Upgrading short-read animal genome assemblies to chromosome level using comparative genomics and a universal probe set

Contrasting origin of B chromosomes in two cervids (Siberian roe deer and grey brocket deer) unravelled by chromosome-specific DNA sequencing

(2016) Alexey I. Makunin et al.   BMC GENOMICS

Novel Insights into Chromosome Evolution in Birds, Archosaurs, and Reptiles

(2016) Marta Farré et al.   Genome Biology and Evolution

Chromosome-scale shotgun assembly using an in vitro method for long-range linkage

(2016) Nicholas H. Putnam et al.   GENOME RESEARCH

Chromosomer: a reference-based genome arrangement tool for producing draft chromosome sequences

(2016) Gaik Tamazian et al.   GigaScience

Third Report on Chicken Genes and Chromosomes 2015

(2015) Michael Schmid et al.   CYTOGENETIC AND GENOME RESEARCH

Genome-Wide Structural Variation Detection by Genome Mapping on Nanochannel Arrays

(2015) A. C. Y. Mak et al.   GENETICS

The Genome 10K Project: A Way Forward

(2015) Klaus-Peter Koepfli et al.   Annual Review of Animal Biosciences

PacBio Sequencing and Its Applications

(2015) Anthony Rhoads et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Ragout--a reference-assisted assembly tool for bacterial genomes

(2014) M. Kolmogorov et al.   BIOINFORMATICS

A network-based approach to identify substrate classes of bacterial glycosyltransferases

(2014) Aminael Sánchez-Rodríguez et al.   BMC GENOMICS

Tracing the evolution of amniote chromosomes

(2014) Janine E. Deakin et al.   CHROMOSOMA

The UCSC Genome Browser database: 2015 update

(2014) Kate R. Rosenbloom et al.   NUCLEIC ACIDS RESEARCH

Whole-genome analyses resolve early branches in the tree of life of modern birds

(2014) E. D. Jarvis et al.   SCIENCE

Comparative genomics reveals insights into avian genome evolution and adaptation

(2014) G. Zhang et al.   SCIENCE

Comparative genomic data of the Avian Phylogenomics Project

(2014) Guojie Zhang et al.   GigaScience

Afrotheria genome; overestimation of genome size and distinct chromosome GC content revealed by flow karyotyping

(2013) Fumio Kasai et al.   GENOMICS

Peregrine and saker falcon genome sequences provide insights into evolution of a predatory lifestyle

(2013) Xiangjiang Zhan et al.   NATURE GENETICS

Reference-assisted chromosome assembly

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

Genomic Diversity and Evolution of the Head Crest in the Rock Pigeon

(2013) M. D. Shapiro et al.   SCIENCE

Reassessment of genome size in turtle and crocodile based on chromosome measurement by flow karyotyping: close similarity to chicken

(2012) F. Kasai et al.   Biology Letters

Divergence, Convergence, and the Ancestry of Feral Populations in the Domestic Rock Pigeon

(2012) Sydney A. Stringham et al.   CURRENT BIOLOGY

The genomic landscape of species divergence in Ficedula flycatchers

(2012) Hans Ellegren et al.   NATURE

Analyses of pig genomes provide insight into porcine demography and evolution

(2012) Martien A. M. Groenen et al.   NATURE

Clone DB: an integrated NCBI resource for clone-associated data

(2012) Valerie A. Schneider et al.   NUCLEIC ACIDS RESEARCH

Primer3—new capabilities and interfaces

(2012) Andreas Untergasser et al.   NUCLEIC ACIDS RESEARCH

Whole-genome resequencing of two elite sires for the detection of haplotypes under selection in dairy cattle

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

Cactus: Algorithms for genome multiple sequence alignment

(2011) B. Paten et al.   GENOME RESEARCH

Intrachromosomal rearrangements in avian genome evolution: evidence for regions prone to breakpoints

(2011) B M Skinner et al.   HEREDITY

A high-resolution map of human evolutionary constraint using 29 mammals

(2011) Kerstin Lindblad-Toh et al.   NATURE

Ensembl BioMarts: a hub for data retrieval across taxonomic space

(2011) R. J. Kinsella et al.   Database-The Journal of Biological Databases and Curation

Classification and regression trees

(2011) Wei-Yin Loh   Wiley Interdisciplinary Reviews-Data Mining and Knowledge Discovery

Cassis: detection of genomic rearrangement breakpoints

(2010) C. Baudet et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Molecular Cytogenetics of the California Condor: Evolutionary and Conservation Implications

(2010) W.S. Modi et al.   CYTOGENETIC AND GENOME RESEARCH

Cross-Species Chromosome Painting Corroborates Microchromosome Fusion during Karyotype Evolution of Birds

(2010) T. Hansmann et al.   CYTOGENETIC AND GENOME RESEARCH

The genome of a songbird

(2010) Wesley C. Warren et al.   NATURE

Advances in understanding cancer genomes through second-generation sequencing

(2010) Matthew Meyerson et al.   NATURE REVIEWS GENETICS

High-resolution human genome structure by single-molecule analysis

(2010) B. Teague et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multi-Platform Next-Generation Sequencing of the Domestic Turkey (Meleagris gallopavo): Genome Assembly and Analysis

(2010) Rami A. Dalloul et al.   PLOS BIOLOGY

Every genome sequence needs a good map

(2009) H. A. Lewin et al.   GENOME RESEARCH

Breakpoint regions and homologous synteny blocks in chromosomes have different evolutionary histories

(2009) D. M. Larkin et al.   GENOME RESEARCH

From wild animals to domestic pets, an evolutionary view of domestication

(2009) C. A. Driscoll et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution

(2009) et al.   SCIENCE

Characterization of chromosome structures of Falconinae (Falconidae, Falconiformes, Aves) by chromosome painting and delineation of chromosome rearrangements during their differentiation

(2008) Chizuko Nishida et al.   CHROMOSOME RESEARCH

Advanced technologies for genomic analysis in farm animals and its application for QTL mapping

(2008) Xiaoxiang Hu et al.   GENETICA