Population Genomic Analysis of a Pitviper Reveals Microevolutionary Forces Underlying Venom Chemistry

Selection To Increase Expression, Not Sequence Diversity, Precedes Gene Family Origin and Expansion in Rattlesnake Venom

(2017) Mark J. Margres et al.   GENETICS

Selection To Increase Expression, Not Sequence Diversity, Precedes Gene Family Origin and Expansion in Rattlesnake Venom

(2017) Mark J. Margres et al.   GENETICS

The Deep Origin and Recent Loss of Venom Toxin Genes in Rattlesnakes

(2016) Noah L. Dowell et al.   CURRENT BIOLOGY

Venom Resistance as a Model for Understanding the Molecular Basis of Complex Coevolutionary Adaptations

(2016) Matthew L. Holding et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

Coevolution of venom function and venom resistance in a rattlesnake predator and its squirrel prey

(2016) Matthew L. Holding et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Adaptive evolution in the toxicity of a spider’s venom enzymes

(2015) Aurélio Pedroso et al.   BMC EVOLUTIONARY BIOLOGY

Snake venoms are integrated systems, but abundant venom proteins evolve more rapidly

(2015) Steven D. Aird et al.   BMC GENOMICS

Comparison of the Venom Peptides and Their Expression in Closely RelatedConusSpecies: Insights into Adaptive Post-speciation Evolution ofConusExogenomes

(2015) Neda Barghi et al.   Genome Biology and Evolution

Tree of Life Reveals Clock-Like Speciation and Diversification

(2015) S. Blair Hedges et al.   MOLECULAR BIOLOGY AND EVOLUTION

Why the honey badger don't care: Convergent evolution of venom-targeted nicotinic acetylcholine receptors in mammals that survive venomous snake bites

(2015) Danielle H. Drabeck et al.   TOXICON

The Rise and Fall of an Evolutionary Innovation: Contrasting Strategies of Venom Evolution in Ancient and Young Animals

(2015) Kartik Sunagar et al.   PLoS Genetics

BAYSIC: a Bayesian method for combining sets of genome variants with improved specificity and sensitivity

(2014) Brandi L Cantarel et al.   BMC BIOINFORMATICS

Integrating mapping-, assembly- and haplotype-based approaches for calling variants in clinical sequencing applications

(2014) Andy Rimmer et al.   NATURE GENETICS

Comprehensive variation discovery in single human genomes

(2014) Neil I Weisenfeld et al.   NATURE GENETICS

Medically important differences in snake venom composition are dictated by distinct postgenomic mechanisms

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

NextGenMap: fast and accurate read mapping in highly polymorphic genomes

(2013) Fritz J. Sedlazeck et al.   BIOINFORMATICS

NextClip: an analysis and read preparation tool for Nextera Long Mate Pair libraries

(2013) Richard M. Leggett et al.   BIOINFORMATICS

Quantitative high-throughput profiling of snake venom gland transcriptomes and proteomes (Ovophis okinavensis and Protobothrops flavoviridis)

(2013) Steven D Aird et al.   BMC GENOMICS

The king cobra genome reveals dynamic gene evolution and adaptation in the snake venom system

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

Snakemake--a scalable bioinformatics workflow engine

(2012) J. Koster et al.   BIOINFORMATICS

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

(2012) Pablo Cingolani et al.   FLY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Complex cocktails: the evolutionary novelty of venoms

(2012) Nicholas R. Casewell et al.   TRENDS IN ECOLOGY & EVOLUTION

SnIPRE: Selection Inference Using a Poisson Random Effects Model

(2012) Kirsten E. Eilertson et al.   PLoS Computational Biology

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Domain Loss Facilitates Accelerated Evolution and Neofunctionalization of Duplicate Snake Venom Metalloproteinase Toxin Genes

(2011) N. R. Casewell et al.   MOLECULAR BIOLOGY AND EVOLUTION

Adaptive Evolution of the Venom-Targeted vWF Protein in Opossums that Eat Pitvipers

(2011) Sharon A. Jansa et al.   PLoS One

Scaffolding pre-assembled contigs using SSPACE

(2010) Marten Boetzer et al.   BIOINFORMATICS

INTEGRATING EVOLUTIONARY AND FUNCTIONAL APPROACHES TO INFER ADAPTATION AT SPECIFIC LOCI

(2010) Jay F. Storz et al.   EVOLUTION

Unique structural characteristics and evolution of a cluster of venom phospholipase A2 isozyme genes of Protobothrops flavoviridis snake

(2010) Naoki Ikeda et al.   GENE

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Applications of next generation sequencing in molecular ecology of non-model organisms

(2010) R Ekblom et al.   HEREDITY

Nucleotide sequence determines the accelerated rate of point mutations

(2010) R. Manjunatha Kini et al.   TOXICON

Venom physiology and composition in a litter of Common Death Adders (Acanthophis antarcticus) and their parents

(2010) Anna F.V. Pintor et al.   TOXICON

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

CNV-seq, a new method to detect copy number variation using high-throughput sequencing

(2009) Chao Xie et al.   BMC BIOINFORMATICS

Coevolution of diet and prey-specific venom activity supports the role of selection in snake venom evolution

(2009) A. Barlow et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Functional basis of a molecular adaptation: Prey-specific toxic effects of venom from Sistrurus rattlesnakes

(2009) H. Lisle Gibbs et al.   TOXICON

Common evolution of waprin and kunitz-like toxin families in Australian venomous snakes

(2008) L. St Pierre et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Evolution of Snake Venom Disintegrins by Positive Darwinian Selection

(2008) P. Juarez et al.   MOLECULAR BIOLOGY AND EVOLUTION