Limits of Neutral Drift: Lessons From the In Vitro Evolution of Two Ribozymes

Ultra-deep mutant spectrum profiling: improving sequencing accuracy using overlapping read pairs

(2013) Haiyin Chen-Harris et al.   BMC GENOMICS

The Effects of Stabilizing and Directional Selection on Phenotypic and Genotypic Variation in a Population of RNA Enzymes

(2013) Eric J. Hayden et al.   JOURNAL OF MOLECULAR EVOLUTION

Genome dynamics during experimental evolution

(2013) Jeffrey E. Barrick et al.   NATURE REVIEWS GENETICS

Comprehensive experimental fitness landscape and evolutionary network for small RNA

(2013) J. I. Jimenez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A simple method to evaluate the biochemical compatibility of oil/surfactant mixtures for experiments in microdroplets

(2012) Miriam Kaltenbach et al.   LAB ON A CHIP

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics

(2012) M. Lohse et al.   NUCLEIC ACIDS RESEARCH

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

Cryptic genetic variation promotes rapid evolutionary adaptation in an RNA enzyme

(2011) Eric J. Hayden et al.   NATURE

Quasispecies-like behavior observed in catalytic RNA populations evolving in a test tube

(2010) Carolina Diaz Arenas et al.   BMC EVOLUTIONARY BIOLOGY

Microfluidic Compartmentalized Directed Evolution

(2010) Brian M. Paegel et al.   CHEMISTRY & BIOLOGY

Deep sequencing analysis of mutations resulting from the incorporation of dNTP analogs

(2010) Katherine L. Petrie et al.   NUCLEIC ACIDS RESEARCH

Rapid Construction of Empirical RNA Fitness Landscapes

(2010) J. N. Pitt et al.   SCIENCE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Genome evolution and adaptation in a long-term experiment with Escherichia coli

(2009) Jeffrey E. Barrick et al.   NATURE

Fitness and its role in evolutionary genetics

(2009) H. Allen Orr   NATURE REVIEWS GENETICS

Crystal Structure of the Catalytic Core of an RNA-Polymerase Ribozyme

(2009) D. M. Shechner et al.   SCIENCE

The end of the adaptive landscape metaphor?

(2008) Jonathan Kaplan   BIOLOGY & PHILOSOPHY

Sewall Wright’s adaptive landscapes: 1932 vs. 1988

(2008) Massimo Pigliucci   BIOLOGY & PHILOSOPHY

Intense Neutral Drifts Yield Robust and Evolvable Consensus Proteins

(2008) Shimon Bershtein et al.   JOURNAL OF MOLECULAR BIOLOGY

Directed enzyme evolution via small and effective neutral drift libraries

(2008) Rinkoo D Gupta et al.   NATURE METHODS

Darwinian Evolution on a Chip

(2008) Brian M Paegel et al.   PLOS BIOLOGY

Robustness and evolvability: a paradox resolved

(2007) A. Wagner   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES