A haplotype-resolved, de novo genome assembly for the wood tiger moth (Arctia plantaginis) through trio binning

Continuous chromosome-scale haplotypes assembled from a single interspecies F1 hybrid of yak and cattle

(2020) Edward S Rice et al.   GigaScience

A haplotype-resolved, de novo genome assembly for the wood tiger moth (Arctia plantaginis) through trio binning

(2020) Eugenie C Yen et al.   GigaScience

Cross-continental phylogeography of two Holarctic Nymphalid butterflies, Boloria eunomia and Boloria selene

(2019) Jana Maresova et al.   PLoS One

High-quality genome assembly of the silkworm, Bombyx mori

(2019) Munetaka Kawamoto et al.   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome

(2019) Aaron M. Wenger et al.   NATURE BIOTECHNOLOGY

Fast and accurate long-read assembly with wtdbg2

(2019) Jue Ruan et al.   NATURE METHODS

A graph-based approach to diploid genome assembly

(2018) Shilpa Garg et al.   BIOINFORMATICS

Lepidoptera genomes: current knowledge, gaps and future directions

(2018) Deborah A Triant et al.   Current Opinion in Insect Science

A high-quality chromosome-level genome assembly of a generalist herbivore, Trichoplusia ni

(2018) Wenbo Chen et al.   Molecular Ecology Resources

De novo assembly of haplotype-resolved genomes with trio binning

(2018) Sergey Koren et al.   NATURE BIOTECHNOLOGY

OrthoDB v10: sampling the diversity of animal, plant, fungal, protist, bacterial and viral genomes for evolutionary and functional annotations of orthologs

(2018) Evgenia V Kriventseva et al.   NUCLEIC ACIDS RESEARCH

Canu: scalable and accurate long-read assembly via adaptivek-mer weighting and repeat separation

(2017) Sergey Koren et al.   GENOME RESEARCH

Resolving Relationships among the Megadiverse Butterflies and Moths with a Novel Pipeline for Anchored Phylogenomics

(2017) Jesse W. Breinholt et al.   SYSTEMATIC BIOLOGY

Deconstructing isolation-by-distance: The genomic consequences of limited dispersal

(2017) Stepfanie M. Aguillon et al.   PLoS Genetics

A high-coverage draft genome of the mycalesine butterfly Bicyclus anynana

(2017) Reuben W. Nowell et al.   GigaScience

gEVAL — a web-based browser for evaluating genome assemblies

(2016) William Chow et al.   BIOINFORMATICS

Assemblytics: a web analytics tool for the detection of variants from an assembly

(2016) Maria Nattestad et al.   BIOINFORMATICS

Multifaceted biological insights from a draft genome sequence of the tobacco hornworm moth, Manduca sexta

(2016) Michael R. Kanost et al.   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

Redundans: an assembly pipeline for highly heterozygous genomes

(2016) Leszek P. Pryszcz et al.   NUCLEIC ACIDS RESEARCH

PuttingParasemiain its phylogenetic place: a molecular analysis of the subtribe Arctiina (Lepidoptera)

(2016) KATJA RÖNKÄ et al.   SYSTEMATIC ENTOMOLOGY

Major Improvements to the Heliconius melpomene Genome Assembly Used to Confirm 10 Chromosome Fusion Events in 6 Million Years of Butterfly Evolution

(2016) John W. Davey et al.   G3-Genes Genomes Genetics

BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS: Table 1.

(2015) Katharina J. Hoff et al.   BIOINFORMATICS

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Global phylogeography and geographical variation in warning coloration of the wood tiger moth (Parasemia plantaginis)

(2015) Robert H. Hegna et al.   JOURNAL OF BIOGEOGRAPHY

The Dfam database of repetitive DNA families

(2015) Robert Hubley et al.   NUCLEIC ACIDS RESEARCH

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Temporal relationship between genetic and warning signal variation in the aposematic wood tiger moth (Parasemia plantaginis)

(2014) Juan A. Galarza et al.   MOLECULAR ECOLOGY

Phylogenomics provides strong evidence for relationships of butterflies and moths

(2014) A. Y. Kawahara et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Glanville fritillary genome retains an ancient karyotype and reveals selective chromosomal fusions in Lepidoptera

(2014) Virpi Ahola et al.   Nature Communications

Chromosomal Evolution in Tortricid Moths: Conserved Karyotypes with Diverged Features

(2013) Jindra Šíchová et al.   PLoS One

Genome sequencing and population genomics in non-model organisms

(2013) Hans Ellegren   TRENDS IN ECOLOGY & EVOLUTION

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

A high-performance computing toolset for relatedness and principal component analysis of SNP data

(2012) X. Zheng et al.   BIOINFORMATICS

MonarchBase: the monarch butterfly genome database

(2012) Shuai Zhan et al.   NUCLEIC ACIDS RESEARCH

Direction and strength of selection by predators for the color of the aposematic wood tiger moth

(2011) C. Lindstedt et al.   BEHAVIORAL ECOLOGY

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

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

(2010) A. McKenna et al.   GENOME RESEARCH

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS