Genomically Recoded Organisms Expand Biological Functions

The Molecular Architecture of the Bacteriophage T4 Neck

(2013) Andrei Fokine et al.   JOURNAL OF MOLECULAR BIOLOGY

Probing the Limits of Genetic Recoding in Essential Genes

(2013) M. J. Lajoie et al.   SCIENCE

Release Factor One Is Nonessential in Escherichia coli

(2012) David B. F. Johnson et al.   ACS Chemical Biology

Enhanced phosphoserine insertion duringEscherichia coliprotein synthesis via partial UAG codon reassignment and release factor 1 deletion

(2012) Ilka U. Heinemann et al.   FEBS LETTERS

Near-cognate suppression of amber, opal and quadruplet codons competes with aminoacyl-tRNAPylfor genetic code expansion

(2012) Patrick O'Donoghue et al.   FEBS LETTERS

Synthetic constructs in/for the environment: Managing the interplay between natural and engineered Biology

(2012) Markus Schmidt et al.   FEBS LETTERS

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Cost-effective, high-throughput DNA sequencing libraries for multiplexed target capture

(2012) N. Rohland et al.   GENOME RESEARCH

Efficient Decoding of the UAG Triplet as a Full-Fledged Sense Codon Enhances the Growth of a prfA-Deficient Strain of Escherichia coli

(2012) K. Ohtake et al.   JOURNAL OF BACTERIOLOGY

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Enhanced multiplex genome engineering through co-operative oligonucleotide co-selection

(2012) Peter A. Carr et al.   NUCLEIC ACIDS RESEARCH

Improving Lambda Red Genome Engineering in Escherichia coli via Rational Removal of Endogenous Nucleases

(2012) Joshua A. Mosberg et al.   PLoS One

Noncanonical Amino Acids in the Interrogation of Cellular Protein Synthesis

(2011) John T. Ngo et al.   ACCOUNTS OF CHEMICAL RESEARCH

Rapid and Reproducible Single-Stage Phosphopeptide Enrichment of Complex Peptide Mixtures: Application to General and Phosphotyrosine-Specific Phosphoproteomics Experiments

(2011) Arminja N. Kettenbach et al.   ANALYTICAL CHEMISTRY

RF1 knockout allows ribosomal incorporation of unnatural amino acids at multiple sites

(2011) David B F Johnson et al.   Nature Chemical Biology

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

The Establishment of Genetically Engineered Canola Populations in the U.S.

(2011) Meredith G. Schafer et al.   PLoS One

Expanding the Genetic Code of Escherichia coli with Phosphoserine

(2011) H.-S. Park et al.   SCIENCE

Precise Manipulation of Chromosomes in Vivo Enables Genome-Wide Codon Replacement

(2011) Farren J. Isaacs et al.   SCIENCE

Adding New Chemistries to the Genetic Code

(2010) Chang C. Liu et al.   Annual Review of Biochemistry

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Lambda Red Recombineering in Escherichia coli Occurs Through a Fully Single-Stranded Intermediate

(2010) J. A. Mosberg et al.   GENETICS

Ribosome rescue by Escherichia coli ArfA (YhdL) in the absence of trans-translation system

(2010) Yuhei Chadani et al.   MOLECULAR MICROBIOLOGY

Encoding multiple unnatural amino acids via evolution of a quadruplet-decoding ribosome

(2010) Heinz Neumann et al.   NATURE

Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips

(2010) Sriram Kosuri et al.   NATURE BIOTECHNOLOGY

Chemical synthesis of the mouse mitochondrial genome

(2010) Daniel G Gibson et al.   NATURE METHODS

Codon reassignment in the Escherichia coli genetic code

(2010) T. Mukai et al.   NUCLEIC ACIDS RESEARCH

YaeJ is a novel ribosome-associated protein in Escherichia coli that can hydrolyze peptidyl-tRNA on stalled ribosomes

(2010) Y. Handa et al.   NUCLEIC ACIDS RESEARCH

EcoCyc: a comprehensive database of Escherichia coli biology

(2010) I. M. Keseler et al.   NUCLEIC ACIDS RESEARCH

Synthetic Genome Brings New Life to Bacterium

(2010) E. Pennisi   SCIENCE

Creation of a Bacterial Cell Controlled by a Chemically Synthesized Genome

(2010) D. G. Gibson et al.   SCIENCE

Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads

(2009) K. Ye et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

An Enhanced System for Unnatural Amino Acid Mutagenesis in E. coli

(2009) Travis S. Young et al.   JOURNAL OF MOLECULAR BIOLOGY

Programming cells by multiplex genome engineering and accelerated evolution

(2009) Harris H. Wang et al.   NATURE

BreakDancer: an algorithm for high-resolution mapping of genomic structural variation

(2009) Ken Chen et al.   NATURE METHODS

Protein abundance profiling of the Escherichia coli cytosol

(2008) Yasushi Ishihama et al.   BMC GENOMICS

Electrostatic Repulsion Hydrophilic Interaction Chromatography for Isocratic Separation of Charged Solutes and Selective Isolation of Phosphopeptides

(2007) Andrew J. Alpert   ANALYTICAL CHEMISTRY