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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Transcriptome sequences resolve deep relationships of the grape family.
Jun Wen,Zhiqiang Xiong,Ze-Long Nie,Likai Mao,Yabing Zhu,Xianzhao Kan,Stefanie M. Ickert-Bond,Jean M. Gerrath,Elizabeth A. Zimmer,Xiao Dong Fang +9 more
TL;DR: The resulting transcriptome phylogeny provides robust support for the deep relationships, showing the phylogenetic utility of transcriptome data for plants over a time scale at least since the mid-Cretaceous, and the pros and cons of transcriptomic data for phylogenetic inference in plants.
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Quantitative RNA-Seq analysis in non-model species: assessing transcriptome assemblies as a scaffold and the utility of evolutionary divergent genomic reference species
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Construction and Analysis of an Integrated Regulatory Network Derived from High-Throughput Sequencing Data
Chao Cheng,Koon-Kiu Yan,Woochang Hwang,Jiang Qian,Nitin Bhardwaj,Joel Rozowsky,Zhi John Lu,Wei Niu,P. Alves,Masaomi Kato,Michael Snyder,Mark Gerstein +11 more
TL;DR: A network framework for analyzing multi-level regulation in higher eukaryotes based on systematic integration of various high-throughput datasets is presented, finding that transcription factors downstream of the hierarchy distinguish themselves by expressing more uniformly at various tissues, have more interacting partners, and are more likely to be essential.
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Clonal spread and interspecies transmission of clinically relevant ESBL-producing Escherichia coli of ST410—another successful pandemic clone?
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TL;DR: Initial evidence for a recent interspecies transmission of a new successful clone of ST410 E. coli between wildlife, humans, companion animals and the environment is given to underline the zoonotic potential of clinically relevant multi-resistant bacteria found in the environment as well as the mandatory nature of the 'One Health' approach.
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Obese diet-induced mouse models of nonalcoholic steatohepatitis-tracking disease by liver biopsy
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