Author: Chang, Stewart T.; Thomas, Matthew J.; Sova, Pavel; Green, Richard R.; Palermo, Robert E.; Katze, Michael G.
Title: Next-Generation Sequencing of Small RNAs from HIV-Infected Cells Identifies Phased microRNA Expression Patterns and Candidate Novel microRNAs Differentially Expressed upon Infection Document date: 2013_2_5
ID: t98g8z7i_20
Snippet: The small RNA-Seq data set also included short reads that mapped to the genome such that they suggested the existence of nonannotated microRNAs (i.e., microRNAs not found in miRBase). We designated these sequences as candidate novel microRNAs. We identified these microRNAs using the miRDeep algorithm which detects features (such as read patterns and folding energies) consistent with the presence of microRNAs (15) . We then filtered the miRDeep ou.....
Document: The small RNA-Seq data set also included short reads that mapped to the genome such that they suggested the existence of nonannotated microRNAs (i.e., microRNAs not found in miRBase). We designated these sequences as candidate novel microRNAs. We identified these microRNAs using the miRDeep algorithm which detects features (such as read patterns and folding energies) consistent with the presence of microRNAs (15) . We then filtered the miRDeep output using a minimum threshold for expression and identified DE candidate novel microRNAs using DESeq.
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