KSHV 2.0: A Comprehensive Annotation of the Kaposi's Sarcoma-Associated Herpesvirus Genome Using Next-Generation Sequencing Reveals Novel Genomic and Functional Features

Ribosome Profiling Provides Evidence that Large Noncoding RNAs Do Not Encode Proteins

(2013) Mitchell Guttman et al.   CELL

A Virally Encoded Small Peptide Regulates RTA Stability and Facilitates Kaposi's Sarcoma-Associated Herpesvirus Lytic Replication

(2013) T. Jaber et al.   JOURNAL OF VIROLOGY

Comprehensive Mapping and Analysis of Kaposi's Sarcoma-Associated Herpesvirus 3′ UTRs Identify Differential Posttranscriptional Control of Gene Expression in Lytic versus Latent Infection

(2013) Lydia V. McClure et al.   JOURNAL OF VIROLOGY

An Upstream Open Reading Frame Modulates Ebola Virus Polymerase Translation and Virus Replication

(2013) Reed S. Shabman et al.   PLoS Pathogens

A Viral Genome Landscape of RNA Polyadenylation from KSHV Latent to Lytic Infection

(2013) Vladimir Majerciak et al.   PLoS Pathogens

Dual Short Upstream Open Reading Frames Control Translation of a Herpesviral Polycistronic mRNA

(2013) Lisa M. Kronstad et al.   PLoS Pathogens

A-to-I editing of protein coding and noncoding RNAs

(2012) Arka Mallela et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

Genome-wide search for novel human uORFs and N-terminal protein extensions using ribosomal footprinting

(2012) C. Fritsch et al.   GENOME RESEARCH

The enduring enigma of nuclear translation: Figure 1.

(2012) David W. Reid et al.   JOURNAL OF CELL BIOLOGY

Nuclear translation visualized by ribosome-bound nascent chain puromycylation

(2012) Alexandre David et al.   JOURNAL OF CELL BIOLOGY

ORF23 of murine gammaherpesvirus 68 is non-essential for in vitro and in vivo infection

(2012) S. Ohno et al.   JOURNAL OF GENERAL VIROLOGY

Kaposi's Sarcoma-Associated Herpesvirus ORF54/dUTPase Downregulates a Ligand for the NK Activating Receptor NKp44

(2012) Alexis Spain Madrid et al.   JOURNAL OF VIROLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments

(2012) Nicholas T Ingolia et al.   Nature Protocols

Decoding Human Cytomegalovirus

(2012) N. Stern-Ginossar et al.   SCIENCE

Positive and negative regulation in the promoter of the ORF46 gene of Kaposi's sarcoma-associated herpesvirus

(2012) Shie-Shan Wang et al.   VIRUS RESEARCH

KSHV PAN RNA Associates with Demethylases UTX and JMJD3 to Activate Lytic Replication through a Physical Interaction with the Virus Genome

(2012) Cyprian C. Rossetto et al.   PLoS Pathogens

Kaposi’s Sarcoma-Associated Herpesvirus microRNAs

(2012) Eva Gottwein   Frontiers in Microbiology

The Kaposi’s Sarcoma-Associated Herpesvirus ORF57 Protein and Its Multiple Roles in mRNA Biogenesis

(2012) Brian R. Jackson et al.   Frontiers in Microbiology

ADARs: allies or enemies? The importance of A-to-I RNA editing in human disease: from cancer to HIV-1

(2011) Angela Gallo et al.   BIOLOGICAL REVIEWS

Coupled transcriptome and proteome analysis of human lymphotropic tumor viruses: insights on the detection and discovery of viral genes

(2011) Lindsay R Dresang et al.   BMC GENOMICS

Ribosome Profiling of Mouse Embryonic Stem Cells Reveals the Complexity and Dynamics of Mammalian Proteomes

(2011) Nicholas T. Ingolia et al.   CELL

Putatively Noncoding Transcripts Show Extensive Association with Ribosomes

(2011) Benjamin A. Wilson et al.   Genome Biology and Evolution

Phosphorylation of eIF2 Facilitates Ribosomal Bypass of an Inhibitory Upstream ORF to EnhanceCHOPTranslation

(2011) Lakshmi Reddy Palam et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Generation of a doxycycline-inducible KSHV producer cell line of endothelial origin: Maintenance of tight latency with efficient reactivation upon induction

(2011) Jinjong Myoung et al.   JOURNAL OF VIROLOGICAL METHODS

Distinct Domains in ORF52 Tegument Protein Mediate Essential Functions in Murine Gammaherpesvirus 68 Virion Tegumentation and Secondary Envelopment

(2011) L. Wang et al.   JOURNAL OF VIROLOGY

Reconstitution of the Kaposi's Sarcoma-Associated Herpesvirus Nuclear Egress Complex and Formation of Nuclear Membrane Vesicles by Coexpression of ORF67 and ORF69 Gene Products

(2011) P. J. Desai et al.   JOURNAL OF VIROLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

