General Information
- Experiment ID
- OEX014923
- Experiment Name
- ATAC-seq
- Experiment Type
- Genomic
- Description
- ATAC-seq was performed to evaluate chromatin accessibility during NEPC progression
- Protocol
- To reduce the amount of contaminating mitochondrial DNA, we performed an optimized ATAC-seq protocol. In brief, cells were collected and washed once with PBS. The cells were then lysed in ice-cold lysis buffer (10 mM Tris-HCl, pH 7.4; 10 mM NaCl; 3 mM MgCl2; 0.1% NP-40; 0.1% Tween 20; and 0.01% digitonin) for 3 min on ice. Immediately after lysis, nuclei were washed with 1 mL of wash buffer (10 mM Tris-HCl, pH 7.4; 10 mM NaCl; 3 mM MgCl2; and 0.1% Tween 20) and then centrifuged at 500 g for 10 min at 4 °C. To prepare sequencing libraries, a TruePrep DNA Library Prep Kit V2 for Illumina (Vazyme, TD501) was utilized for the following steps.
Experiment information
- Attributes
-
library_layout Paired mate_pair n/a insertion_size n/a number_of_reads_sequenced n/a library_name n/a library_selection PCR library_strategy ATAC-seq platform Illumina NovaSeq 6000 - Project
-
1
Project ID Project name Create Date OEP002972 Single-cell multiomics reveals the dynamics of pioneer forces driving prostate cancer lineage plasticity 2021-12-09 - Samples
- 2
- Runs
- 2
- Analysis
- 2
Author Information
- Create Date
- 2021-12-12
- Last Modified
- 2022-08-28
- Submission
- Fei Li
- Shanghai Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences