The genome sequence of Samia ricini , a new model species of lepidopteran insect

Gypsy moth genome provides insights into flight capability and virus–host interactions

(2019) Jing Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

De novo assembly of a Tibetan genome and identification of novel structural variants associated with high altitude adaptation

(2019) et al.   National Science Review

Dichotomy of Dosage Compensation along the Neo Z Chromosome of the Monarch Butterfly

(2019) Liuqi Gu et al.   CURRENT BIOLOGY

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

(2018) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Lepidoptera genomes: current knowledge, gaps and future directions

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

Accumulation of uric acid in the epidermis forms the white integument of Samia ricini larvae

(2018) Jung Lee et al.   PLoS One

UniProt: a worldwide hub of protein knowledge

(2018)   NUCLEIC ACIDS RESEARCH

The Pfam protein families database in 2019

(2018) Sara El-Gebali et al.   NUCLEIC ACIDS RESEARCH

BUSCO Applications from Quality Assessments to Gene Prediction and Phylogenomics

(2017) Robert M Waterhouse et al.   MOLECULAR BIOLOGY AND EVOLUTION

Improved maize reference genome with single-molecule technologies

(2017) Yinping Jiao et al.   NATURE

De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds

(2017) Olga Dudchenko et al.   SCIENCE

Minimap and miniasm: fast mapping and de novo assembly for noisy long sequences

(2016) Heng Li   BIOINFORMATICS

Sericin Composition in the Silk of Antheraea yamamai

(2016) Michal Zurovec et al.   BIOMACROMOLECULES

Phased diploid genome assembly with single-molecule real-time sequencing

(2016) Chen-Shan Chin et al.   NATURE METHODS

InterPro in 2017—beyond protein family and domain annotations

(2016) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Chorion Genes: A Landscape of Their Evolution, Structure, and Regulation

(2015) Argyris Papantonis et al.   Annual Review of Entomology

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

(2015) Katharina J. Hoff et al.   BIOINFORMATICS

ClicO FS: an interactive web-based service of Circos: Fig. 1.

(2015) Wei-Hien Cheong et al.   BIOINFORMATICS

Comparative transcriptome analyses on silk glands of six silkmoths imply the genetic basis of silk structure and coloration

(2015) Yang Dong et al.   BMC GENOMICS

Gene expression analysis in the larval silk gland of the eri silkworm Samia ricini

(2015) Takuya Tsubota et al.   Insect Science

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

A genetic mechanism for female-limited Batesian mimicry in Papilio butterfly

(2015) Hideki Nishikawa et al.   NATURE GENETICS

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

A single female-specific piRNA is the primary determiner of sex in the silkworm

(2014) Takashi Kiuchi et al.   NATURE

Integration of mapped RNA-Seq reads into automatic training of eukaryotic gene finding algorithm

(2014) Alexandre Lomsadze et al.   NUCLEIC ACIDS RESEARCH

Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

(2014) Bruce J. Walker et al.   PLoS One

Ultrafast Approximation for Phylogenetic Bootstrap

(2013) B. Q. Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Chromosome-scale scaffolding of de novo genome assemblies based on chromatin interactions

(2013) Joshua N Burton et al.   NATURE BIOTECHNOLOGY

A single-molecule long-read survey of the human transcriptome

(2013) Donald Sharon et al.   NATURE BIOTECHNOLOGY

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

Samia cynthia versus Bombyx mori: Comparative gene mapping between a species with a low-number karyotype and the model species of Lepidoptera

(2011) Atsuo Yoshido et al.   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

Light chain fibroin and P25 genes of Corcyra cephalonica: Molecular cloning, characterization, tissue-specific expression, synchronous developmental and 20-hydroxyecdysone regulation during the last instar larval development

(2010) R.K. Chaitanya et al.   GENERAL AND COMPARATIVE ENDOCRINOLOGY

Identification of Ser2 proteins as major sericin components in the non-cocoon silk of Bombyx mori

(2010) Yoko Takasu et al.   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Using native and syntenically mapped cDNA alignments to improve de novo gene finding

(2008) Mario Stanke et al.   BIOINFORMATICS

The genome of a lepidopteran model insect, the silkworm Bombyx mori

(2008) The International Silkworm Genome   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

(2008) Brian J Haas et al.   GENOME BIOLOGY