Temporal proteomic analysis of HIV infection reveals remodelling of the host phosphoproteome by lentiviral Vif variants

Gene expression profiling reveals Nef induced deregulation of lipid metabolism in HIV-1 infected T cells

(2016) Surya Shrivastava et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Small ruminant lentiviral Vif proteins commonly utilize cyclophilin A, an evolutionarily and structurally conserved protein, to degrade ovine and caprine APOBEC3 proteins

(2016) Rokusuke Yoshikawa et al.   MICROBIOLOGY AND IMMUNOLOGY

HIV-1 Vpr degrades the HLTF DNA translocase in T cells and macrophages

(2016) Hichem Lahouassa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

HIV-1 and HIV-2 exhibit divergent interactions with HLTF and UNG2 DNA repair proteins

(2016) Kasia Hrecka et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Remodeling of the Host Cell Plasma Membrane by HIV-1 Nef and Vpu: A Strategy to Ensure Viral Fitness and Persistence

(2016) Scott Sugden et al.   Viruses-Basel

Aurora A drives early signalling and vesicle dynamics during T-cell activation

(2016) Noelia Blas-Rus et al.   Nature Communications

Cell Surface Proteomic Map of HIV Infection Reveals Antagonism of Amino Acid Metabolism by Vpu and Nef

(2015) Nicholas J. Matheson et al.   Cell Host & Microbe

Human cytomegalovirus: taking the strain

(2015) Gavin W. G. Wilkinson et al.   MEDICAL MICROBIOLOGY AND IMMUNOLOGY

Tree of Life Reveals Clock-Like Speciation and Diversification

(2015) S. Blair Hedges et al.   MOLECULAR BIOLOGY AND EVOLUTION

Intrinsic host restrictions to HIV-1 and mechanisms of viral escape

(2015) Viviana Simon et al.   NATURE IMMUNOLOGY

Gene activity in primary T cells infected with HIV89.6: intron retention and induction of genomic repeats

(2015) Scott Sherrill-Mix et al.   Retrovirology

Opposing regulation of endolysosomal pathways by long-acting nanoformulated antiretroviral therapy and HIV-1 in human macrophages

(2015) Mariluz Araínga et al.   Retrovirology

Lineage-Specific Viral Hijacking of Non-canonical E3 Ubiquitin Ligase Cofactors in the Evolution of Vif Anti-APOBEC3 Activity

(2015) Joshua R. Kane et al.   Cell Reports

Phospholipase D1 Couples CD4+ T Cell Activation to c-Myc-Dependent Deoxyribonucleotide Pool Expansion and HIV-1 Replication

(2015) Harry E. Taylor et al.   PLoS Pathogens

Label-free quantitative phosphoproteomics with novel pairwise abundance normalization reveals synergistic RAS and CIP2A signaling

(2015) Otto Kauko et al.   Scientific Reports

Quantitative Temporal Viromics: An Approach to Investigate Host-Pathogen Interaction

(2014) Michael P. Weekes et al.   CELL

Premature Activation of the SLX4 Complex by Vpr Promotes G2/M Arrest and Escape from Innate Immune Sensing

(2014) Nadine Laguette et al.   CELL

Aurora Kinase A Regulates M1 Macrophage Polarization and Plays a Role in Experimental Autoimmune Encephalomyelitis

(2014) Lixia Ding et al.   INFLAMMATION

PP2A-B56 opposes Mps1 phosphorylation of Knl1 and thereby promotes spindle assembly checkpoint silencing

(2014) Antonio Espert et al.   JOURNAL OF CELL BIOLOGY

KIF4A and PP2A–B56 form a spatially restricted feedback loop opposing Aurora B at the anaphase central spindle

(2014) Ricardo Nunes Bastos et al.   JOURNAL OF CELL BIOLOGY

Quantitative Proteomics by SWATH-MS Reveals Altered Expression of Nucleic Acid Binding and Regulatory Proteins in HIV-1-Infected Macrophages

