|
| Status |
Public on Jan 24, 2018 |
| Title |
RNAseq in corticotropes replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
FACS-purified corticotrope cells
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Corticotropes
purification: FACS-sorting from POMC-EGFP mouse line
strain: C57B6
mrna enrichment protocol: Ribosomal depletion
|
| Extracted molecule |
total RNA |
| 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. We extracted total RNA using the zymo quick RNA miniprep kit. Ribosomal depletion was performed on the extracted RNA.
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 |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
diffExp_RNA_melano_vs_cortico_EdgeR.txt
|
| 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 GRCm38 mouse genome build using TopHat
gene expression FPKM was determined using HOMER
Genome_build: mm10
Supplementary_files_format_and_content: Differential gene expression analysis was performed with EdgeR
|
| |
|
| 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) |
| GSE87183 |
RNAseq in primary pituitary cells |
| GSE87185 |
Pioneer factor Pax7 deploys a stable enhancer repertoire for specification of cell fate |
|
| Relations |
| BioSample |
SAMN05799353 |
| SRA |
SRX2183001 |
