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Method Article
STARR-seq Screening protocol
Alexander Stark
Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Campus-Vienna-Biocenter 1, 1030 Vienna, Austria
Corresponding Author
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This work is licensed under a CC BY 4.0 License. Read Full License
Self-transcribing active regulatory region sequencing (STARR-seq) is a massively parallel reporter assay to identify transcriptional enhancers directly based on their activity in entire genomes for millions of candidates from arbitrary sources of DNA and to assess their activity quantitatively (Arnold et al., Science 2013). Enhancer activity is directly linked to the underlying DNA sequence and measured as presence of the resulting reporter transcripts among cellular RNA by deep sequencing. This protocol describes the screening of STARR-seq libraries in human cells.
Keywords
enhancer, reporter assay, luciferase, starr-seq, mpra
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Associated Publications
STARR-seq — Principles and applications
by Felix Muerdter, Łukasz M. Boryń, and Cosmas D. Arnold
Genome-Wide Quantitative Enhancer Activity Maps Identified by STARR-seq
by C. D. Arnold, D. Gerlach, C. Stelzer, +3
Science (13 November, 2017)
10.1038/nmeth.4534
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This is a preprint. It has not completed peer review.
Method Article
STARR-seq Screening protocol
Alexander Stark
Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC), Campus-Vienna-Biocenter 1, 1030 Vienna, Austria
Corresponding Author
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
History
CURRENT STATUS: Posted
Version 1
Posted 11 Dec, 2017
No community comments so far
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
Subject Areas
Biotechnology
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Self-transcribing active regulatory region sequencing (STARR-seq) is a massively parallel reporter assay to identify transcriptional enhancers directly based on their activity in entire genomes for millions of candidates from arbitrary sources of DNA and to assess their activity quantitatively (Arnold et al., Science 2013). Enhancer activity is directly linked to the underlying DNA sequence and measured as presence of the resulting reporter transcripts among cellular RNA by deep sequencing. This protocol describes the screening of STARR-seq libraries in human cells.
Figure 1
Associated Publications
STARR-seq — Principles and applications
by Felix Muerdter, Łukasz M. Boryń, and Cosmas D. Arnold
Genome-Wide Quantitative Enhancer Activity Maps Identified by STARR-seq
by C. D. Arnold, D. Gerlach, C. Stelzer, +3
Science (13 November, 2017)
10.1038/nmeth.4534