(2014) Nicole A. Haverland et al.   JOURNAL OF PROTEOME RESEARCH

Core Binding Factor Beta Plays a Critical Role by Facilitating the Assembly of the Vif-Cullin 5 E3 Ubiquitin Ligase

(2014) J. L. Fribourgh et al.   JOURNAL OF VIROLOGY

Core-Binding Factor Subunit Beta Is Not Required for Non-Primate Lentiviral Vif-Mediated APOBEC3 Degradation

(2014) Y. Ai et al.   JOURNAL OF VIROLOGY

CBF  Enhances De Novo Protein Biosynthesis of Its Binding Partners HIV-1 Vif and RUNX1 and Potentiates the Vif-Induced Degradation of APOBEC3G

(2014) E. Miyagi et al.   JOURNAL OF VIROLOGY

HIV-1 Nef and Vpu Are Functionally Redundant Broad-Spectrum Modulators of Cell Surface Receptors, Including Tetraspanins

(2014) C. Haller et al.   JOURNAL OF VIROLOGY

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations

(2014) Peter V. Hornbeck et al.   NUCLEIC ACIDS RESEARCH

Antibody-Free Magnetic Cell Sorting of Genetically Modified Primary Human CD4+ T Cells by One-Step Streptavidin Affinity Purification

(2014) Nicholas J. Matheson et al.   PLoS One

TMEM129 is a Derlin-1 associated ERAD E3 ligase essential for virus-induced degradation of MHC-I

(2014) D. J. H. van den Boomen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Role of cullin-elonginB-elonginC E3 complex in bovine immunodeficiency virus and maedi-visna virus Vif-mediated degradation of host A3Z2-Z3 proteins

(2014) Jingyao Zhang et al.   Retrovirology

A proteomic chronology of gene expression through the cell cycle in human myeloid leukemia cells

(2014) Tony Ly et al.   eLife

The Aurora-B-mediated phosphorylation of SHCBP1 regulates cytokinetic furrow ingression

(2013) E. Asano et al.   JOURNAL OF CELL SCIENCE

Direct binding between BubR1 and B56-PP2A phosphatase complexes regulate mitotic progression

(2013) T. Kruse et al.   JOURNAL OF CELL SCIENCE

The human immunodeficiency virus type 1 Vpr protein upregulates PVR via activation of the ATR-mediated DNA damage response pathway

(2013) L. Vassena et al.   JOURNAL OF GENERAL VIROLOGY

Multiple APOBEC3 Restriction Factors for HIV-1 and One Vif to Rule Them All

(2013) Belete A. Desimmie et al.   JOURNAL OF MOLECULAR BIOLOGY

Assessment and Improvement of Statistical Tools for Comparative Proteomics Analysis of Sparse Data Sets with Few Experimental Replicates

(2013) Veit Schwämmle et al.   JOURNAL OF PROTEOME RESEARCH

Vif Proteins from Diverse Primate Lentiviral Lineages Use the Same Binding Site in APOBEC3G

(2013) M. Letko et al.   JOURNAL OF VIROLOGY

CBFβ Stabilizes HIV Vif to Counteract APOBEC3 at the Expense of RUNX1 Target Gene Expression

(2013) Dong Young Kim et al.   MOLECULAR CELL

Human MX2 is an interferon-induced post-entry inhibitor of HIV-1 infection

(2013) Caroline Goujon et al.   NATURE

Gelsolin activity controls efficient early HIV-1 infection

(2013) Laura García-Expósito et al.   Retrovirology

Transcriptional and Posttranscriptional Regulation of HIV-1 Gene Expression

(2013) J. Karn et al.   Cold Spring Harbor Perspectives in Medicine

HIV Restriction Factors and Mechanisms of Evasion

(2013) M. H. Malim et al.   Cold Spring Harbor Perspectives in Medicine

BUBR1 recruits PP2A via the B56 family of targeting subunits to promote chromosome congression

