Precision genome editing: A small revolution for glycobiology

Polypeptide N-acetylgalactosaminyltransferase 6 Disrupts Mammary Acinar Morphogenesis through O-glycosylation of Fibronectin

(2015) Jae-Hyun Park et al.   NEOPLASIA

Improving CRISPR-Cas nuclease specificity using truncated guide RNAs

(2014) Yanfang Fu et al.   NATURE BIOTECHNOLOGY

CRISPR-Cas systems for editing, regulating and targeting genomes

(2014) Jeffry D Sander et al.   NATURE BIOTECHNOLOGY

Broad specificity profiling of TALENs results in engineered nucleases with improved DNA-cleavage specificity

(2014) John P Guilinger et al.   NATURE METHODS

Cell-Penetrating Peptide-Mediated Delivery of TALEN Proteins via Bioconjugation for Genome Engineering

(2014) Jia Liu et al.   PLoS One

Establishment of HeLa Cell Mutants Deficient in Sphingolipid-Related Genes Using TALENs

(2014) Toshiyuki Yamaji et al.   PLoS One

Redesign of extensive protein-DNA interfaces of meganucleases using iterative cycles of in vitro compartmentalization

(2014) R. Takeuchi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome Engineering at the Dawn of the Golden Age

(2013) David J. Segal et al.   Annual Review of Genomics and Human Genetics

Creating a TALE protein with unbiased 5′-T binding

(2013) Shogo Tsuji et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

One-Step Generation of Mice Carrying Mutations in Multiple Genes by CRISPR/Cas-Mediated Genome Engineering

(2013) Haoyi Wang et al.   CELL

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

(2013) F. Ann Ran et al.   CELL

Precision mapping of the human O-GalNAc glycoproteome through SimpleCell technology

(2013) Catharina Steentoft et al.   EMBO JOURNAL

Analysis of off-target effects of CRISPR/Cas-derived RNA-guided endonucleases and nickases

(2013) S. W. Cho et al.   GENOME RESEARCH

Understanding Human Glycosylation Disorders: Biochemistry Leads the Charge

(2013) Hudson H. Freeze   JOURNAL OF BIOLOGICAL CHEMISTRY

Engineering Chinese Hamster Ovary (CHO) cells for producing recombinant proteins with simple glycoforms by zinc-finger nuclease (ZFN)—mediated gene knockout of mannosyl (alpha-1,3-)-glycoprotein beta-1,2-N-acetylglucosaminyltransferase (Mgat1)

(2013) Natalie R. Sealover et al.   JOURNAL OF BIOTECHNOLOGY

Enhanced Mass Spectrometric Mapping of the Human GalNAc-typeO-Glycoproteome with SimpleCells

(2013) Sergey Y. Vakhrushev et al.   MOLECULAR & CELLULAR PROTEOMICS

Reading Frame Correction by Targeted Genome Editing Restores Dystrophin Expression in Cells From Duchenne Muscular Dystrophy Patients

(2013) David G Ousterout et al.   MOLECULAR THERAPY

TALEN-based Gene Correction for Epidermolysis Bullosa

(2013) Mark J Osborn et al.   MOLECULAR THERAPY

CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering

(2013) Prashant Mali et al.   NATURE BIOTECHNOLOGY

DNA targeting specificity of RNA-guided Cas9 nucleases

(2013) Patrick D Hsu et al.   NATURE BIOTECHNOLOGY

Targeted genome engineering in human cells with the Cas9 RNA-guided endonuclease

(2013) Seung Woo Cho et al.   NATURE BIOTECHNOLOGY

Genomic landscapes of Chinese hamster ovary cell lines as revealed by the Cricetulus griseus draft genome

(2013) Nathan E Lewis et al.   NATURE BIOTECHNOLOGY

High-throughput profiling of off-target DNA cleavage reveals RNA-programmed Cas9 nuclease specificity

(2013) Vikram Pattanayak et al.   NATURE BIOTECHNOLOGY

High-frequency off-target mutagenesis induced by CRISPR-Cas nucleases in human cells

