Preprint: Please note that this article has not completed peer review.

MAPCap: A fast and quantitative transcription start site profiling protocol 

Vivek Bhardwaj, Giuseppe Semplicio, Niyazi Umut Erdogdu, Asifa Akhtar

Abstract

Below we present a simple and quick TSS quantification protocol, MAPCap (Multiplexed Affinity Purification of Capped RNA) that enables users to combine high-resolution detection of transcription start-sites and differential expression analysis. MAPCap can be used to profile TSS from dozens of samples in a multiplexed way, in 16-18 hours. MAPCap data can be analyzed using our easy-to-use software icetea (https://bioconductor.org/packages/icetea), which allows users to detect robust TSS using replicates, and perform differential TSS analysis.

Keywords
CAGE, Gene expression analysis, Transcription start sites, High-throughput sequencing

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Preprint: Please note that this article has not completed peer review.

MAPCap: A fast and quantitative transcription start site profiling protocol 

Vivek Bhardwaj, Giuseppe Semplicio, Niyazi Umut Erdogdu, Asifa Akhtar

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Abstract

Below we present a simple and quick TSS quantification protocol, MAPCap (Multiplexed Affinity Purification of Capped RNA) that enables users to combine high-resolution detection of transcription start-sites and differential expression analysis. MAPCap can be used to profile TSS from dozens of samples in a multiplexed way, in 16-18 hours. MAPCap data can be analyzed using our easy-to-use software icetea (https://bioconductor.org/packages/icetea), which allows users to detect robust TSS using replicates, and perform differential TSS analysis.

Figures

Introduction

Reagents

Equipment

Procedure

Time Taken

Anticipated Results

References

Acknowledgements

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