Simple and efficient profiling of transcription initiation and transcript levels with STRIPE-seq [METHOD]

We present Survey of TRanscription Initiation at Promoter Elements with high-throughput sequencing (STRIPE-seq), a simple, rapid, and cost-effective protocol for sequencing capped RNA 5' ends from as little as 50 ng total RNA. Including depletion of uncapped RNA and reaction cleanups, a STRIPE-seq library can be constructed in about 5 h. We show application of STRIPE-seq to TSS profiling in yeast and human cells and show that it can also be effectively used for quantification of transcript levels and analysis of differential gene expression. In conjunction with our ready-to-use computational workflows, STRIPE-seq is a straightforward, efficient means by which to probe the landscape of transcriptional initiation.

Source: Genome Research - July 13, 2020 Category: Genetics & Stem Cells Authors: Policastro, R. A., Raborn, R. T., Brendel, V. P., Zentner, G. E. Tags: METHOD Source Type: research