FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing
نویسندگان
چکیده
منابع مشابه
High-throughput RNA sequencing: a step forward in transcriptome analysis
The transcriptome plays an important role in the life of a cell. Detailed analysis of the transcriptome enables interpretation of its structure and functionality. High throughput sequencing technology signi cantly enhanced the understanding of transcriptome activity. The RNA-sequencing process currently provides the most accurate estimation of gene expression levels. Moreover, RNA-seq allows de...
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The functions of RNA molecules are intimately linked to their ability to fold into complex secondary and tertiary structures. Thus, understanding how these molecules fold is essential to determining how they function. Current methods for investigating RNA structure often use small molecules, enzymes, or ions that cleave or modify the RNA in a solvent-accessible manner. While these methods have ...
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RNA folds into intricate structures that are crucial for its functions and regulations. To date, a multitude of approaches for probing structures of the whole transcriptome, i.e., RNA structuromes, have been developed. Applications of these approaches to different cell lines and tissues have generated a rich resource for the study of RNA structure-function relationships at a systems biology lev...
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Detection of reverse transcriptase termination sites is important in many different applications, such as structural probing of RNAs, rapid amplification of cDNA 50 ends (50 RACE), cap analysis of gene expression, and detection of RNA modifications and protein–RNA cross-links. The throughput of these methods can be increased by applying massive parallel sequencing technologies. Here, we describ...
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MOTIVATION High-throughput sequencing has been used to probe RNA structures, by treating RNAs with reagents that preferentially cleave or mark certain nucleotides according to their local structures, followed by sequencing of the resulting fragments. The data produced contain valuable information for studying various RNA properties. RESULTS We developed methods for statistically modeling thes...
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ژورنال
عنوان ژورنال: Nature Methods
سال: 2010
ISSN: 1548-7091,1548-7105
DOI: 10.1038/nmeth.1529