De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis
De novo assembly of RNA-seq data enables researchers to study transcriptomes without the
need for a genome sequence; this approach can be usefully applied, for instance, in …
need for a genome sequence; this approach can be usefully applied, for instance, in …
Transcriptomic responses to environmental change in fishes: insights from RNA sequencing
The need to better understand how plasticity and evolution affect organismal responses to
environmental variability is paramount in the face of global climate change. The potential for …
environmental variability is paramount in the face of global climate change. The potential for …
Assessing De Novo transcriptome assembly metrics for consistency and utility
Background Transcriptome sequencing and assembly represent a great resource for the
study of non-model species, and many metrics have been used to evaluate and compare …
study of non-model species, and many metrics have been used to evaluate and compare …
SNP calling from RNA-seq data without a reference genome: identification, quantification, differential analysis and impact on the protein sequence
Abstract SNPs (Single Nucleotide Polymorphisms) are genetic markers whose precise
identification is a prerequisite for association studies. Methods to identify them are currently …
identification is a prerequisite for association studies. Methods to identify them are currently …
Optimizing and benchmarking de novo transcriptome sequencing: from library preparation to assembly evaluation
Y Hara, K Tatsumi, M Yoshida, E Kajikawa, H Kiyonari… - BMC genomics, 2015 - Springer
Background RNA-seq enables gene expression profiling in selected spatiotemporal
windows and yields massive sequence information with relatively low cost and time …
windows and yields massive sequence information with relatively low cost and time …
A genome-wide transcriptome map of pistachio (Pistacia vera L.) provides novel insights into salinity-related genes and marker discovery
M Moazzzam Jazi, SM Seyedi, E Ebrahimie… - BMC genomics, 2017 - Springer
Abstract Background Pistachio (Pistacia vera L.) is one of the most important commercial nut
crops worldwide. It is a salt-tolerant and long-lived tree, with the largest cultivation area in …
crops worldwide. It is a salt-tolerant and long-lived tree, with the largest cultivation area in …
A de novo transcriptome of the Malpighian tubules in non-blood-fed and blood-fed Asian tiger mosquitoes Aedes albopictus: insights into diuresis, detoxification, and …
Background. In adult female mosquitoes, the renal (Malpighian) tubules play an important
role in the post-prandial diuresis, which removes excess ions and water from the …
role in the post-prandial diuresis, which removes excess ions and water from the …
Coleoptera genome and transcriptome sequences reveal numerous differences in neuropeptide signaling between species
JA Veenstra - PeerJ, 2019 - peerj.com
Background Insect neuropeptides are interesting for the potential their receptors hold as
plausible targets for a novel generation of pesticides. Neuropeptide genes have been …
plausible targets for a novel generation of pesticides. Neuropeptide genes have been …
Transcriptome Sequencing and Analysis of Wild Amur Ide (Leuciscus waleckii) Inhabiting an Extreme Alkaline-Saline Lake Reveals Insights into Stress Adaptation
Background Amur ide (Leuciscus waleckii) is an economically and ecologically important
species in Northern Asia. The Dali Nor population inhabiting Dali Nor Lake, a typical saline …
species in Northern Asia. The Dali Nor population inhabiting Dali Nor Lake, a typical saline …
Molecular Evolution of Glycoside Hydrolase Genes in the Western Corn Rootworm (Diabrotica virgifera virgifera)
Cellulose is an important nutritional resource for a number of insect herbivores. Digestion of
cellulose and other polysaccharides in plant-based diets requires several types of enzymes …
cellulose and other polysaccharides in plant-based diets requires several types of enzymes …