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TimeLapse-seq: adding a temporal dimension to RNA sequencing through nucleoside recoding.

ABSTRACT: RNA sequencing (RNA-seq) offers a snapshot of cellular RNA populations, but not temporal information about the sequenced RNA. Here we report TimeLapse-seq, which uses oxidative-nucleophilic-aromatic substitution to convert 4-thiouridine into cytidine analogs, yielding apparent U-to-C mutations that mark new transcripts upon sequencing. TimeLapse-seq is a single-molecule approach that is adaptable to many applications and reveals RNA dynamics and induced differential expression concealed in traditional RNA-seq.

SUBMITTER: Schofield JA 

PROVIDER: S-EPMC5831505 | biostudies-literature | 2018 Mar

REPOSITORIES: biostudies-literature

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TimeLapse-seq: adding a temporal dimension to RNA sequencing through nucleoside recoding.

Schofield Jeremy A JA   Duffy Erin E EE   Kiefer Lea L   Sullivan Meaghan C MC   Simon Matthew D MD  

Nature methods 20180122 3

RNA sequencing (RNA-seq) offers a snapshot of cellular RNA populations, but not temporal information about the sequenced RNA. Here we report TimeLapse-seq, which uses oxidative-nucleophilic-aromatic substitution to convert 4-thiouridine into cytidine analogs, yielding apparent U-to-C mutations that mark new transcripts upon sequencing. TimeLapse-seq is a single-molecule approach that is adaptable to many applications and reveals RNA dynamics and induced differential expression concealed in tradi  ...[more]

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