Standardization of RNA chemical mapping experiments.
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ABSTRACT:
SUBMITTER: Kladwang W
PROVIDER: S-EPMC4033625 | biostudies-literature | 2014 May
REPOSITORIES: biostudies-literature
Publications
Standardization of RNA chemical mapping experiments.
Kladwang Wipapat W Mann Thomas H TH Becka Alex A Tian Siqi S Kim Hanjoo H Yoon Sungroh S Das Rhiju R
Biochemistry 20140507 19
Chemical mapping experiments offer powerful information about RNA structure but currently involve ad hoc assumptions in data processing. We show that simple dilutions, referencing standards (GAGUA hairpins), and HiTRACE/MAPseeker analysis allow rigorous overmodification correction, background subtraction, and normalization for electrophoretic data and a ligation bias correction needed for accurate deep sequencing data. Comparisons across six noncoding RNAs stringently test the proposed standardi ...[more]
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