Sequencing-based analyses of microbiomes have traditionally focused on addressing the
question of community membership and profiling taxonomic abundance through amplicon …

Abstract RNA-sequencing (RNA-seq) has a wide variety of applications, but no single
analysis pipeline can be used in all cases. We review all of the major steps in RNA-seq data …

RNA sequencing using the latest single-molecule sequencing instruments produces reads
that are thousands of nucleotides long. The ability to assemble these long reads can greatly …

Background Accurate fusion transcript detection is essential for comprehensive
characterization of cancer transcriptomes. Over the last decade, multiple bioinformatic tools …

Background The possibility of generating large RNA-sequencing datasets has led to
development of various reference-based and de novo transcriptome assemblers with their …

Few complete pathways have been established for the biosynthesis of medicinal
compounds from plants. Accordingly, many plant-derived therapeutics are isolated directly …

High-throughput sequencing of mRNA (RNA-seq) has become the standard method for
measuring and comparing the levels of gene expression in a wide variety of species and …

Mammals have extremely limited regenerative capabilities; however, axolotls are profoundly
regenerative and can replace entire limbs. The mechanisms underlying limb regeneration …

Symbiosis with arbuscular mycorrhizal fungi (AMF) improves plant nutrition in most land
plants, and its contribution to the colonization of land by plants has been hypothesized …

A transcriptome constructed from short-read RNA sequencing (RNA-seq) is an easily
attainable proxy catalog of protein-coding genes when genome assembly is unnecessary …