| Autor: |
Venugopalan D. Nair, Mital Vasoya, Vishnu Nair, Gregory R. Smith, Hanna Pincas, Yongchao Ge, Collin M. Douglas, Karyn A. Esser, Stuart C. Sealfon |
| Jazyk: |
angličtina |
| Rok vydání: |
2022 |
| Předmět: |
|
| Zdroj: |
MethodsX, Vol 9, Iss , Pp 101681- (2022) |
| Druh dokumentu: |
article |
| ISSN: |
2215-0161 |
| DOI: |
10.1016/j.mex.2022.101681 |
| Popis: |
ATAC-seq is a fast and sensitive method for the epigenomic profiling of open chromatin and for mapping of transcription factor binding sites [1]. Despite the development of the Omni-ATAC protocol for the profiling of chromatin accessibility in frozen tissues [2], studies in adipose tissue have been restricted due to technical challenges including the high lipid content of adipocytes and reproducibility issues between replicates. Here, we provide a modified Omni-ATAC protocol that achieves high data reproducibility in various tissue types from rat, including adipose and muscle tissues [3]. • This protocol describes a methodology that enables chromatin accessibility profiling from snap-frozen rat adipose and muscle tissues. • The technique comprises an optimized bead-based tissue homogenization process that substitutes to Dounce homogenization, reduces variability in the experimental procedure, and is adaptable to various tissue types. • In comparison with the Omni-ATAC protocol, the method described here results in improved ATAC-seq data quality that complies with ENCODE quality standards. |
| Databáze: |
Directory of Open Access Journals |
| Externí odkaz: |
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