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Multiplex analysis of polyA-linked sequences (MAPS): An RNA-Seq strategy to profile poly(A+) RNA

  • Yu Zhou
  • , Hai Ri Li
  • , Jie Huang
  • , Ge Jin
  • , Xiang Dong Fu

Research output: Chapter in Book/Report/Conference proceedingChapterpeer-review

8 Scopus citations

Abstract

We summarize 12 experimental methods that have been developed for profiling gene expression by focusing on the 3′-end of poly(A+) mRNA, distilling both common and unique features. Of this family of methods, we provide detailed protocol for MAPS, a method we believe is the simplest and most cost-effective for profiling gene expression and quantifying alternative polyadenylation events by oligo-dT priming followed by random priming and deep sequencing. This method also enables library multiplexing by using a set of bar coding primers during PCR amplification. We also provide a general guideline for analysis of the data generated by MAPS by using the software package maps3end.

Original languageEnglish
Title of host publicationMethods in Molecular Biology
PublisherHumana Press Inc.
Pages169-178
Number of pages10
DOIs
StatePublished - 2014

Publication series

NameMethods in Molecular Biology
Volume1125
ISSN (Print)1064-3745

Keywords

  • Alternative polyadenylation
  • Gene expression profiling
  • Multiplexing strategies
  • RNA-seq

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