Related references
Note: Only part of the references are listed.Effects of Crossovers Between Homeologs on Inheritance and Population Genomics in Polyploid-Derived Salmonid Fishes
Fred W. Allendorf et al.
JOURNAL OF HEREDITY (2015)
Phylogeny of Zebrafish, a Model Species, within Danio, a Model Genus
Braedan M. McCluskey et al.
MOLECULAR BIOLOGY AND EVOLUTION (2015)
Ensembl 2015
Fiona Cunningham et al.
NUCLEIC ACIDS RESEARCH (2015)
UniProt: a hub for protein information
Alex Bateman et al.
NUCLEIC ACIDS RESEARCH (2015)
Trimmomatic: a flexible trimmer for Illumina sequence data
Anthony M. Bolger et al.
BIOINFORMATICS (2014)
Whole-genome duplication in teleost fishes and its evolutionary consequences
Stella M. K. Glasauer et al.
MOLECULAR GENETICS AND GENOMICS (2014)
The Genome and Linkage Map of the Northern Pike (Esox lucius): Conserved Synteny Revealed between the Salmonid Sister Group and the Neoteleostei
Eric B. Rondeau et al.
PLOS ONE (2014)
A well-constrained estimate for the timing of the salmonid whole genome duplication reveals major decoupling from species diversification
Daniel J. Macqueen et al.
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES (2014)
The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates
Camille Berthelot et al.
NATURE COMMUNICATIONS (2014)
Organization and evolution of transposable elements along the bread wheat chromosome 3B
Josquin Daron et al.
GENOME BIOLOGY (2014)
STAR: ultrafast universal RNA-seq aligner
Alexander Dobin et al.
BIOINFORMATICS (2013)
Lep-MAP: fast and accurate linkage map construction for large SNP datasets
Pasi Rastas et al.
BIOINFORMATICS (2013)
The MaSuRCA genome assembler
Aleksey V. Zimin et al.
BIOINFORMATICS (2013)
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Kazutaka Katoh et al.
MOLECULAR BIOLOGY AND EVOLUTION (2013)
Sequencing of the sea lamprey (Petromyzon marinus) genome provides insights into vertebrate evolution
Jeramiah J. Smith et al.
NATURE GENETICS (2013)
De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
Brian J. Haas et al.
NATURE PROTOCOLS (2013)
Watching the grin fade: Tracing the effects of polyploidy on different evolutionary time scales
Dustin Mayfield-Jones et al.
SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY (2013)
Gene alterations at Drosophila inversion breakpoints provide prima facie evidence for natural selection as an explanation for rapid chromosomal evolution
Yolanda Guillen et al.
BMC GENOMICS (2012)
Bayesian Phylogenetics with BEAUti and the BEAST 1.7
Alexei J. Drummond et al.
MOLECULAR BIOLOGY AND EVOLUTION (2012)
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
Cole Trapnell et al.
NATURE PROTOCOLS (2012)
Resolution of ray-finned fish phylogeny and timing of diversification
Thomas J. Near et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)
phangorn: phylogenetic analysis in R
Klaus Peter Schliep
BIOINFORMATICS (2011)
A dense SNP-based linkage map for Atlantic salmon (Salmo salar) reveals extended chromosome homeologies and striking differences in sex-specific recombination patterns
Sigbjorn Lien et al.
BMC GENOMICS (2011)
Considering Transposable Element Diversification in De Novo Annotation Approaches
Timothee Flutre et al.
PLOS ONE (2011)
Dose-sensitivity, conserved non-coding sequences, and duplicate gene retention through multiple tetraploidies in the grasses
James C. Schnable et al.
FRONTIERS IN PLANT SCIENCE (2011)
Fast and SNP-tolerant detection of complex variants and splicing in short reads
Thomas D. Wu et al.
BIOINFORMATICS (2010)
Recent Progress in Functional Genomic Research in Plasmodium falciparum
Jianbing Mu et al.