(2013) Yanfang Fu et al.   NATURE BIOTECHNOLOGY

Cas9 as a versatile tool for engineering biology

(2013) Prashant Mali et al.   NATURE METHODS

Orthogonal Cas9 proteins for RNA-guided gene regulation and editing

(2013) Kevin M Esvelt et al.   NATURE METHODS

Genome engineering using the CRISPR-Cas9 system

(2013) F Ann Ran et al.   Nature Protocols

Quantitative analysis of TALE–DNA interactions suggests polarity effects

(2013) Joshua F. Meckler et al.   NUCLEIC ACIDS RESEARCH

Receptor-mediated delivery of engineered nucleases for genome modification

(2013) Zhong Chen et al.   NUCLEIC ACIDS RESEARCH

CRISPR/Cas9 systems targeting β-globin and CCR5 genes have substantial off-target activity

(2013) Thomas J. Cradick et al.   NUCLEIC ACIDS RESEARCH

Directed evolution of the TALE N-terminal domain for recognition of all 5′ bases

(2013) Brian M. Lamb et al.   NUCLEIC ACIDS RESEARCH

Stability of Zinc Finger Nuclease Protein Is Enhanced by the Proteasome Inhibitor MG132

(2013) Suresh Ramakrishna et al.   PLoS One

Magnetic Separation and Antibiotics Selection Enable Enrichment of Cells with ZFN/TALEN-Induced Mutations

(2013) Hyojin Kim et al.   PLoS One

Direct production of mouse disease models by embryo microinjection of TALENs and oligodeoxynucleotides

(2013) B. Wefers et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Efficient genome engineering in human pluripotent stem cells using Cas9 from Neisseria meningitidis

(2013) Z. Hou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Protein O-mannosylation is crucial for E-cadherin-mediated cell adhesion

(2013) M. Lommel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mining the O-mannose glycoproteome reveals cadherins as major O-mannosylated glycoproteins

(2013) M. B. Vester-Christensen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SGK196 Is a Glycosylation-Specific O-Mannose Kinase Required for Dystroglycan Function

(2013) T. Yoshida-Moriguchi et al.   SCIENCE

Deciphering the Glycosylome of Dystroglycanopathies Using Haploid Screens for Lassa Virus Entry

(2013) L. T. Jae et al.   SCIENCE

RNA-Guided Human Genome Engineering via Cas9

(2013) P. Mali et al.   SCIENCE

Multiplex Genome Engineering Using CRISPR/Cas Systems

(2013) L. Cong et al.   SCIENCE

Compact designer TALENs for efficient genome engineering

(2013) Marine Beurdeley et al.   Nature Communications

Histone Deacetylase Inhibition Rescues Gene Knockout Levels Achieved with Integrase-Defective Lentiviral Vectors Encoding Zinc-Finger Nucleases

(2013) Laetitia P.L. Pelascini et al.   Human Gene Therapy Methods

RNA-programmed genome editing in human cells

(2013) Martin Jinek et al.   eLife

Quantitative assay for TALEN activity at endogenous genomic loci

(2013) Y. Hisano et al.   Biology Open

Expanding the Repertoire of Target Sites for Zinc Finger Nuclease-mediated Genome Modification

(2013) Kimberly A Wilson et al.   Molecular Therapy-Nucleic Acids

Site-specific protein O-glycosylation modulates proprotein processing — Deciphering specific functions of the large polypeptide GalNAc-transferase gene family

(2012) Katrine T.-B.G. Schjoldager et al.   BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS

In vivo cleavage of transgene donors promotes nuclease-mediated targeted integration

(2012) Sandra Cristea et al.   BIOTECHNOLOGY AND BIOENGINEERING

TALE nucleases: tailored genome engineering made easy

(2012) Claudio Mussolino et al.   CURRENT OPINION IN BIOTECHNOLOGY

Homing endonucleases: DNA scissors on a mission

(2012) Mohamed Hafez et al.   GENOME

Precision genome engineering with programmable DNA-nicking enzymes

(2012) E. Kim et al.   GENOME RESEARCH

Obligate Ligation-Gated Recombination (ObLiGaRe): Custom-designed nuclease-mediated targeted integration through nonhomologous end joining

