CRISPR–Cas9 Genetic Analysis of Virus–Host Interactions

Harnessing CRISPR/Cas systems for programmable transcriptional and post-transcriptional regulation

(2018) Ahmed Mahas et al.   BIOTECHNOLOGY ADVANCES

Suppression of Epstein-Barr virus DNA load in latently infected nasopharyngeal carcinoma cells by CRISPR/Cas9

(2018) Kit-San Yuen et al.   VIRUS RESEARCH

Ephrin receptor A2 is an epithelial cell receptor for Epstein–Barr virus entry

(2018) Hua Zhang et al.   Nature Microbiology

Ephrin receptor A2 is a functional entry receptor for Epstein–Barr virus

(2018) Jia Chen et al.   Nature Microbiology

Epstein-Barr Virus LMP1-Mediated Oncogenicity

(2017) Liang Wei Wang et al.   JOURNAL OF VIROLOGY

The Revolution Continues: Newly Discovered Systems Expand the CRISPR-Cas Toolkit

(2017) Karthik Murugan et al.   MOLECULAR CELL

Genome-scale activation screen identifies a lncRNA locus regulating a gene neighbourhood

(2017) Julia Joung et al.   NATURE

RNA targeting with CRISPR–Cas13

(2017) Omar O. Abudayyeh et al.   NATURE

In vivo CRISPR screening identifies Ptpn2 as a cancer immunotherapy target

(2017) Robert T. Manguso et al.   NATURE

Orthologous CRISPR–Cas9 enzymes for combinatorial genetic screens

(2017) Fadi J Najm et al.   NATURE BIOTECHNOLOGY

Am I ready for CRISPR? A user's guide to genetic screens

(2017) John G. Doench   NATURE REVIEWS GENETICS

A CRISPR toolbox to study virus–host interactions

(2017) Andreas S. Puschnik et al.   NATURE REVIEWS MICROBIOLOGY

Non-homologous DNA end joining and alternative pathways to double-strand break repair

(2017) Howard H. Y. Chang et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Epstein–Barr virus-associated lymphomas

(2017) Claire Shannon-Lowe et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Epstein–Barr virus infection and nasopharyngeal carcinoma

(2017) Sai Wah Tsao et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Genetic factors affecting EBV copy number in lymphoblastoid cell lines derived from the 1000 Genome Project samples

(2017) Rajendra Mandage et al.   PLoS One

Mouse model of Epstein–Barr virus LMP1- and LMP2A-driven germinal center B-cell lymphoproliferative disease

(2017) Takeharu Minamitani et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA editing with CRISPR-Cas13

(2017) David B. T. Cox et al.   SCIENCE

Nucleic acid detection with CRISPR-Cas13a/C2c2

(2017) Jonathan S. Gootenberg et al.   SCIENCE

A Temporal Proteomic Map of Epstein-Barr Virus Lytic Replication in B Cells

(2017) Ina Ersing et al.   Cell Reports

A CRISPR Activation Screen Identifies a Pan-avian Influenza Virus Inhibitory Host Factor

(2017) Brook E. Heaton et al.   Cell Reports

Evaluation of RNAi and CRISPR technologies by large-scale gene expression profiling in the Connectivity Map

(2017) Ian Smith et al.   PLOS BIOLOGY

An essential EBV latent antigen 3C binds Bcl6 for targeted degradation and cell proliferation

(2017) Yonggang Pei et al.   PLoS Pathogens

Multiplex Enhancer Interference Reveals Collaborative Control of Gene Regulation by Estrogen Receptor α-Bound Enhancers

(2017) Julia B. Carleton et al.   Cell Systems

IRAK4 is essential for TLR9-induced suppression of Epstein-Barr virus BZLF1 transcription in Akata Burkitt’s lymphoma cells

(2017) Marc Jordi et al.   PLoS One

Long Noncoding RNAs in Cancer Pathways

(2016) Adam M. Schmitt et al.   CANCER CELL

Highly Efficient CRISPR/Cas9-Mediated Cloning and Functional Characterization of Gastric Cancer-Derived Epstein-Barr Virus Strains

(2016) Teru Kanda et al.   JOURNAL OF VIROLOGY

A CRISPR screen defines a signal peptide processing pathway required by flaviviruses

