|
| Status |
Public on Feb 06, 2018 |
| Title |
MCF7-H small RNA-seq |
| Sample type |
SRA |
| |
|
| Source name |
hypoxic MCF7 breast cancer cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MCF7
cell type: epithelial
|
| Treatment protocol |
1% hypoxia treatment for 18 hrs
|
| Growth protocol |
culture in DMEM medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol based RNA extraction method
Small RNA libraries were constructed using the NEBNext Small RNA Library prep kit.
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
mapping with Bowtie
read counting with Homer
Genome_build: hg19
Supplementary_files_format_and_content: raw count CSV
|
| |
|
| Submission date |
Mar 31, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Max Chang |
| E-mail(s) |
mchang@ucsd.edu
|
| Organization name |
University of California, San Diego
|
| Street address |
9500 Gilman Drive
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (2) |
| GSE79787 |
small RNA sequencing for identifying hypoxic responsive miRNAs |
| GSE79789 |
miR25/93 mediates the hypoxia-induced immunosuppression by repression of cGAS |
|
| Relations |
| BioSample |
SAMN04594909 |
| SRA |
SRX1671939 |
