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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Rsx is a metatherian RNA with Xist -like properties in X-chromosome inactivation
Jennifer Grant,Shantha K. Mahadevaiah,Pavel P. Khil,Mahesh N. Sangrithi,Hélène Royo,Janine A. Duckworth,John R. McCarrey,John L. VandeBerg,Marilyn B. Renfree,Willie Taylor,Greg Elgar,R. Daniel Camerini-Otero,Michael J. Gilchrist,James M. A. Turner +13 more
TL;DR: Using the marsupial Monodelphis domestica, Rsx (RNA-on-the-silent X), an RNA is identified that has properties consistent with a role in X-chromosome inactivation, and is found to be a large, repeat-rich RNA that is expressed only in females and is transcribed from, and coats, the inactive X chromosome.
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Comparative analyses of lipidomes and transcriptomes reveal a concerted action of multiple defensive systems against photooxidative stress in Haematococcus pluvialis
Yunho Gwak,Yong Sic Hwang,Baobei Wang,Min-Ju Kim,Jooyeon Jeong,Choul-Gyun Lee,Qiang Hu,Danxiang Han,EonSeon Jin +8 more
TL;DR: This study represents the first genome-wide transcriptomic and lipidomic analysis of H. pluvialis to reveal the regulation of astaxanthin biosynthesis and lipid metabolism during the encystment process under high irradiation.
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Strategies for transcriptome analysis in nonmodel plants
TL;DR: Together, alignment to the genome of a close relative and de novo assembly constitute a powerful method of transcriptome analysis in nonmodel organisms.
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Large-scale detection and analysis of RNA editing in grape mtDNA by RNA deep-sequencing.
Ernesto Picardi,David S. Horner,Matteo Chiara,Riccardo Schiavon,Giorgio Valle,Graziano Pesole +5 more
TL;DR: Solexa/Illumina and SOLiD platforms showed different characteristics with respect to the specific issue of large-scale editing analysis, and the combined approach presented here reduces the false positive rate of discovery of editing events.
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