Abstract
Interactions between transcription factors and regulatory DNA can be described by gene regulatory networks. These networks provide a systems-level view of embryonic tissue development. Here, we describe a protocol for the isolation, identification, and experimental manipulation of tissue-specific cis-regulatory elements during zebrafish embryonic development using low-input ATAC-seq. With the methods described, genome-wide assessments of regulatory DNA in small populations of developing tissues can be identified, allowing for the construction of gene regulatory networks.
Key words
- Assay for transposase-accessible chromatin using sequencing (ATAC-seq)
- Fluorescence-activated cell sorting (FACS)
- Enhancer screening
- Zebrafish
- Embryonic Development
- Gene Regulatory Networks
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Dhillon-Richardson, R.M., Haugan, A.K., Martik, M.L. (2023). Fishing for Developmental Regulatory Regions: Zebrafish Tissue-Specific ATAC-seq. In: Simoes-Costa, M. (eds) DNA-Protein Interactions. Methods in Molecular Biology, vol 2599. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-2847-8_19
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DOI: https://doi.org/10.1007/978-1-0716-2847-8_19
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Publisher Name: Humana, New York, NY
Print ISBN: 978-1-0716-2846-1
Online ISBN: 978-1-0716-2847-8
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