(2016) Rong Zhang et al.   NATURE

Genetic dissection of Flaviviridae host factors through genome-scale CRISPR screens

(2016) Caleb D. Marceau et al.   NATURE

High-fidelity CRISPR–Cas9 nucleases with no detectable genome-wide off-target effects

(2016) Benjamin P. Kleinstiver et al.   NATURE

Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9

(2016) John G Doench et al.   NATURE BIOTECHNOLOGY

A genome-wide CRISPR screen identifies a restricted set of HIV host dependency factors

(2016) Ryan J Park et al.   NATURE GENETICS

Core binding factor (CBF) is required for Epstein-Barr virus EBNA3 proteins to regulate target gene expression

(2016) Kostas Paschos et al.   NUCLEIC ACIDS RESEARCH

Functional receptor molecules CD300lf and CD300ld within the CD300 family enable murine noroviruses to infect cells

(2016) Kei Haga et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Discovery of a proteinaceous cellular receptor for a norovirus

(2016) R. C. Orchard et al.   SCIENCE

CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells

(2016) S. John Liu et al.   SCIENCE

A global genetic interaction network maps a wiring diagram of cellular function

(2016) M. Costanzo et al.   SCIENCE

Genomic Copy Number Dictates a Gene-Independent Cell Response to CRISPR/Cas9 Targeting

(2016) A. J. Aguirre et al.   Cancer Discovery

A CRISPR Dropout Screen Identifies Genetic Vulnerabilities and Therapeutic Targets in Acute Myeloid Leukemia

(2016) Konstantinos Tzelepis et al.   Cell Reports

Identification of Zika Virus and Dengue Virus Dependency Factors using Functional Genomics

(2016) George Savidis et al.   Cell Reports

Gene Editing Approaches against Viral Infections and Strategy to Prevent Occurrence of Viral Escape

(2016) Martyn K. White et al.   PLoS Pathogens

CRISPR/Cas9-Mediated Genome Editing of Herpesviruses Limits Productive and Latent Infections

(2016) Ferdy R. van Diemen et al.   PLoS Pathogens

A Viral microRNA Cluster Regulates the Expression of PTEN, p27 and of a bcl-2 Homolog

(2016) Katharina Bernhardt et al.   PLoS Pathogens

MYC activation and BCL2L11 silencing by a tumour virus through the large-scale reconfiguration of enhancer-promoter hubs

(2016) C David Wood et al.   eLife

Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation

(2016) Max A Horlbeck et al.   eLife

Nucleosomes impede Cas9 access to DNA in vivo and in vitro

(2016) Max A Horlbeck et al.   eLife

Epstein–Barr Virus: Diseases Linked to Infection and Transformation

(2016) Hem C. Jha et al.   Frontiers in Microbiology

Optimization of genome editing through CRISPR-Cas9 engineering

(2016) Jian-Hua Zhang et al.   Bioengineered

A CRISPR-Cas9 Assisted Non-Homologous End-Joining Strategy for One-step Engineering of Bacterial Genome

(2016) Tianyuan Su et al.   Scientific Reports

Genome-wide CRISPR Screen in a Mouse Model of Tumor Growth and Metastasis

(2015) Sidi Chen et al.   CELL

A Genome-wide CRISPR Screen in Primary Immune Cells to Dissect Regulatory Networks

(2015) Oren Parnas et al.   CELL

Epstein-Barr Virus Oncoprotein Super-enhancers Control B Cell Growth

(2015) Hufeng Zhou et al.   Cell Host & Microbe

From Discovery to Function: The Expanding Roles of Long NonCoding RNAs in Physiology and Disease

(2015) Miao Sun et al.   ENDOCRINE REVIEWS

Genetic screens and functional genomics using CRISPR/Cas9 technology

(2015) Ella Hartenian et al.   FEBS Journal

Efficiently Editing the Vaccinia Virus Genome by Using the CRISPR-Cas9 System

(2015) Ming Yuan et al.   JOURNAL OF VIROLOGY

EBV-miR-BHRF1-2 targets PRDM1/Blimp1: potential role in EBV lymphomagenesis

(2015) J Ma et al.   LEUKEMIA

In vivo genome editing using Staphylococcus aureus Cas9

(2015) F. Ann Ran et al.   NATURE

Broadening the targeting range of Staphylococcus aureus CRISPR-Cas9 by modifying PAM recognition

