|
| Status |
Public on Jan 24, 2018 |
| Title |
ATACseq in melanotropes replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
FACS-purified melanotrope cells
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Melanotropes
passages: FACS-sorting from POMC-EGFP mouse line
cell line: C57B6
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
We separated by dissection the two pituitary lobes from a POMC-EGFP mouse line, FACS-sorted the GFP-positive cells to extract purified melanotropes and corticotropes from each lobes. Transposase reaction was performed on 100 000 nuclei.
Libraries were prepared according to Illumina's instructions. Libraries were sequenced on the Illumina Hi-seq 2000 following the manufacturer's protocols to obtain 50bp paired end reads.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Sequence reads were trimmed for adapter sequences.
The resulting 50bp reads were trimmed to obtain high quality reads and then mapped to the mm10 mouse genome build using Bowtie with the following parameter: -t -p 4 --trim5 1 --best mm10 –S
Genome_build: mm10
Supplementary_files_format_and_content: bigwig files were generated using HOMER; Scores represent reads normalized per 10000000 reads
|
| |
|
| Submission date |
Sep 21, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
ALEXANDRE MAYRAN |
| E-mail(s) |
alexandre.mayran@epfl.ch
|
| Organization name |
EPFL
|
| Street address |
Station 19
|
| City |
LAUSANNE |
| State/province |
Waadt |
| ZIP/Postal code |
1015 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL13112 |
| Series (2) |
| GSE87179 |
ATACseq in primary pituitary cells |
| GSE87185 |
Pioneer factor Pax7 deploys a stable enhancer repertoire for specification of cell fate |
|
| Relations |
| BioSample |
SAMN05798954 |
| SRA |
SRX2182883 |
