Analysis of cell-associated DENV RNA by oligo(dT) primed 5’ capture scRNAseq

West Nile virus-inclusive single-cell RNA sequencing reveals heterogeneity in the type I interferon response within single cells

(2019) Justin T. O’Neal et al.   JOURNAL OF VIROLOGY

Single-cell virus sequencing of influenza infections that trigger innate immunity

(2019) Alistair B. Russell et al.   JOURNAL OF VIROLOGY

Robust mapping of polyadenylated and non-polyadenylated RNA 3’-ends at nucleotide resolution by 3́end sequencing

(2019) Kevin Roy et al.   METHODS

Single-Cell RNA-Seq Technologies and Related Computational Data Analysis

(2019) Geng Chen et al.   Frontiers in Genetics

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Single-cell transcriptional dynamics of flavivirus infection

(2018) Fabio Zanini et al.   eLife

Dissection of Influenza Infection In Vivo by Single-Cell RNA Sequencing

(2018) Yael Steuerman et al.   Cell Systems

Virus-inclusive single-cell RNA sequencing reveals the molecular signature of progression to severe dengue

(2018) Fabio Zanini et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Pervasive tertiary structure in the dengue virus RNA genome

(2018) Elizabeth A. Dethoff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

UMI-tools: modeling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy

(2017) Tom Smith et al.   GENOME RESEARCH

Dengue diversity across spatial and temporal scales: Local structure and the effect of host population size

(2017) Henrik Salje et al.   SCIENCE

Massively parallel digital transcriptional profiling of single cells

(2017) Grace X. Y. Zheng et al.   Nature Communications

Dengue

(2015) Maria G Guzman et al.   LANCET

Compartmentalization, Viral Evolution, and Viral Latency of HIV in the CNS

(2015) Maria M. Bednar et al.   Current HIV/AIDS Reports

Full-length RNA-seq from single cells using Smart-seq2

(2014) Simone Picelli et al.   Nature Protocols

Monocyte Recruitment to the Dermis and Differentiation to Dendritic Cells Increases the Targets for Dengue Virus Replication

(2014) Michael A. Schmid et al.   PLoS Pathogens

Characteristics of Mild Dengue Virus Infection in Thai Children

(2013) In-Kyu Yoon et al.   AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE

Novel cis-Acting Element within the Capsid-Coding Region Enhances Flavivirus Viral-RNA Replication by Regulating Genome Cyclization

(2013) Z.-Y. Liu et al.   JOURNAL OF VIROLOGY

The global distribution and burden of dengue

(2013) Samir Bhatt et al.   NATURE

Dengue Viral RNA Levels in Peripheral Blood Mononuclear Cells Are Associated with Disease Severity and Preexisting Dengue Immune Status

(2012) Anon Srikiatkhachorn et al.   PLoS One

Economic Impact of Dengue Illness in the Americas

(2011) Donald S. Shepard et al.   AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Dengue virus life cycle: viral and host factors modulating infectivity

(2010) Izabela A. Rodenhuis-Zybert et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

The Mannose Receptor Mediates Dengue Virus Infection of Macrophages

(2008) Joanna L. Miller et al.   PLoS Pathogens

The capsid-coding region hairpin element (cHP) is a critical determinant of dengue virus and West Nile virus RNA synthesis

(2008) Karen Clyde et al.   VIROLOGY