(2015) Benjamin P Kleinstiver et al.   NATURE BIOTECHNOLOGY

Unbiased detection of off-target cleavage by CRISPR-Cas9 and TALENs using integrase-defective lentiviral vectors

(2015) Xiaoling Wang et al.   NATURE BIOTECHNOLOGY

Increasing the efficiency of homology-directed repair for CRISPR-Cas9-induced precise gene editing in mammalian cells

(2015) Van Trung Chu et al.   NATURE BIOTECHNOLOGY

Highly efficient Cas9-mediated transcriptional programming

(2015) Alejandro Chavez et al.   NATURE METHODS

High-throughput functional genomics using CRISPR–Cas9

(2015) Ophir Shalem et al.   NATURE REVIEWS GENETICS

Identification and characterization of essential genes in the human genome

(2015) T. Wang et al.   SCIENCE

A CRISPR-Based Screen Identifies Genes Essential for West-Nile-Virus-Induced Cell Death

(2015) Hongming Ma et al.   Cell Reports

Differentiation-Dependent KLF4 Expression Promotes Lytic Epstein-Barr Virus Infection in Epithelial Cells

(2015) Dhananjay M. Nawandar et al.   PLoS Pathogens

The EBNA3 Family of Epstein-Barr Virus Nuclear Proteins Associates with the USP46/USP12 Deubiquitination Complexes to Regulate Lymphoblastoid Cell Line Growth

(2015) Makoto Ohashi et al.   PLoS Pathogens

TRAF1 Coordinates Polyubiquitin Signaling to Enhance Epstein-Barr Virus LMP1-Mediated Growth and Survival Pathway Activation

(2015) Hannah Greenfeld et al.   PLoS Pathogens

A Protein-Tagging System for Signal Amplification in Gene Expression and Fluorescence Imaging

(2014) Marvin E. Tanenbaum et al.   CELL

Genome-Scale CRISPR-Mediated Control of Gene Repression and Activation

(2014) Luke A. Gilbert et al.   CELL

Cut Site Selection by the Two Nuclease Domains of the Cas9 RNA-guided Endonuclease

(2014) Hongfan Chen et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Cellular Differentiation Regulator BLIMP1 Induces Epstein-Barr Virus Lytic Reactivation in Epithelial and B Cells by Activating Transcription from both the R and Z Promoters

(2014) Jessica A. Reusch et al.   JOURNAL OF VIROLOGY

Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells

(2014) Xuebing Wu et al.   NATURE BIOTECHNOLOGY

Rational design of highly active sgRNAs for CRISPR-Cas9–mediated gene inactivation

(2014) John G Doench et al.   NATURE BIOTECHNOLOGY

The sweet spot: defining virus–sialic acid interactions

(2014) Jennifer E. Stencel-Baerenwald et al.   NATURE REVIEWS MICROBIOLOGY

Sustained active site rigidity during synthesis by human DNA polymerase μ

(2014) Andrea F Moon et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

RNA-guided endonuclease provides a therapeutic strategy to cure latent herpesviridae infection

(2014) J. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Epstein–Barr virus nuclear antigen 3A partially coincides with EBNA3C genome-wide and is tethered to DNA through BATF complexes

(2014) Stefanie C. S. Schmidt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The NF-κB Genomic Landscape in Lymphoblastoid B Cells

(2014) Bo Zhao et al.   Cell Reports

Oncogenic Mechanisms in Burkitt Lymphoma

(2014) R. Schmitz et al.   Cold Spring Harbor Perspectives in Medicine

Is Non-Homologous End-Joining Really an Inherently Error-Prone Process?

