Evolution of Darwin’s finches and their beaks revealed by genome sequencing

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

THE EVOLUTIONARY HISTORY OF DARWIN'S FINCHES: SPECIATION, GENE FLOW, AND INTROGRESSION IN A FRAGMENTED LANDSCAPE

(2014) Heather L. Farrington et al.   EVOLUTION

Exploring the combined role of eustasy and oceanic island thermal subsidence in shaping biodiversity on the Galápagos

(2014) Jason R. Ali et al.   JOURNAL OF BIOGEOGRAPHY

Phylogenetics and diversification of tanagers (Passeriformes: Thraupidae), the largest radiation of Neotropical songbirds

(2014) Kevin J. Burns et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The Evolutionary Genomics of Birds

(2013) Hans Ellegren   Annual Review of Ecology Evolution and Systematics

Diversity-Dependence, Ecological Speciation, and the Role of Competition in Macroevolution

(2013) Daniel L. Rabosky   Annual Review of Ecology Evolution and Systematics

Insights into the evolution of Darwin’s finches from comparative analysis of the Geospiza magnirostris genome sequence

(2013) Chris M Rands et al.   BMC GENOMICS

Molecular consequences of animal breeding

(2013) Leif Andersson   CURRENT OPINION IN GENETICS & DEVELOPMENT

Adaptive Evolution of Multiple Traits Through Multiple Mutations at a Single Gene

(2013) C. R. Linnen et al.   SCIENCE

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

(2012) Pablo Cingolani et al.   FLY

Defective neural crest migration revealed by a Zebrafish model of Alx1-related frontonasal dysplasia

(2012) C. T. Dee et al.   HUMAN MOLECULAR GENETICS

Factorbook.org: a Wiki-based database for transcription factor-binding data generated by the ENCODE consortium

(2012) J. Wang et al.   NUCLEIC ACIDS RESEARCH

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Testing for Ancient Admixture between Closely Related Populations

(2011) Eric Y. Durand et al.   MOLECULAR BIOLOGY AND EVOLUTION

Inference of human population history from individual whole-genome sequences

(2011) Heng Li et al.   NATURE

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

(2011) Mark A DePristo et al.   NATURE GENETICS

Two developmental modules establish 3D beak-shape variation in Darwin's finches

(2011) R. Mallarino et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Disruption of ALX1 Causes Extreme Microphthalmia and Severe Facial Clefting: Expanding the Spectrum of Autosomal-Recessive ALX-Related Frontonasal Dysplasia

(2010) Elif Uz et al.   AMERICAN JOURNAL OF HUMAN GENETICS

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

(2010) A. McKenna et al.   GENOME RESEARCH

A Draft Sequence of the Neandertal Genome

(2010) R. E. Green et al.   SCIENCE

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

Comparative gene expression analysis of avian embryonic facial structures reveals new candidates for human craniofacial disorders

(2009) S.A. Brugmann et al.   HUMAN MOLECULAR GENETICS

Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm

(2009) Prateek Kumar et al.   Nature Protocols

Nucleotide Variation, Linkage Disequilibrium and Founder-Facilitated Speciation in Wild Populations of the Zebra Finch (Taeniopygia guttata)

(2008) C. N. Balakrishnan et al.   GENETICS

EnsemblCompara GeneTrees: Complete, duplication-aware phylogenetic trees in vertebrates

(2008) A. J. Vilella et al.   GENOME RESEARCH

Speciation through evolution of sex-linked genes

(2008) A Qvarnström et al.   HEREDITY

Calibrating the avian molecular clock

(2008) J. T. WEIR et al.   MOLECULAR ECOLOGY