Comprehensive annotations of human herpesvirus 6A and 6B genomes reveal novel and conserved genomic features

Direct RNA sequencing on nanopore arrays redefines the transcriptional complexity of a viral pathogen

(2019) Daniel P. Depledge et al.   Nature Communications

Nucleotide Resolution Comparison of Transcription of Human Cytomegalovirus and Host Genomes Reveals Universal Use of RNA Polymerase II Elongation Control Driven by Dissimilar Core Promoter Elements

(2019) Mrutyunjaya Parida et al.   mBio

Genome-wide Transcript Structure Resolution Reveals Abundant Alternate Isoform Usage from Murine Gammaherpesvirus 68

(2019) Tina O’Grady et al.   Cell Reports

Comparative genomic, transcriptomic, and proteomic reannotation of human herpesvirus 6

(2018) Alexander L. Greninger et al.   BMC GENOMICS

Alzheimer’s Disease-Associated β-Amyloid Is Rapidly Seeded by Herpesviridae to Protect against Brain Infection

(2018) William A. Eimer et al.   NEURON

Multiscale Analysis of Independent Alzheimer’s Cohorts Finds Disruption of Molecular, Genetic, and Clinical Networks by Human Herpesvirus

(2018) Ben Readhead et al.   NEURON

Translational profiling of B cells infected with the Epstein-Barr virus reveals 5′ leader ribosome recruitment through upstream open reading frames

(2018) Maja Bencun et al.   NUCLEIC ACIDS RESEARCH

Whole genome diversity of inherited chromosomally integrated HHV-6 derived from healthy individuals of diverse geographic origin

(2018) Marco Telford et al.   Scientific Reports

Active HHV-6 Infection of Cerebellar Purkinje Cells in Mood Disorders

(2018) Bhupesh K. Prusty et al.   Frontiers in Microbiology

Dual Platform Long-Read RNA-Sequencing Dataset of the Human Cytomegalovirus Lytic Transcriptome

(2018) Zsolt Balázs et al.   Frontiers in Genetics

HHV-6 encoded small non-coding RNAs define an intermediate and early stage in viral reactivation

(2018) Bhupesh K. Prusty et al.   npj Genomic Medicine

Virus-Induced Changes in mRNA Secondary Structure Uncover cis-Regulatory Elements that Directly Control Gene Expression

(2018) Orel Mizrahi et al.   MOLECULAR CELL

The pUL37 tegument protein guides alpha-herpesvirus retrograde axonal transport to promote neuroinvasion

(2017) Alexsia L. Richards et al.   PLoS Pathogens

Long-Read Isoform Sequencing Reveals a Hidden Complexity of the Transcriptional Landscape of Herpes Simplex Virus Type 1

(2017) Dóra Tombácz et al.   Frontiers in Microbiology

Long-Read Sequencing of Human Cytomegalovirus Transcriptome Reveals RNA Isoforms Carrying Distinct Coding Potentials

(2017) Zsolt Balázs et al.   Scientific Reports

Stable intronic sequence RNAs (sisRNAs): a new layer of gene regulation

(2016) Ismail Osman et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Clinical and laboratory features of human herpesvirus 6 chromosomal integration

(2016) D.A. Clark   CLINICAL MICROBIOLOGY AND INFECTION

Upstream ORFs are prevalent translational repressors in vertebrates

(2016) Timothy G Johnstone et al.   EMBO JOURNAL

Upstream Open Reading Frames Differentially Regulate Gene-specific Translation in the Integrated Stress Response

(2016) Sara K. Young et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Integrative classification of human coding and noncoding genes through RNA metabolism profiles

(2016) Neelanjan Mukherjee et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Global transcript structure resolution of high gene density genomes through multi-platform data integration

(2016) Tina O'Grady et al.   NUCLEIC ACIDS RESEARCH

Integrative classification of human coding and noncoding genes through RNA metabolism profiles

(2016) Neelanjan Mukherjee et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Viral noncoding RNAs: more surprises

(2015) Kazimierz T. Tycowski et al.   GENES & DEVELOPMENT

A Regression-Based Analysis of Ribosome-Profiling Data Reveals a Conserved Complexity to Mammalian Translation

(2015) Alexander P. Fields et al.   MOLECULAR CELL

The Transcription and Translation Landscapes during Human Cytomegalovirus Infection Reveal Novel Host-Pathogen Interactions

(2015) Osnat Tirosh et al.   PLoS Pathogens

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

(2014) Michael P. Weekes et al.   CELL

A Human Herpesvirus 6A-Encoded MicroRNA: Role in Viral Lytic Replication

(2014) Masatoshi Nukui et al.   JOURNAL OF VIROLOGY

Evidence linking HHV-6 with multiple sclerosis: an update

(2014) Emily C Leibovitch et al.   Current Opinion in Virology

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

(2014) Carolina Arias et al.   PLoS Pathogens

Classification of HHV-6A and HHV-6B as distinct viruses

(2013) Dharam Ablashi et al.   ARCHIVES OF VIROLOGY

Mapping the telomere integrated genome of human herpesvirus 6A and 6B

(2013) Jesse H. Arbuckle et al.   VIROLOGY

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

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

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

(2013) Daehwan Kim et al.   GENOME BIOLOGY

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution

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

Decoding Human Cytomegalovirus

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

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

(2011) Nicholas T. Ingolia et al.   CELL

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

High-resolution human cytomegalovirus transcriptome

(2011) D. Gatherer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Chromosomally integrated human herpesvirus 6: questions and answers

(2011) Philip E. Pellett et al.   REVIEWS IN MEDICAL VIROLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Microarray-based determination of the lytic cascade of human herpesvirus 6B

(2009) E. H. Tsao et al.   JOURNAL OF GENERAL VIROLOGY

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

(2009) Ben Langmead et al.   GENOME BIOLOGY