|
| Status |
Public on Mar 09, 2017 |
| Title |
MCF7_DMSO_2 |
| Sample type |
SRA |
| |
|
| Source name |
MCF-7 breast cancer cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MCF7
treatment: DMSO
|
| Treatment protocol |
Samples 1-8. MCF-7 cells that had been lentivirally infected with constructs for inducible expression of small hairpin RNA's directed against the MEN1 mRNA (ShMEN1#1) or a control sequence (ShCtrl) were synchronized for 72 hrs in phenol red-free medium (DMEM) containing 10% charcoal dextran-treated fetal bovine serum (CDT medium). Expression of small hairpin RNA's was induced by adding 100 ng/ml doxycycline for 72 hrs. 10nM estradiol or vehicle was added to the cells for 45 mins. Samples 9-12. MCF-7 cells were treated with 1mM of the menin inhibitor MI-2 or DMSO for 4 days.
|
| Growth protocol |
Cells were maintained at 37oC and 5% CO2 in DMEM + 10% FBS and Pen-Strep.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using RNeasy
Libraries were made from total RNA using the Illumina TruSeq Stranded mRNA Library Prep Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Expression_transcripts_MI2.txt
|
| Data processing |
Basecalls were performed with FastQC version 0.10.0.
RNA-seq reads were aligned to the hg19 genome assembly using Tophat
Genome_build: hg19
|
| |
|
| Submission date |
Aug 31, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Koen M.A. Dreijerink |
| E-mail(s) |
koendreijerink@yahoo.com
|
| Organization name |
Dana-Farber Cancer Institute
|
| Department |
Medical Oncology
|
| Street address |
450 Brookline Avenue
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE86316 |
Messenger RNA expression after silencing or inhibition of MEN1in MCF-7 breast cancer cells |
|
| Relations |
| BioSample |
SAMN05721616 |
| SRA |
SRX2071020 |