(2013) P. Xu et al.   Biology Open

Core-Binding Factor β Increases the Affinity between Human Cullin 5 and HIV-1 Vif within an E3 Ligase Complex

(2012) Jason D. Salter et al.   BIOCHEMISTRY

Development of a Chemical Genetic Approach for Human Aurora B Kinase Identifies Novel Substrates of the Chromosomal Passenger Complex

(2012) Rutger C. C. Hengeveld et al.   MOLECULAR & CELLULAR PROTEOMICS

SAMHD1 restricts the replication of human immunodeficiency virus type 1 by depleting the intracellular pool of deoxynucleoside triphosphates

(2012) Hichem Lahouassa et al.   NATURE IMMUNOLOGY

SAMHD1 restricts HIV-1 infection in resting CD4+ T cells

(2012) Hanna-Mari Baldauf et al.   NATURE MEDICINE

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Restricting HIV the SAMHD1 way: through nucleotide starvation

(2012) Diana Ayinde et al.   NATURE REVIEWS MICROBIOLOGY

The Proteomics Identifications (PRIDE) database and associated tools: status in 2013

(2012) Juan Antonio Vizcaíno et al.   NUCLEIC ACIDS RESEARCH

Quantitative proteomic analysis of HIV-1 infected CD4+ T cells reveals an early host response in important biological pathways: Protein synthesis, cell proliferation, and T-cell activation

(2012) Arti T. Navare et al.   VIROLOGY

Beyond ATM: The protein kinase landscape of the DNA damage response

(2011) Ariel Bensimon et al.   FEBS LETTERS

Pulsed Stable Isotope Labeling of Amino Acids in Cell Culture Uncovers the Dynamic Interactions between HIV-1 and the Monocyte-Derived Macrophage

(2011) Stephanie D. Kraft-Terry et al.   JOURNAL OF PROTEOME RESEARCH

Universal and Confident Phosphorylation Site Localization Using phosphoRS

(2011) Thomas Taus et al.   JOURNAL OF PROTEOME RESEARCH

The Activity Spectrum of Vif from Multiple HIV-1 Subtypes against APOBEC3G, APOBEC3F, and APOBEC3H

(2011) M. Binka et al.   JOURNAL OF VIROLOGY

Vif Proteins of Human and Simian Immunodeficiency Viruses Require Cellular CBF  To Degrade APOBEC3 Restriction Factors

(2011) J. F. Hultquist et al.   JOURNAL OF VIROLOGY

Correct Interpretation of Comprehensive Phosphorylation Dynamics Requires Normalization by Protein Expression Changes

(2011) Ronghu Wu et al.   MOLECULAR & CELLULAR PROTEOMICS

T-cell differentiation factor CBF-β regulates HIV-1 Vif-mediated evasion of host restriction

(2011) Wenyan Zhang et al.   NATURE

Vif hijacks CBF-β to degrade APOBEC3G and promote HIV-1 infection

(2011) Stefanie Jäger et al.   NATURE

SAMHD1 is the dendritic- and myeloid-cell-specific HIV-1 restriction factor counteracted by Vpx

(2011) Nadine Laguette et al.   NATURE

Vpx relieves inhibition of HIV-1 infection of macrophages mediated by the SAMHD1 protein

(2011) Kasia Hrecka et al.   NATURE

Quantitative Phosphoproteomics Identifies Substrates and Functional Modules of Aurora and Polo-Like Kinase Activities in Mitotic Cells

(2011) A. N. Kettenbach et al.   Science Signaling

Viral evolution in deep time: lentiviruses and mammals

(2011) Robert J. Gifford   TRENDS IN GENETICS

Next-Generation Sequencing Reveals HIV-1-Mediated Suppression of T Cell Activation and RNA Processing and Regulation of Noncoding RNA Expression in a CD4+ T Cell Line

(2011) S. T. Chang et al.   mBio

Proteome-wide post-translational modification statistics: frequency analysis and curation of the swiss-prot database

