Genome Assembly and Annotation of the Trichoplusia ni Tni-FNL Insect Cell Line Enabled by Long-Read Technologies

The genome of the Hi5 germ cell line from Trichoplusia ni, an agricultural pest and novel model for small RNA biology

(2018) Yu Fu et al.   eLife

Direct determination of diploid genome sequences

(2017) Neil I. Weisenfeld et al.   GENOME RESEARCH

New advances in sequence assembly

(2017) Adam M. Phillippy   GENOME RESEARCH

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

(2017) Sergey Koren et al.   GENOME RESEARCH

CRISPR-Cas9 vectors for genome editing and host engineering in the baculovirus–insect cell system

(2017) Hideaki Mabashi-Asazuma et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Haplotyping germline and cancer genomes with high-throughput linked-read sequencing

(2016) Grace X Y Zheng et al.   NATURE BIOTECHNOLOGY

OrthoDB v9.1: cataloging evolutionary and functional annotations for animal, fungal, plant, archaeal, bacterial and viral orthologs

(2016) Evgeny M. Zdobnov et al.   NUCLEIC ACIDS RESEARCH

InterPro in 2017—beyond protein family and domain annotations

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

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees

(2016) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Genome assembly and geospatial phylogenomics of the bed bug Cimex lectularius

(2016) Jeffrey A. Rosenfeld et al.   Nature Communications

Transcriptome analyses of insect cells to facilitate baculovirus-insect expression

(2016) Kai Yu et al.   Protein & Cell

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

(2015) Felipe A. Simão et al.   BIOINFORMATICS

The baculovirus expression vector system: A commercial manufacturing platform for viral vaccines and gene therapy vectors

(2015) Rachael S. Felberbaum   Biotechnology Journal

Tools and pipelines for BioNano data: molecule assembly pipeline and FASTA super scaffolding tool

(2015) Jennifer M. Shelton et al.   BMC GENOMICS

The baculovirus expression vector system: A commercial manufacturing platform for viral vaccines and gene therapy vectors

(2015) Rachael S. Felberbaum   Biotechnology Journal

The genomes of two key bumblebee species with primitive eusocial organization

(2015) Ben M Sadd et al.   GENOME BIOLOGY

Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads

(2015) Li Song et al.   GigaScience

A draft genome assembly of the army worm, Spodoptera frugiperda

(2014) Pavan Kumar Kakumani et al.   GENOMICS

Transcriptome Responses of the Host Trichoplusia ni to Infection by the Baculovirus Autographa californica Multiple Nucleopolyhedrovirus

(2014) Y.-R. Chen et al.   JOURNAL OF VIROLOGY

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

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

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

(2013) Chen-Shan Chin et al.   NATURE METHODS

Genome mapping on nanochannel arrays for structural variation analysis and sequence assembly

(2012) Ernest T Lam et al.   NATURE BIOTECHNOLOGY

Recombinant protein vaccines produced in insect cells

(2012) Manon M.J. Cox   VACCINE

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

(2011) Guillaume Marçais et al.   BIOINFORMATICS

MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects

(2011) Carson Holt et al.   BMC BIOINFORMATICS

The Evolution of Endogenous Viral Elements

(2011) Edward C. Holmes   Cell Host & Microbe

Fast Identification and Removal of Sequence Contamination from Genomic and Metagenomic Datasets

(2011) Robert Schmieder et al.   PLoS One

Extensive synteny conservation of holocentric chromosomes in Lepidoptera despite high rates of local genome rearrangements

(2010) E. d'Alençon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Hypothesis for heritable, anti-viral immunity in crustaceans and insects

(2009) Timothy W Flegel   Biology Direct

Real-Time DNA Sequencing from Single Polymerase Molecules

(2008) J. Eid et al.   SCIENCE

CpG island density and its correlations with genomic features in mammalian genomes

(2008) Leng Han et al.   GENOME BIOLOGY