|
| Status |
Public on Oct 20, 2021 |
| Title |
NMuMG cells treated with TGFbeta replicate 2 |
| Sample type |
SRA |
| |
|
| Source name |
In vitro cell culture
|
| Organism |
Mus musculus |
| Characteristics |
cell line: NMuMG
treatment: WT cells Treated with Tgfbeta
origin: Mouse Mammary Gland
|
| Treatment protocol |
Cells are : treated with TGF-beta or Silenced for PCBP1 and silenced or overexpressing Platr18
|
| Growth protocol |
Cells are routinely cultivated in DMEM 10% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of 2D in vitro cultures
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
MMEb-R2
|
| Data processing |
Alignement with Bowtie 2 (2.2.5)
Quantification to mouse (Gencode Comprehensive gene annotation)
Normalization by CPM (counts per million)
Add: 1.0E-4 for each value
Genome_build: M18 (GRCm38.p6)
Supplementary_files_format_and_content: Normalized_counts.txt (normalized reads in CPM)
|
| |
|
| Submission date |
Mar 03, 2020 |
| Last update date |
Oct 20, 2021 |
| Contact name |
Simon Grelet |
| Organization name |
University of South Alabama - Mitchell Cancer Institute
|
| Street address |
1660 Spring Hill Ave - USA Drive North,
|
| City |
Mobile, AL |
| State/province |
Alabama |
| ZIP/Postal code |
36604 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE146273 |
RNA-Seq during tumor cell plasticity and Platr18 overexpression/silencing |
|
| Relations |
| BioSample |
SAMN14266747 |
| SRA |
SRX7830523 |
