Genome sequence-independent identification of RNA editing sites.
RNA editing generates post-transcriptional sequence changes that can be deduced from RNA-seq data, but detection typically requires matched genomic sequence or multiple related expression data sets. We developed the GIREMI tool (genome-independent identification of RNA editing by mutual information; https://www.ibp.ucla.edu/research/xiao/GIREMI.html) to predict adenosine-to-inosine editing accurately and sensitively from a single RNA-seq data set of modest sequencing depth. Using GIREMI on existing data, we observed tissue-specific and evolutionary patterns in editing sites in the human population.
Department of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, USA.
Qing
Q
Zhang
1] Department of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, USA. [2] Bioinformatics Interdepartmental Program, University of California, Los Angeles, Los Angeles, USA. [3] Molecular Biology Institute, University of California, Los Angeles, Los Angeles, USA.
Xinshu
X
Xiao
D019143:Evolution, Molecular; D023281:Genomics; D006801:Humans; D017393:RNA Editing / Q000235:genetics*; D017423:Sequence Analysis, RNA / Q000379:methods*