Global Bidirectional Transcription of the Epstein-Barr Virus Genome during Reactivation

Genome-wide analyses of Epstein-Barr virus reveal conserved RNA structures and a novel stable intronic sequence RNA

(2013) Walter N Moss et al.   BMC GENOMICS

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

Different Distributions of Epstein-Barr Virus Early and Late Gene Transcripts within Viral Replication Compartments

(2013) A. Sugimoto et al.   JOURNAL OF VIROLOGY

Regulation of Viral and Cellular Gene Expression by Kaposi's Sarcoma-Associated Herpesvirus Polyadenylated Nuclear RNA

(2013) C. C. Rossetto et al.   JOURNAL OF VIROLOGY

The long non-coding RNA Gomafu is acutely regulated in response to neuronal activation and involved in schizophrenia-associated alternative splicing

(2013) G Barry et al.   MOLECULAR PSYCHIATRY

Structure and function of long noncoding RNAs in epigenetic regulation

(2013) Tim R Mercer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

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

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Technique for strand-specific gene-expression analysis and monitoring of primer-independent cDNA synthesis in reverse transcription

(2012) Lin Feng et al.   BIOTECHNIQUES

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

(2012) T. Derrien et al.   GENOME RESEARCH

Whole-Genome Sequencing of the Akata and Mutu Epstein-Barr Virus Strains

(2012) Z. Lin et al.   JOURNAL OF VIROLOGY

Peptidomic discovery of short open reading frame–encoded peptides in human cells

(2012) Sarah A Slavoff et al.   Nature Chemical Biology

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Decoding Human Cytomegalovirus

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

Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses

(2011) M. N. Cabili et al.   GENES & DEVELOPMENT

Identification of New Viral Genes and Transcript Isoforms during Epstein-Barr Virus Reactivation using RNA-Seq

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

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

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

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

Transcription of the Herpes Simplex Virus Latency-Associated Transcript Promotes the Formation of Facultative Heterochromatin on Lytic Promoters

(2009) A. R. Cliffe et al.   JOURNAL OF VIROLOGY

RNA-dependent recruitment of the origin recognition complex

(2008) Julie Norseen et al.   EMBO JOURNAL