(2012) M. Maresca et al.   GENOME RESEARCH

Identification of functional elements of the GDP-fucose transporter SLC35C1 using a novel Chinese hamster ovary mutant

(2012) Peiqing Zhang et al.   GLYCOBIOLOGY

In vivo genome editing using a high-efficiency TALEN system

(2012) Victoria M. Bedell et al.   NATURE

FLASH assembly of TALENs for high-throughput genome editing

(2012) Deepak Reyon et al.   NATURE BIOTECHNOLOGY

Targeted gene knockout by direct delivery of zinc-finger nuclease proteins

(2012) Thomas Gaj et al.   NATURE METHODS

Vertebrate protein glycosylation: diversity, synthesis and function

(2012) Kelley W. Moremen et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

TALENs: a widely applicable technology for targeted genome editing

(2012) J. Keith Joung et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Engineered zinc finger nickases induce homology-directed repair with reduced mutagenic effects

(2012) Cherie L. Ramirez et al.   NUCLEIC ACIDS RESEARCH

Chromosomal context and epigenetic mechanisms control the efficacy of genome editing by rare-cutting designer endonucleases

(2012) Fayza Daboussi et al.   NUCLEIC ACIDS RESEARCH

Iterative capped assembly: rapid and scalable synthesis of repeat-module DNA such as TAL effectors from individual monomers

(2012) Adrian W. Briggs et al.   NUCLEIC ACIDS RESEARCH

Monomeric site-specific nucleases for genome editing

(2012) B. P. Kleinstiver et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Probing isoform-specific functions of polypeptide GalNAc-transferases using zinc finger nuclease glycoengineered SimpleCells

(2012) K. T.- B. G. Schjoldager et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Efficient TALEN-mediated gene knockout in livestock

(2012) D. F. Carlson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2012) M. Jinek et al.   SCIENCE

Simple Methods for Generating and Detecting Locus-Specific Mutations Induced with TALENs in the Zebrafish Genome

(2012) Timothy J. Dahlem et al.   PLoS Genetics

Adding Fingers to an Engineered Zinc Finger Nuclease Can Reduce Activity

(2011) Yuka Shimizu et al.   BIOCHEMISTRY

Improving the efficiency of CHO cell line generation using glutamine synthetase gene knockout cells

(2011) Lianchun Fan et al.   BIOTECHNOLOGY AND BIOENGINEERING

Generation of Isogenic Pluripotent Stem Cells Differing Exclusively at Two Early Onset Parkinson Point Mutations

(2011) Frank Soldner et al.   CELL

Meganucleases and Other Tools for Targeted Genome Engineering: Perspectives and Challenges for Gene Therapy

(2011) George Silva et al.   CURRENT GENE THERAPY

Control of mucin-type O-glycosylation: A classification of the polypeptide GalNAc-transferase gene family

(2011) E. P. Bennett et al.   GLYCOBIOLOGY

A Systematic Study of Site-specific GalNAc-typeO-Glycosylation Modulating Proprotein Convertase Processing

(2011) Katrine Ter-Borch Gram Schjoldager et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Targeted gene correction of α1-antitrypsin deficiency in induced pluripotent stem cells

(2011) Kosuke Yusa et al.   NATURE

The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line

(2011) Xun Xu et al.   NATURE BIOTECHNOLOGY

An unbiased genome-wide analysis of zinc-finger nuclease specificity

(2011) Richard Gabriel et al.   NATURE BIOTECHNOLOGY

Surrogate reporters for enrichment of cells with nuclease-induced mutations

(2011) Hyojin Kim et al.   NATURE METHODS

Mining the O-glycoproteome using zinc-finger nuclease–glycoengineered SimpleCell lines

(2011) Catharina Steentoft et al.   NATURE METHODS

High-frequency genome editing using ssDNA oligonucleotides with zinc-finger nucleases

