|
| Status |
Public on Nov 30, 2021 |
| Title |
MAMBO89AG3241016 Untreated |
| Sample type |
SRA |
| |
|
| Source name |
HER2 stable
|
| Organism |
Mus musculus |
| Characteristics |
treatment: Untreated
cell line: MAMBO89AG3241016
|
| Treatment protocol |
trastuzumab treated cells were kept in contact with 30 μg/ml of trastuzumab for 30 or 60 days
|
| Growth protocol |
Cell lines were stabilized and cultured in DMEM (Thermo Fisher Scientific, Monza, Italy) that was supplemented with 20% fetal bovine serum (FBS, Thermo Fisher Scientific), 30 µg/ml bovine pituitary extract (Corning Life Sciences, Glendale, AZ, USA) and 0.5% v/v MITO Serum Extender (Corning). Cell cultures were maintained at 37°C in a humified 5% CO2 atmosphere.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from cell pellets using Trizol Reagent (Thermo Fisher), according to the manufacturer’s instructions.
RNA-seq libraries were generated using TruSeq RNA Sample Prep Kit v2 (Illumina), according to the manufacturer’s recommendations
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
established from FVBhuHER2 virgin female mice
|
| Data processing |
Demultiplexing (bcl2fastq Illumina tool version 2.17.1.14-2)
counts table generated using STAR (version 2.5) /RSEM (version 1.3.0)
Genome_build: mm10
Supplementary_files_format_and_content: tab delimited, raw counts
|
| |
|
| Submission date |
Aug 04, 2021 |
| Last update date |
Nov 30, 2021 |
| Contact name |
Raffaele A Calogero |
| E-mail(s) |
[email protected]
|
| Phone |
++39 0116706454
|
| Organization name |
University of Torino
|
| Department |
Molecular Biotechnology Center
|
| Lab |
Bioinformatics and Genomics Unit
|
| Street address |
Via Nizza 52
|
| City |
Torino |
| State/province |
To |
| ZIP/Postal code |
10126 |
| Country |
Italy |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE181468 |
Transcription profiling of MamBo cell lines |
|
| Relations |
| BioSample |
SAMN20574976 |
| SRA |
SRX11650765 |
