Genome-wide profiling of the 3' ends of polyadenylated RNAs Journal Article


Authors: Sanfilippo, P.; Miura, P.; Lai, E. C.
Article Title: Genome-wide profiling of the 3' ends of polyadenylated RNAs
Abstract: Alternative polyadenylation (APA) diversifies the 3′ termini of a majority of mRNAs in most eukaryotes, and is consequently inferred to have substantial consequences for the utilization of post-transcriptional regulatory mechanisms. Since conventional RNA-sequencing methods do not accurately define mRNA termini, a number of protocols have been developed that permit sequencing of the 3′ ends of polyadenylated transcripts (3′-seq). We present here our experimental protocol to generate 3′-seq libraries using a dT-priming approach, including extensive details on considerations that will enable successful library cloning. We pair this with a set of computational tools that allow the user to process the raw sequence data into a filtered set of clusters that represent high-confidence functional polyadenylation sites. The data are single-nucleotide resolution and quantitative, and can be used for downstream analyses of APA. © 2017 Elsevier Inc.
Keywords: polyadenylation; 3′ utr; apa; genome-wide profiling; 3′ end
Journal Title: Methods
Volume: 126
ISSN: 1046-2023
Publisher: Academic Press Inc., Elsevier Science  
Date Published: 2017-08-15
Start Page: 86
End Page: 94
Language: English
DOI: 10.1016/j.ymeth.2017.06.003
PROVIDER: scopus
PMCID: PMC5583017
PUBMED: 28602807
DOI/URL:
Notes: Article -- Export Date: 1 December 2017 -- Source: Scopus
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MSK Authors
  1. Eric C Lai
    117 Lai