Accurate identification of human Alu and non-Alu RNA editing sites

Ramaswami, G., Lin, W., Piskol, R., Tan, M. H., Davis, C., Li, J. B. (June 2012) Accurate identification of human Alu and non-Alu RNA editing sites. Nature Methods, 9 (6). 579-+. ISSN 1548-7091

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DOI: 10.1038/nmeth.1982


We developed a computational framework to robustly identify RNA editing sites using transcriptome and genome deep-sequencing data from the same individual. As compared with previous methods, our approach identified a large number of Alu and non-Alu RNA editing sites with high specificity. We also found that editing of non-Alu sites appears to be dependent on nearby edited Alu sites, possibly through the locally formed double-stranded RNA structure.

Item Type: Paper
Uncontrolled Keywords: dna-sequence differences human transcriptome widespread rna alignment
Subjects: bioinformatics
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification
bioinformatics > genomics and proteomics
CSHL Authors:
Communities: CSHL labs > Gingeras lab
Depositing User: Matt Covey
Date: June 2012
Date Deposited: 30 Jan 2013 14:28
Last Modified: 20 Jul 2021 13:45
PMCID: PMC3662811
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