An upstream ORF with non-AUG start codon is translated in vivo but dispensable for translational control of GCN4 mRNA

(2011) F. Zhang et al.   NUCLEIC ACIDS RESEARCH

Stringency of start codon selection modulates autoregulation of translation initiation factor eIF5

(2011) Gary Loughran et al.   NUCLEIC ACIDS RESEARCH

Discovery of a Viral NLR Homolog that Inhibits the Inflammasome

(2011) S. M. Gregory et al.   SCIENCE

A cluster of transcripts encoded by KSHV ORF30-33 gene locus

(2011) Zhiqiang Bai et al.   VIRUS GENES

Coordinated Destruction of Cellular Messages in Translation Complexes by the Gammaherpesvirus Host Shutoff Factor and the Mammalian Exonuclease Xrn1

(2011) Sergio Covarrubias et al.   PLoS Pathogens

Functions and Regulation of RNA Editing by ADAR Deaminases

(2010) Kazuko Nishikura   Annual Review of Biochemistry

MochiView: versatile software for genome browsing and DNA motif analysis

(2010) Oliver R Homann et al.   BMC BIOLOGY

KSHV and the pathogenesis of Kaposi sarcoma: listening to human biology and medicine

(2010) Don Ganem   JOURNAL OF CLINICAL INVESTIGATION

The Kaposi’s sarcoma-associated herpesvirus ORF6 DNA binding protein forms long DNA-free helical protein filaments

(2010) Sezgin Ozgur et al.   JOURNAL OF STRUCTURAL BIOLOGY

The Lytic Transcriptome of Kaposi's Sarcoma-Associated Herpesvirus Reveals Extensive Transcription of Noncoding Regions, Including Regions Antisense to Important Genes

(2010) S. Chandriani et al.   JOURNAL OF VIROLOGY

Making Sense of Antisense: Seemingly Noncoding RNAs Antisense to the Master Regulator of Kaposi's Sarcoma-Associated Herpesvirus Lytic Replication Do Not Regulate That Transcript but Serve as mRNAs Encoding Small Peptides

(2010) Y. Xu et al.   JOURNAL OF VIROLOGY

Inhibition of eukaryotic translation elongation by cycloheximide and lactimidomycin

(2010) Tilman Schneider-Poetsch et al.   Nature Chemical Biology

HMMSplicer: A Tool for Efficient and Sensitive Discovery of Known and Novel Splice Junctions in RNA-Seq Data

(2010) Michelle T. Dimon et al.   PLoS One

Initiation context modulates autoregulation of eukaryotic translation initiation factor 1 (eIF1)

(2010) I. P. Ivanov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Epigenetic Analysis of KSHV Latent and Lytic Genomes

(2010) Zsolt Toth et al.   PLoS Pathogens

The Epigenetic Landscape of Latent Kaposi Sarcoma-Associated Herpesvirus Genomes

(2010) Thomas Günther et al.   PLoS Pathogens

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Recombinant ORF66 and ORFK12 antigens for the detection of human herpesvirus 8 antibodies in HIV-positive and -negative patients

(2009) Tsuey-Ching Yang et al.   BIOTECHNOLOGY LETTERS

Kaposi's sarcoma-associated herpesvirus ORF57 in viral RNA processing

(2009) Vladimir Majerciak   Frontiers in Bioscience-Landmark

Mechanism of Sustained Activation of Ribosomal S6 Kinase (RSK) and ERK by Kaposi Sarcoma-associated Herpesvirus ORF45

(2009) Ersheng Kuang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Wide-Scale Use of Notch Signaling Factor CSL/RBP-J  in RTA-Mediated Activation of Kaposi's Sarcoma-Associated Herpesvirus Lytic Genes

(2009) L. M. Persson et al.   JOURNAL OF VIROLOGY

A Kaposi's Sarcoma-Associated Herpesvirus Protein That Forms Inhibitory Complexes with Type I Interferon Receptor Subunits, Jak and STAT Proteins, and Blocks Interferon-Mediated Signal Transduction

(2009) S. A. Bisson et al.   JOURNAL OF VIROLOGY

Open Reading Frame 33 of a Gammaherpesvirus Encodes a Tegument Protein Essential for Virion Morphogenesis and Egress

(2009) H. Guo et al.   JOURNAL OF VIROLOGY

Upstream open reading frames cause widespread reduction of protein expression and are polymorphic among humans

(2009) S. E. Calvo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling

(2009) N. T. Ingolia et al.   SCIENCE

Activation of Host Translational Control Pathways by a Viral Developmental Switch

(2009) Carolina Arias et al.   PLoS Pathogens

Identification and Characterization of the Product Encoded by ORF69 of Kaposi's Sarcoma-Associated Herpesvirus

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

Transcriptional regulation of the open reading frame 35 encoded by Kaposi's Sarcoma-associated herpesvirus

(2007) Shiri-Rivka Masa et al.   VIROLOGY