cell line, RTgill-W1

(2016) Fanxing Zeng et al.   COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY C-TOXICOLOGY & PHARMACOLOGY

Mixed effects of suberoylanilide hydroxamic acid (SAHA) on the host transcriptome and proteome and their implications for HIV reactivation from latency

(2015) Cory H. White et al.   ANTIVIRAL RESEARCH

Nucleotide excision repair in humans

(2015) Graciela Spivak   DNA REPAIR

Ex vivo analysis identifies effective HIV-1 latency–reversing drug combinations

(2015) Gregory M. Laird et al.   JOURNAL OF CLINICAL INVESTIGATION

UBTD1 induces cellular senescence through an UBTD1-Mdm2/p53 positive feedback loop

(2015) Xiao-Wei Zhang et al.   JOURNAL OF PATHOLOGY

H3K27 Demethylation at the Proviral Promoter Sensitizes Latent HIV to the Effects of Vorinostat inEx VivoCultures of Resting CD4+T Cells

(2015) Manoj K. Tripathy et al.   JOURNAL OF VIROLOGY

Elimination of HIV-1-Infected Primary T Cell Reservoirs in an In Vitro Model of Latency

(2015) Stephen A. Rawlings et al.   PLoS One

p53-dependent expression of CXCR5 chemokine receptor in MCF-7 breast cancer cells

(2015) Nikita A. Mitkin et al.   Scientific Reports

The Genetic and Mechanistic Basis for Variation in Gene Regulation

(2015) Athma A. Pai et al.   PLoS Genetics

A Novel Assay to Measure the Magnitude of the Inducible Viral Reservoir in HIV-infected Individuals

(2015) Francesco Andrea Procopio et al.   EBioMedicine

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

(2014) S. Anders et al.   BIOINFORMATICS

Variation in transcriptome size: are we getting the message?

(2014) Jeremy E. Coate et al.   CHROMOSOMA

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

(2014) Davide Risso et al.   NATURE BIOTECHNOLOGY

UniProt: a hub for protein information

(2014)   NUCLEIC ACIDS RESEARCH

Normalization of RNA-Sequencing Data from Samples with Varying mRNA Levels

(2014) Håvard Aanes et al.   PLoS One

Comparison of RNA-Seq and Microarray in Transcriptome Profiling of Activated T Cells

(2014) Shanrong Zhao et al.   PLoS One

Transcriptional Regulation of the Tumor Suppressor FHL2 by p53 in Human Kidney and Liver Cells

(2014) Jiaying Xu et al.   PLoS One

Replication competent virus as an important source of bias in HIV latency models utilizing single round viral constructs

(2014) Pawel Bonczkowski et al.   Retrovirology

LIF negatively regulates tumour-suppressor p53 through Stat3/ID1/MDM2 in colorectal cancers

(2014) Haiyang Yu et al.   Nature Communications

Dynamics of HIV Latency and Reactivation in a Primary CD4+ T Cell Model

(2014) Pejman Mohammadi et al.   PLoS Pathogens

Differential gene expression in HIV-infected individuals following ART

(2013) Marta Massanella et al.   ANTIVIRAL RESEARCH

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

(2013) Ya-Chi Ho et al.   CELL

The effect of cell subset isolation method on gene expression in leukocytes

(2013) Nadejda Beliakova-Bethell et al.   CYTOMETRY PART A

High Levels of CD2 Expression Identify HIV-1 Latently Infected Resting Memory CD4+ T Cells in Virally Suppressed Subjects

(2013) M. Iglesias-Ussel et al.   JOURNAL OF VIROLOGY

Induction of amphiregulin by p53 promotes apoptosis via control of microRNA biogenesis in response to DNA damage

(2013) N. Taira et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

HIV Latency

(2013) R. F. Siliciano et al.   Cold Spring Harbor Perspectives in Medicine

An In-Depth Comparison of Latent HIV-1 Reactivation in Multiple Cell Model Systems and Resting CD4+ T Cells from Aviremic Patients

(2013) Celsa A. Spina et al.   PLoS Pathogens

Comparative Analysis of Measures of Viral Reservoirs in HIV-1 Eradication Studies

(2013) Susanne Eriksson et al.   PLoS Pathogens

Revisiting Global Gene Expression Analysis

(2012) Jakob Lovén et al.   CELL

GENCODE: The reference human genome annotation for The ENCODE Project

(2012) J. Harrow et al.   GENOME RESEARCH

Identification of HEXIM1 as a Positive Regulator of p53

(2012) Qiao Jing Lew et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Administration of vorinostat disrupts HIV-1 latency in patients on antiretroviral therapy

(2012) N. M. Archin et al.   NATURE

Shock and kill

(2012) Steven G. Deeks   NATURE

DNA Repair and Cell Cycle Biomarkers of Radiation Exposure and Inflammation Stress in Human Blood

(2012) Helen Budworth et al.   PLoS One

Regulation of p53 stability and function by the deubiquitinating enzyme USP42

(2011) Andreas K Hock et al.   EMBO JOURNAL

A diverse range of gene products are effectors of the type I interferon antiviral response

(2011) John W. Schoggins et al.   NATURE

siRNA Screening of a Targeted Library of DNA Repair Factors in HIV Infection Reveals a Role for Base Excision Repair in HIV Integration

(2011) Amy S. Espeseth et al.   PLoS One

p53-mediated transcriptional regulation and activation of the actin cytoskeleton regulatory RhoC to LIMK2 signaling pathway promotes cell survival

(2010) Daniel R Croft et al.   CELL RESEARCH

Combinatorial Latency Reactivation for HIV-1 Subtypes and Variants

(2010) J. C. Burnett et al.   JOURNAL OF VIROLOGY

Studies of HIV-1 latency in an ex vivo model that uses primary central memory T cells

(2010) Alberto Bosque et al.   METHODS

The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets

(2009) J. W. Nicol et al.   BIOINFORMATICS

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

ToppGene Suite for gene list enrichment analysis and candidate gene prioritization

(2009) J. Chen et al.   NUCLEIC ACIDS RESEARCH

Microarray study reveals that HIV-1 induces rapid type-I interferon-dependent p53 mRNA up-regulation in human primary CD4+ T cells

(2009) Michaël Imbeault et al.   Retrovirology

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