|
| Status |
Public on Oct 01, 2019 |
| Title |
MCF10A cells, hG1a1 |
| Sample type |
SRA |
| |
|
| Source name |
benign mammary epithelial cell line MCF10A
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: benign mammary epithelial cell line MCF10A
genotype: stably overexpressing KCNJ3 gene product (GIRK1)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were grown to 70% - 80% confluence, harvested by trypsinization and spun at 750 rpm for 3 minutes. RNA was isolated from cell-pellet using QIA shredder spin column and RNeasy Mini Kit according to manufacturer’s protocol.
10 ng of isolated RNA was heat inactivated for 10 min at 80 °C followed by cDNA Synthesis using the SuperScript ® VILO™ cDNA Synthesis Kit. DNA library was generated using the Ion AmpliSeq™Transcriptome Human Gene Expression Kit according to manufacturers’ instructions. Sequencing was performed on Ion S5 XL benchtop sequencer (Thermo Fisher Scientific) to a length of 200 base pairs. On average 8 million reads were sequenced per sample.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Ion Torrent S5 |
| |
|
| Data processing |
Mapping to human Transcriptome reference (AmpliSeq_Transcriptome_21K.v1, Thermo Fisher) by TMAP
Count reads per Transcript
Write Excel xls
Supplementary_files_format_and_content: Count reads per Transcript
|
| |
|
| Submission date |
Sep 30, 2019 |
| Last update date |
Oct 01, 2019 |
| Contact name |
Wolfgang Schreibmayer |
| E-mail(s) |
W.Schreibmayer@gmx.at
|
| Organization name |
Medical University of Graz
|
| Department |
Biophysics
|
| Lab |
Schreibmayer lab
|
| Street address |
Neue Stiftingtalstrasse 6/D04
|
| City |
Graz |
| State/province |
Styria |
| ZIP/Postal code |
A-8010 |
| Country |
Austria |
| |
|
| Platform ID |
GPL23934 |
| Series (1) |
| GSE138155 |
GIRK1 triggers multiple cancer-related pathways in the benign mammary epithelial cell line MCF10A |
|
| Relations |
| BioSample |
SAMN12872832 |
| SRA |
SRX6922687 |
