|
| Status |
Public on Jun 05, 2019 |
| Title |
atac_ILC2_rep3 |
| Sample type |
SRA |
| |
|
| Source name |
Peripheral blood
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: FACS-purified lymphocytes
markers: CRTH2+
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lymphocyte fractions were obtained from peripheral blood samples (buffy coats) donated by anonymous healthy donors. Cells were FACS-sorted using specific antibodies and YFP as described in detail in the manuscript.
Nextera DNA library construction (as described in Buenrostro et al. Nature Methods 2013).
|
| |
|
| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Reads were aligned using bowtie2 with default parameters. Paired alignments spanning more than 1000 bp were filtered from the alignments.
Sorted and indexed bam files were parsed to HOMER to creat tag directories without duplicates and bedgraphs for browser visualization.
MACS2 software was used to call peaks.
Genome_build: hg38
Supplementary_files_format_and_content: MACS2 peak calling files (.txt)
|
| |
|
| Submission date |
Dec 18, 2018 |
| Last update date |
Jun 05, 2019 |
| Contact name |
Ralph Stadhouders |
| E-mail(s) |
stadhoudersralph@gmail.com
|
| Organization name |
Erasmus Medical Center
|
| Department |
Pulmonary Medicine
|
| Street address |
Dr. Molewaterplein 50
|
| City |
Rotterdam |
| ZIP/Postal code |
3015 GE |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE124054 |
KLRG1 and NKp46 expressing CD117+ human innate lymphoid cell precursors are biased to ILC2 and ILC3, respectively |
|
| Relations |
| BioSample |
SAMN10612210 |
| SRA |
SRX5161269 |
