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RNA-Seq: a revolutionary tool for transcriptomics

Zhong Wang, +2 more
- 01 Jan 2009 - 
- Vol. 10, Iss: 1, pp 57-63
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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.

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Citations
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Adaptation in the age of ecological genomics: insights from parallelism and convergence.

TL;DR: This review shows that the advent of next-generation sequencing technologies and the growing use of genomic approaches make it increasingly feasible to answer fundamental questions of parallel phenotypic diversification in closely related species using ecological and evolutionary 'non-model' populations of vertebrates in nature.
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Actinobacteria: Current research and perspectives for bioremediation of pesticides and heavy metals.

TL;DR: In this paper, a review of different bioremediation strategies using actinobacteria and how they contributed to the improvement of the already existing strategies is presented. And the importance of omic studies to elucidate mechanisms and regulations that bacteria use to cope with pollutant toxicity is discussed.
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Deep sequencing of the Camellia sinensis transcriptome revealed candidate genes for major metabolic pathways of tea-specific compounds

TL;DR: The coverage of the transcriptome is comprehensive enough to discover all known genes of several major metabolic pathways, and can serve as an important public information platform for gene expression, genomics, and functional genomic studies in C. sinensis.
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TAIL-seq: Genome-wide Determination of Poly(A) Tail Length and 3′ End Modifications

TL;DR: TAIL-seq is a potent tool to dissect dynamic control of mRNA turnover and translational control, and to discover unforeseen features of RNA cleavage and tailing, including widespread uridylation and guanylation at the downstream of poly(A) tail.
References
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Journal ArticleDOI

Mapping and quantifying mammalian transcriptomes by RNA-Seq.

TL;DR: Although >90% of uniquely mapped reads fell within known exons, the remaining data suggest new and revised gene models, including changed or additional promoters, exons and 3′ untranscribed regions, as well as new candidate microRNA precursors.
PatentDOI

Serial analysis of gene expression

TL;DR: Serial analysis of gene expression (SAGE) should provide a broadly applicable means for the quantitative cataloging and comparison of expressed genes in a variety of normal, developmental, and disease states.
Journal ArticleDOI

Mapping short DNA sequencing reads and calling variants using mapping quality scores

TL;DR: This work describes the software MAQ, software that can build assemblies by mapping shotgun short reads to a reference genome, using quality scores to derive genotype calls of the consensus sequence of a diploid genome, e.g., from a human sample.
Journal ArticleDOI

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

TL;DR: It is found that the Illumina sequencing data are highly replicable, with relatively little technical variation, and thus, for many purposes, it may suffice to sequence each mRNA sample only once (i.e., using one lane).
Journal ArticleDOI

SOAP: short oligonucleotide alignment program

TL;DR: The program SOAP is designed to handle the huge amounts of short reads generated by parallel sequencing using the new generation Illumina-Solexa sequencing technology, which supports multi-threaded parallel computing and has a batch module for multiple query sets.
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