(2011) George A. Khoury et al.   Scientific Reports

Lentiviral Vif Degrades the APOBEC3Z3/APOBEC3H Protein of Its Mammalian Host and Is Capable of Cross-Species Activity

(2010) R. S. LaRue et al.   JOURNAL OF VIROLOGY

Identification of Specific Determinants of Human APOBEC3F, APOBEC3C, and APOBEC3DE and African Green Monkey APOBEC3F That Interact with HIV-1 Vif

(2010) J. L. Smith et al.   JOURNAL OF VIROLOGY

Functions of B56-containing PP2As in major developmental and cancer signaling pathways

(2010) Jing Yang et al.   LIFE SCIENCES

The Plk1-dependent Phosphoproteome of the Early Mitotic Spindle

(2010) Anna Santamaria et al.   MOLECULAR & CELLULAR PROTEOMICS

Aurora B Phosphorylates Spatially Distinct Targets to Differentially Regulate the Kinetochore-Microtubule Interface

(2010) Julie P.I. Welburn et al.   MOLECULAR CELL

Island Biogeography Reveals the Deep History of SIV

(2010) M. Worobey et al.   SCIENCE

The SOCS-Box of HIV-1 Vif Interacts with ElonginBC by Induced-Folding to Recruit Its Cul5-Containing Ubiquitin Ligase Complex

(2010) Julien R. C. Bergeron et al.   PLoS Pathogens

Proteomic characterization of HIV-modulated membrane receptors, kinases and signaling proteins involved in novel angiogenic pathways

(2009) Suraiya Rasheed et al.   Journal of Translational Medicine

Human Immunodeficiency Virus Type 1 Envelope gp120-Induced Partial T-Cell Receptor Signaling Creates an F-Actin-Depleted Zone in the Virological Synapse

(2009) G. Vasiliver-Shamis et al.   JOURNAL OF VIROLOGY

Dynamic Host Energetics and Cytoskeletal Proteomes in Human Immunodeficiency Virus Type 1-Infected Human Primary CD4 Cells: Analysis by Multiplexed Label-Free Mass Spectrometry

(2009) E. Y. Chan et al.   JOURNAL OF VIROLOGY

Viral avoidance and exploitation of the ubiquitin system

(2009) Felix Randow et al.   NATURE CELL BIOLOGY

Universal sample preparation method for proteome analysis

(2009) Jacek R Wiśniewski et al.   NATURE METHODS

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

HIV Induces both a Down-Regulation of IRAK-4 that Impairs TLR Signalling and an Up-regulation of the Antibiotic Peptide Dermcidin in Monocytic Cells

(2009) S. Pathak et al.   SCANDINAVIAN JOURNAL OF IMMUNOLOGY

Fragile X mental retardation protein restricts replication of human immunodeficiency virus type 1

(2009) Qinghua Pan et al.   VIROLOGY

Mapping and characterization of visna/maedi virus cytotoxic T-lymphocyte epitopes

(2008) C. Wu et al.   JOURNAL OF GENERAL VIROLOGY

Proteomic Studies Reveal Coordinated Changes in T-Cell Expression Patterns upon Infection with Human Immunodeficiency Virus Type 1

(2008) J. H. Ringrose et al.   JOURNAL OF VIROLOGY

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH

APOBEC proteins and intrinsic resistance to HIV-1 infection

(2008) M. H Malim   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

A transitional endogenous lentivirus from the genome of a basal primate and implications for lentivirus evolution

(2008) R. J. Gifford et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A quantitative atlas of mitotic phosphorylation

(2008) N. Dephoure et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification of a RELIK orthologue in the European hare (Lepus europaeus) reveals a minimum age of 12 million years for the lagomorph lentiviruses

(2008) Z. Keckesova et al.   VIROLOGY

Selective downmodulation of HLA-A and -B by Nef alleles from different groups of primate lentiviruses

(2007) Anke Specht et al.   VIROLOGY