Multi-tissue transcriptomics of the black widow spider reveals expansions, co-options, and functional processes of the silk gland gene toolkit

Transcriptome deep-sequencing and clustering of expressed isoforms from Favia corals

(2013) Shaadi F Pooyaei Mehr et al.   BMC GENOMICS

The root transcriptome for North American ginseng assembled and profiled across seasonal development

(2013) Di Wu et al.   BMC GENOMICS

A comparison across non-model animals suggests an optimal sequencing depth for de novo transcriptome assembly

(2013) Warren R Francis et al.   BMC GENOMICS

De novo characterization of the gene-rich transcriptomes of two color-polymorphic spiders, Theridion grallator and T. californicum (Araneae: Theridiidae), with special reference to pigment genes

(2013) Peter JP Croucher et al.   BMC GENOMICS

De Novo Transcriptome Assembly in Chili Pepper (Capsicum frutescens) to Identify Genes Involved in the Biosynthesis of Capsaicinoids

(2013) Shaoqun Liu et al.   PLoS One

Transcriptome Characterisation of the Ant Formica exsecta with New Insights into the Evolution of Desaturase Genes in Social Hymenoptera

(2013) Hélène Badouin et al.   PLoS One

The Venom Gland Transcriptome of Latrodectus tredecimguttatus Revealed by Deep Sequencing and cDNA Library Analysis

(2013) Quanze He et al.   PLoS One

Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels

(2012) Marcel H. Schulz et al.   BIOINFORMATICS

Orthologous genes identified by transcriptome sequencing in the spider genus Stegodyphus

(2012) Tiina M Mattila et al.   BMC GENOMICS

Transcriptome analysis of the citrus red mite, Panonychus citri, and its gene expression by exposure to insecticide/acaricide

(2012) J-Z. Niu et al.   INSECT MOLECULAR BIOLOGY

Spider Glue Proteins Have Distinct Architectures Compared with Traditional Spidroin Family Members

(2012) Keshav Vasanthavada et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Ancient Properties of Spider Silks Revealed by the Complete Gene Sequence of the Prey-Wrapping Silk Protein (AcSp1)

(2012) Nadia A. Ayoub et al.   MOLECULAR BIOLOGY AND EVOLUTION

Challenges and strategies in transcriptome assembly and differential gene expression quantification. A comprehensivein silicoassessment of RNA-seq experiments

(2012) Nagarjun Vijay et al.   MOLECULAR ECOLOGY

OrthoDB: a hierarchical catalog of animal, fungal and bacterial orthologs

(2012) Robert M. Waterhouse et al.   NUCLEIC ACIDS RESEARCH

Digital Gene Expression Analysis Based on Integrated De Novo Transcriptome Assembly of Sweet Potato [Ipomoea batatas (L.) Lam.]

(2012) Xiang Tao et al.   PLoS One

Conserved C-Terminal Domain of Spider Tubuliform Spidroin 1 Contributes to Extensibility in Synthetic Fibers

(2011) Eric Gnesa et al.   BIOMACROMOLECULES

The genome of Tetranychus urticae reveals herbivorous pest adaptations

(2011) Miodrag Grbić et al.   NATURE

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Spinning Gland Transcriptomics from Two Main Clades of Spiders (Order: Araneae) - Insights on Their Molecular, Anatomical and Behavioral Evolution

(2011) Francisco Prosdocimi et al.   PLoS One

Untangling spider silk evolution with spidroin terminal domains

(2010) Jessica E Garb et al.   BMC EVOLUTIONARY BIOLOGY

Applications of next generation sequencing in molecular ecology of non-model organisms

(2010) R Ekblom et al.   HEREDITY

Recombinant Spider Silk Proteins for Applications in Biomaterials

(2010) Kristina Spiess et al.   MACROMOLECULAR BIOSCIENCE

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Gene ontology analysis for RNA-seq: accounting for selection bias

(2010) Matthew D Young et al.   GENOME BIOLOGY

Spider Web Glue: Two Proteins Expressed from Opposite Strands of the Same DNA Sequence

(2009) Omer Choresh et al.   BIOMACROMOLECULES

Pyriform Spidroin 1, a Novel Member of the Silk Gene Family That Anchors Dragline Silk Fibers in Attachment Discs of the Black Widow Spider,Latrodectus hesperus

(2009) Eric Blasingame et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Sequencing technologies — the next generation

(2009) Michael L. Metzker   NATURE REVIEWS GENETICS

Reconstructing web evolution and spider diversification in the molecular era

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

First divergence time estimate of spiders, scorpions, mites and ticks (subphylum: Chelicerata) inferred from mitochondrial phylogeny

(2008) Ayyamperumal Jeyaprakash et al.   EXPERIMENTAL AND APPLIED ACAROLOGY

RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays

(2008) J. C. Marioni et al.   GENOME RESEARCH