|
| Status |
Public on Apr 23, 2019 |
| Title |
Ba_DKO_a6neg_OHT rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Mammary cells
|
| Organism |
Mus musculus |
| Characteristics |
developmental stage: Mature Virgin
cell type: Mammary cells
genotype: a3a6KO
|
| Treatment protocol |
Isolated from tissue explants by FACs
Trypsine digestion/labelling/FACS sorting
|
| Growth protocol |
Mammary explants growth for 1 week at 37°C, 5%CO2; 5%FCs + 100mM 4-OHT
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen micro-columns
RNA libraries were prepared for sequencing using SMARTer v4 protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
A918U23
|
| Data processing |
Sequencing, data quality, reads repartition (e.g., for potential ribosomal contamination), and insert size estimation were performed using FastQC, Picard-Tools, Samtools and rseqc
Reads were mapped using STAR_2.4.0
Genome_build: mm10
Supplementary_files_format_and_content: Tab-delimited text file includes deseq2 normalized expression values for each gene and for each sample. Annotations from Human FAST DB v2016_1 were also provided
|
| |
|
| Submission date |
Jul 14, 2018 |
| Last update date |
Apr 23, 2019 |
| Contact name |
Pierre de la Grange |
| E-mail(s) |
pierre.delagrange@genosplice.com
|
| Organization name |
GenoSplice technology
|
| Department |
Paris Biotech Santé
|
| Street address |
29, rue du Faubourg Saint-Jacques
|
| City |
Paris |
| ZIP/Postal code |
75014 |
| Country |
France |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE117120 |
Deciphering the mammary stem cell niche: a role for laminin-binding integrins |
|
| Relations |
| BioSample |
SAMN09658564 |
| SRA |
SRX4391406 |
