RNA-Seq: a revolutionary tool for transcriptomics
TLDR
The RNA-Seq approach to transcriptome profiling that uses deep-sequencing technologies provides a far more precise measurement of levels of transcripts and their isoforms than other methods.Abstract:
RNA-Seq is a recently developed approach to transcriptome profiling that uses deep-sequencing technologies. Studies using this method have already altered our view of the extent and complexity of eukaryotic transcriptomes. RNA-Seq also provides a far more precise measurement of levels of transcripts and their isoforms than other methods. This article describes the RNA-Seq approach, the challenges associated with its application, and the advances made so far in characterizing several eukaryote transcriptomes.read more
Citations
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Full-length transcriptome sequences and splice variants obtained by a combination of sequencing platforms applied to different root tissues of Salvia miltiorrhiza and tanshinone biosynthesis.
Zhichao Xu,Reuben J. Peters,Jason L. Weirather,Hongmei Luo,Baosheng Liao,Xin Zhang,Yingjie Zhu,Aijia Ji,Bing Zhang,Songnian Hu,Kin Fai Au,Jingyuan Song,Shilin Chen +12 more
TL;DR: It is demonstrated that the tanshinone pigments are produced and accumulate in the root periderm, and a combination of NGS and single-molecule real-time (SMRT) sequencing to various root tissues is applied to provide a more complete view of the S. miltiorrhiza transcriptome.
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Mechanisms regulating zygotic genome activation.
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Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE.
TL;DR: The eicosanoid metabolic pathway is identified, especially reactions catalyzing the production of leukotrienes from arachidnoic acid, as potential drug targets that selectively affect tumor tissues.
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Sex-specific and lineage-specific alternative splicing in primates
TL;DR: A large number of genes whose expression levels likely evolve under natural selection in primates are identified, including a subset of genes with conserved sexually dimorphic expression patterns across the three species, which are found to be enriched for genes involved in lipid metabolism.
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RNA-seq: technical variability and sampling
Lauren M. McIntyre,Kenneth K. Lopiano,Alison M. Morse,Victor A. Amin,Ann L. Oberg,Linda J. Young,Sergey V. Nuzhdin +6 more
TL;DR: Technical variability is too high to ignore and will persist as an issue needing to be addressed in experimental design even as the next wave of technology produces larger numbers of reads.
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