TY  - JOUR
A1  - de Hoon, Michiel J.L.
A1  - Taft, Ryan J.
A1  - Hashimoto, Takehiro
A1  - Kanamori-Katayama, Mutsumi
A1  - Kawaji, Hideya
A1  - Kawano, Mitsuoki
A1  - Kishima, Mami
A1  - Lassmann, Timo
A1  - Faulkner, Geoffrey J.
A1  - Mattick, John S.
A1  - Daub, Carsten O.
A1  - Carninci, Piero
A1  - Kawai, Jun
A1  - Suzuki, Harukazu
A1  - Hayashizaki, Yoshihide
T1  - Cross-mapping and the identification of editing sites in mature microRNAs in high-throughput sequencing libraries
Y1  - 2010/02/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 257 
EP  - 264 
DO  - 10.1101/gr.095273.109 
VL  - 20 
IS  - 2 
UR  - http://genome.cshlp.org/content/20/2/257.abstract 
N2  - MicroRNAs (miRNAs) are short (20–23 nt) RNAs that are sequence-specific mediators of transcriptional and post-transcriptional regulation of gene expression. Modern high-throughput technologies enable deep sequencing of such RNA species on an unprecedented scale. We find that the analysis of small RNA deep-sequencing libraries can be affected by cross-mapping, in which RNA sequences originating from one locus are inadvertently mapped to another. Similar to cross-hybridization on microarrays, cross-mapping is prevalent among miRNAs, as they tend to occur in families, are similar or derived from repeat or structural RNAs, or are post-transcriptionally modified. Here, we develop a strategy to correct for cross-mapping, and apply it to the analysis of RNA editing in mature miRNAs. In contrast to previous reports, our analysis suggests that RNA editing in mature miRNAs is rare in animals. 
ER  -