|
| Status |
Public on Feb 26, 2015 |
| Title |
miR424_1 |
| Sample type |
SRA |
| |
|
| Source name |
breast cancer cancer cell line, over-expressing miR-424
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MCF12A
cell type: breast cancer cancer cell line
stable expression: miR-424 over-expressed
|
| Growth protocol |
10^5 MCF12A cells stably over-expressing miR-424 or an empty vector (EV) control were grown in triplicate for 48 hours.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted and mRNA isolated using the miRNeasy Kit (Qiagen) according to manufacturer's instructions.
RNA libraries were prepared for sequencing using TruSEQ RNA Sample Prep v2 using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
mRNA
|
| Data processing |
Alignment: TopHat v1.4.1 using default settings. hg19 (UCSC).
Expression levels: Cufflinks v1.3.0 and cuffdiff using default settings.
GSEA anlalysis with GeneSigDB v4.
Genome_build: GRCh37
Supplementary_files_format_and_content: Tab-delimited text file with FPKM values.
|
| |
|
| Submission date |
Jan 29, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Jihye Kim |
| E-mail(s) |
kim.jihey@gmail.com
|
| Phone |
7209755448
|
| Organization name |
Cleveland Clinic
|
| Department |
Quantitative Health Sciences
|
| Street address |
9500 Euclid Ave.
|
| City |
Cleveland |
| State/province |
Ohio |
| ZIP/Postal code |
44195 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE54505 |
TWIST1-induced microRNA-424 drives an intermediate epithelial-to-mesenchymal transition that opposes metastasis |
|
| Relations |
| BioSample |
SAMN02598927 |
| SRA |
SRX451747 |