(2014) Mireille Bétermier et al.   PLoS Genetics

High-Efficiency Targeted Editing of Large Viral Genomes by RNA-Guided Nucleases

(2014) Yanwei Bi et al.   PLoS Pathogens

Gammaherpesviruses and Lymphoproliferative Disorders

(2013) Ethel Cesarman   Annual Review of Pathology-Mechanisms of Disease

Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression

(2013) Lei S. Qi et al.   CELL

Double Nicking by RNA-Guided CRISPR Cas9 for Enhanced Genome Editing Specificity

(2013) F. Ann Ran et al.   CELL

CRISPR-Mediated Modular RNA-Guided Regulation of Transcription in Eukaryotes

(2013) Luke A. Gilbert et al.   CELL

RNA-guided gene activation by CRISPR-Cas9–based transcription factors

(2013) Pablo Perez-Pinera et al.   NATURE METHODS

Epstein-Barr Virus Nuclear Antigen 3C binds to BATF/IRF4 or SPI1/IRF4 composite sites and recruits Sin3A to repress CDKN2A

(2013) S. Jiang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Scale CRISPR-Cas9 Knockout Screening in Human Cells

(2013) Ophir Shalem et al.   SCIENCE

Genetic Screens in Human Cells Using the CRISPR-Cas9 System

(2013) Tim Wang et al.   SCIENCE

Multiplex Genome Engineering Using CRISPR/Cas Systems

(2013) L. Cong et al.   SCIENCE

The EBV Latent Antigen 3C Inhibits Apoptosis through Targeted Regulation of Interferon Regulatory Factors 4 and 8

(2013) Shuvomoy Banerjee et al.   PLoS Pathogens

Modulation of Enhancer Looping and Differential Gene Targeting by Epstein-Barr Virus Transcription Factors Directs Cellular Reprogramming

(2013) Michael J. McClellan et al.   PLoS Pathogens

EBV finds a polycomb-mediated, epigenetic solution to the problem of oncogenic stress responses triggered by infection

(2013) Martin J. Allday   Frontiers in Genetics

Genome Regulation by Long Noncoding RNAs

(2012) John L. Rinn et al.   Annual Review of Biochemistry

Roles of BCL6 in normal and transformed germinal center B cells

(2012) Katia Basso et al.   IMMUNOLOGICAL REVIEWS

Lytic Epstein-Barr virus infection in epithelial cells but not in B-lymphocytes is dependent on Blimp1

(2012) M. Buettner et al.   JOURNAL OF GENERAL VIROLOGY

Analysis of Epstein-Barr Virus-Regulated Host Gene Expression Changes through Primary B-Cell Outgrowth Reveals Delayed Kinetics of Latent Membrane Protein 1-Mediated NF- B Activation

(2012) A. M. Price et al.   JOURNAL OF VIROLOGY

RNA-guided genetic silencing systems in bacteria and archaea

(2012) Blake Wiedenheft et al.   NATURE

BIM promoter directly targeted by EBNA3C in polycomb-mediated repression by EBV

(2012) Kostas Paschos et al.   NUCLEIC ACIDS RESEARCH

A Programmable Dual-RNA-Guided DNA Endonuclease in Adaptive Bacterial Immunity

(2012) M. Jinek et al.   SCIENCE

A review of influenza haemagglutinin receptor binding as it relates to pandemic properties

(2012) Sam Wilks et al.   VACCINE

CRISPR-Cas Systems in Bacteria and Archaea: Versatile Small RNAs for Adaptive Defense and Regulation

(2011) Devaki Bhaya et al.   Annual Review of Genetics

CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III

(2011) Elitza Deltcheva et al.   NATURE

Epstein-Barr virus exploits intrinsic B-lymphocyte transcription programs to achieve immortal cell growth

(2011) B. Zhao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Epstein-Barr Virus: An Important Vaccine Target for Cancer Prevention

(2011) J. I. Cohen et al.   Science Translational Medicine

Roles of TRAF2 and TRAF3 in Epstein-Barr virus latent membrane protein 1-induced alternative NF-κB activation

(2010) Yoon-Jae Song et al.   VIRUS GENES

KRAB–Zinc Finger Proteins and KAP1 Can Mediate Long-Range Transcriptional Repression through Heterochromatin Spreading

(2010) Anna C. Groner et al.   PLoS Genetics

Epigenetic Repression of p16INK4A by Latent Epstein-Barr Virus Requires the Interaction of EBNA3A and EBNA3C with CtBP

(2010) Lenka Skalska et al.   PLoS Pathogens

Evolution and Functions of Long Noncoding RNAs

(2009) Chris P. Ponting et al.   CELL

Recognizing and avoiding siRNA off-target effects for target identification and therapeutic application

(2009) Aimee L. Jackson et al.   NATURE REVIEWS DRUG DISCOVERY