CURRENT GENOMICS (2010)
New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0
Stephane Guindon et al.
SYSTEMATIC BIOLOGY (2010)
Temporal pattern of loss/persistence of duplicate genes involved in signal transduction and metabolic pathways after teleost-specific genome duplication
Yukuto Sato et al.
BMC EVOLUTIONARY BIOLOGY (2009)
Retroposons of salmonoid fishes (Actinopterygii: Salmonoidei) and their evolution
Vitaliy Matveev et al.
GENE (2009)
Circos: An information aesthetic for comparative genomics
Martin Krzywinski et al.
GENOME RESEARCH (2009)
STRING 8-a global view on proteins and their functional interactions in 630 organisms
Lars J. Jensen et al.
NUCLEIC ACIDS RESEARCH (2009)
LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons
David Ellinghaus et al.
BMC BIOINFORMATICS (2008)
A salmonid EST genomic study: genes, duplications, phylogeny and microarrays
Ben F. Koop et al.
BMC GENOMICS (2008)
Turning a hobby into a job: How duplicated genes find new functions
Gavin C. Conant et al.
NATURE REVIEWS GENETICS (2008)
Repeated horizontal transfer of a DNA transposon in mammals and other tetrapods
John K. Pace et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)
A unified classification system for eukaryotic transposable elements
Thomas Wicker et al.
NATURE REVIEWS GENETICS (2007)
Reconstruction of the vertebrate ancestral genome reveals dynamic genome reorganization in early vertebrates
Yoichiro Nakatani et al.
GENOME RESEARCH (2007)
PAML 4: Phylogenetic analysis by maximum likelihood
Ziheng Yang
MOLECULAR BIOLOGY AND EVOLUTION (2007)
Annotated Expressed Sequence Tags (ESTs) from pre-smolt Atlantic salmon (Salmo salar) in a searchable data resource
Alexei A. Adzhubei et al.
BMC GENOMICS (2007)
The medaka draft genome and insights into vertebrate genome evolution
Masahiro Kasahara et al.
NATURE (2007)
Evaluating dosage compensation as a cause of duplicate gene retention in Paramecium tetraurelia
Timothy Hughes et al.
GENOME BIOLOGY (2007)
Transposable elements and the epigenetic regulation of the genome
R. Keith Slotkin et al.
NATURE REVIEWS GENETICS (2007)
Genomic convergence toward diploidy in Saccharomyces cerevisiae
Aleeza C. Gerstein et al.
PLOS GENETICS (2006)
Optimal gene trees from sequences and species trees using a soft interpretation of parsimony
Ann-Charlotte Berglund-Sonnhammer et al.
JOURNAL OF MOLECULAR EVOLUTION (2006)
Phylogenetic conservation of chromosome numbers in Actinopterygiian fishes
Judith E. Mank et al.
GENETICA (2006)
Engineering a software tool for gene structure prediction in higher organisms
G Gremme et al.
INFORMATION AND SOFTWARE TECHNOLOGY (2005)
Blast2GO:: a universal tool for annotation, visualization and analysis in functional genomics research
A Conesa et al.
BIOINFORMATICS (2005)
Rapid subfunctionalization accompanied by prolonged and substantial neofunctionalization in duplicate gene evolution
XL He et al.
GENETICS (2005)
Repbase update, a database of eukaryotic repetitive elements
J Jurka et al.
CYTOGENETIC AND GENOME RESEARCH (2005)
MUSCLE: multiple sequence alignment with high accuracy and high throughput
RC Edgar
NUCLEIC ACIDS RESEARCH (2004)
Genomic duplication, fractionation and the origin of regulatory novelty
RJ Langham et al.
GENETICS (2004)
Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype
O Jaillon et al.
NATURE (2004)
The nucleotypic effects of cellular DNA content in cartilaginous and ray-finned fishes
DC Hardie et al.
GENOME (2003)
Genome evolution in polyploids
JF Wendel
PLANT MOLECULAR BIOLOGY (2000)