|
| Status |
Public on Jan 18, 2021 |
| Title |
ATAC_BrainE15_Baf53a_Het_1 |
| Sample type |
SRA |
| |
|
| Source name |
Mouse forebrains E15.5
|
| Organism |
Mus musculus |
| Characteristics |
tissue: forebrain E15.5
genotype: Het
|
| Growth protocol |
Forebrains were disected from E15.5 embryos and dissociated into a single cell suspension.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA
ATAC-seq was performed as previously described (PMID: 24097267)
|
| |
|
| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Basecalls performed using Illumina CASAVA version 1.8.2
Reads were trimmed to remove adapters, then aligned to the mm10 genome assembly using bowtie version 2.1.0. Duplicate reads were discarded.
Peaks were called using MACS 2.1.0 with with default settings.
Genome_build: Genome_build: mm10
Supplementary_files_format_and_content: bigWig files were generated by creating fragments of l150 bp centered over all ATAC-seq read fragments, then calculating the basepair coverage for each replicate using Bedtools. bigWig files represent the mean values across replicates from each condition.
|
| |
|
| Submission date |
Jan 17, 2021 |
| Last update date |
Jan 19, 2021 |
| Contact name |
Simon Braun |
| E-mail(s) |
simon.braun@unige.ch
|
| Organization name |
University of Geneva
|
| Street address |
rue Michel Servet 1
|
| City |
Geneva |
| ZIP/Postal code |
1211 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE164989 |
BAF subunit switching regulates chromatin accessibility to control cell cycle exit in the developing mammalian cortex [ATAC-seq] |
| GSE164991 |
BAF subunit switching regulates chromatin accessibility to control cell cycle exit in the developing mammalian cortex |
|
| Relations |
| BioSample |
SAMN17367790 |
| SRA |
SRX9863641 |
