Assay for Transposase-Accessible Chromatin with High-Throughput Sequencing (ATAC-Seq) Protocol for Zebrafish Embryos.
Assay for transposase-accessible chromatin with high-throughput sequencing (ATAC-seq) is a useful method to map genome-wide chromatin accessibility and nucleosome positioning. Genome-wide sequencing is performed utilizing adapter sequences inserted by a prokaryotic transposase, Tn5, into the accessible regions of chromatin. Here we describe the use of ATAC-seq in the zebrafish embryo and thereby the applicability of this approach in whole vertebrate embryos.
Cardiovascular Research Institute, University of California, San Francisco, CA, 94158, USA.
Canan
C
Doganli
Cardiovascular Research Institute, University of California, San Francisco, CA, 94158, USA.
Melissa
M
Sandoval
Gladstone Institute of Cardiovascular Disease, San Francisco, CA, 94158, USA.|Roddenberry Center for Stem Cell Biology and Medicine at Gladstone, San Francisco, CA, 94158, USA.
Sean
S
Thomas
Cardiovascular Research Institute, University of California, San Francisco, CA, 94158, USA. Daniel.Hart@ucsf.edu.
Daniel
D
Hart
D000818:Animals; D002843:Chromatin / Q000302:isolation & purification; D004625:Embryo, Nonmammalian; D016678:Genome; D059014:High-Throughput Nucleotide Sequencing; D016133:Polymerase Chain Reaction; D017422:Sequence Analysis, DNA; D019895:Transposases / Q000737:chemistry; D015027:Zebrafish / Q000235:genetics*
D002843:Chromatin; D019895:Transposases
ATAC-seq; Chromatin accessibility; Genome wide; Zebrafish