(2011) Fuqiang Chen et al.   NATURE METHODS

Revealing off-target cleavage specificities of zinc-finger nucleases by in vitro selection

(2011) Vikram Pattanayak et al.   NATURE METHODS

Evolution and classification of the CRISPR–Cas systems

(2011) Kira S. Makarova et al.   NATURE REVIEWS MICROBIOLOGY

A novel zinc-finger nuclease platform with a sequence-specific cleavage module

(2011) Benno Schierling et al.   NUCLEIC ACIDS RESEARCH

Efficient design and assembly of custom TALEN and other TAL effector-based constructs for DNA targeting

(2011) Tomas Cermak et al.   NUCLEIC ACIDS RESEARCH

A novel TALE nuclease scaffold enables high genome editing activity in combination with low toxicity

(2011) Claudio Mussolino et al.   NUCLEIC ACIDS RESEARCH

Overexpression of GalNAc-transferase GalNAc-T3 promotes pancreatic cancer cell growth

(2011) K Taniuchi et al.   ONCOGENE

Involvement of O-glycosylation defining oncofetal fibronectin in epithelial-mesenchymal transition process

(2011) L. Freire-de-Lima et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Efficient generation of a biallelic knockout in pigs using zinc-finger nucleases

(2011) J. Hauschild et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TAL Effectors: Customizable Proteins for DNA Targeting

(2011) A. J. Bogdanove et al.   SCIENCE

Homing Endonucleases: From Microbial Genetic Invaders to Reagents for Targeted DNA Modification

(2011) Barry L. Stoddard   STRUCTURE

Highly efficient deletion of FUT8 in CHO cell lines using zinc-finger nucleases yields cells that produce completely nonfucosylated antibodies

(2010) Laetitia Malphettes et al.   BIOTECHNOLOGY AND BIOENGINEERING

Enhancement of DNA uptake in FUT8-deleted CHO cells for transient production of afucosylated antibodies

(2010) Athena W. Wong et al.   BIOTECHNOLOGY AND BIOENGINEERING

Critical Roles of Mucin 1 Glycosylation by Transactivated PolypeptideN-Acetylgalactosaminyltransferase 6 in Mammary Carcinogenesis

(2010) Jae-Hyun Park et al.   CANCER RESEARCH

Precision Mapping of an In Vivo N-Glycoproteome Reveals Rigid Topological and Sequence Constraints

(2010) Dorota F. Zielinska et al.   CELL

Mass Spectrometric Analysis, Automated Identification and Complete Annotation of O-Linked Glycopeptides

(2010) Zsuzsa Darula et al.   EUROPEAN JOURNAL OF MASS SPECTROMETRY

Targeted Genome Modification in Mice Using Zinc-Finger Nucleases

(2010) I. D. Carbery et al.   GENETICS

Targeting DNA Double-Strand Breaks with TAL Effector Nucleases

(2010) M. Christian et al.   GENETICS

O-Glycosylation Modulates Proprotein Convertase Activation of Angiopoietin-like Protein 3

(2010) Katrine T.-B. G. Schjoldager et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Recent advances in the production of proteins in insect and mammalian cells for structural biology

(2010) Joanne E. Nettleship et al.   JOURNAL OF STRUCTURAL BIOLOGY

A TALE nuclease architecture for efficient genome editing

(2010) Jeffrey C Miller et al.   NATURE BIOTECHNOLOGY

Transient cold shock enhances zinc-finger nuclease–mediated gene disruption

(2010) Yannick Doyon et al.   NATURE METHODS

Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA)

(2010) Jeffry D Sander et al.   NATURE METHODS

DNA resection in eukaryotes: deciding how to fix the break

(2010) Pablo Huertas   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Zinc-finger nuclease-driven targeted integration into mammalian genomes using donors with limited chromosomal homology

(2010) Salvatore J. Orlando et al.   NUCLEIC ACIDS RESEARCH

Single-strand nicks induce homologous recombination with less toxicity than double-strand breaks using an AAV vector template

(2010) Michael J. Metzger et al.   NUCLEIC ACIDS RESEARCH

Restricted spacer tolerance of a zinc finger nuclease with a six amino acid linker

(2009) Yuka Shimizu et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

BAKandBAXdeletion using zinc-finger nucleases yields apoptosis-resistant CHO cells

(2009) Gregory J. Cost et al.   BIOTECHNOLOGY AND BIOENGINEERING

Gene Targeting of a Disease-Related Gene in Human Induced Pluripotent Stem and Embryonic Stem Cells

(2009) Jizhong Zou et al.   Cell Stem Cell

Guidelines to cell engineering for monoclonal antibody production

(2009) A. Rita Costa et al.   EUROPEAN JOURNAL OF PHARMACEUTICS AND BIOPHARMACEUTICS

Targeted chromosomal deletions in human cells using zinc finger nucleases

(2009) H. J. Lee et al.   GENOME RESEARCH

Optimal and consistent protein glycosylation in mammalian cell culture

(2009) P. Hossler et al.   GLYCOBIOLOGY

Isoform-specificO-Glycosylation of Osteopontin and Bone Sialoprotein by PolypeptideN-Acetylgalactosaminyltransferase-1

(2009) Hazuki E. Miwa et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Glycomics Profiling of Chinese Hamster Ovary Cell Glycosylation Mutants RevealsN-Glycans of a Novel Size and Complexity

(2009) Simon J. North et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Affinity Enrichment and Characterization of Mucin Core-1 Type Glycopeptides from Bovine Serum

(2009) Zsuzsanna Darula et al.   MOLECULAR & CELLULAR PROTEOMICS

Efficient targeting of expressed and silent genes in human ESCs and iPSCs using zinc-finger nucleases

(2009) Dirk Hockemeyer et al.   NATURE BIOTECHNOLOGY

Oligomerized pool engineering (OPEN): an 'open-source' protocol for making customized zinc-finger arrays

(2009) Morgan L Maeder et al.   Nature Protocols

Targeted mutagenesis in zebrafish using customized zinc-finger nucleases

(2009) Jonathan E Foley et al.   Nature Protocols

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

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

Identification of protein O-GlcNAcylation sites using electron transfer dissociation mass spectrometry on native peptides

(2009) R. J. Chalkley et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Breaking the Code of DNA Binding Specificity of TAL-Type III Effectors

(2009) J. Boch et al.   SCIENCE

A Simple Cipher Governs DNA Recognition by TAL Effectors

(2009) M. J. Moscou et al.   SCIENCE

Knockout Rats via Embryo Microinjection of Zinc-Finger Nucleases

(2009) Aron M. Geurts et al.   SCIENCE

Attenuation of Zinc Finger Nuclease Toxicity by Small-Molecule Regulation of Protein Levels

(2009) Shondra M. Pruett-Miller et al.   PLoS Genetics

Glycobiology on the fly: Developmental and mechanistic insights from Drosophila

(2008) K. G. T. Hagen et al.   GLYCOBIOLOGY

Rapid “Open-Source” Engineering of Customized Zinc-Finger Nucleases for Highly Efficient Gene Modification

(2008) Morgan L. Maeder et al.   MOLECULAR CELL

Expanding or Restricting the Target Site Repertoire of Zinc-finger Nucleases: The Inter-domain Linker as a Major Determinant of Target Site Selectivity

(2008) Eva-Maria Händel et al.   MOLECULAR THERAPY

Establishment of HIV-1 resistance in CD4+ T cells by genome editing using zinc-finger nucleases

(2008) Elena E Perez et al.   NATURE BIOTECHNOLOGY

Unexpected failure rates for modular assembly of engineered zinc fingers

(2008) Cherie L Ramirez et al.   NATURE METHODS

Targeted gene knockout in mammalian cells by using engineered zinc-finger nucleases

(2008) Y. Santiago et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Enhanced immune stimulation by a therapeutic lymphoma tumor antigen vaccine produced in insect cells involves mannose receptor targeting to antigen presenting cells

(2008) David J. Betting et al.   VACCINE