|
| Status |
Public on Jan 01, 2022 |
| Title |
MCF7_PacBio_Sequencing |
| Sample type |
SRA |
| |
|
| Source name |
cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: MCF7
passage: 15-18
|
| Treatment protocol |
No treatment or Transfection
|
| Growth protocol |
Cells were maintained in DMEM (high glucose) (Gibco) supplemented with 10% heat-inactivated fetal bovine serum (FBS) (Hyclone), 100 U/ml penicillin and 100 μg/ml streptomycin (Gibco).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from cell lines using Trizol
Sequencing libraries were prepared using standard protocols. Samll RNA library was constructed by NEBNext® Multiplex Small RNA Library Prep Set according to the manufacturer's’ protocol
PacBio Sequencing or MiSeq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
PacBio RS II |
| |
|
| Description |
wild type cells
|
| Data processing |
PacBio sequencing was processed by the Iso-Seq standard pipeline.
Small RNA sequencing was processed by customized scripts. Reads without the 3′ adaptor sequences or shorter than 18 nt were discarded
Genome_build: GRCH38 or miRBase21
Supplementary_files_format_and_content: BED files or TXT files
|
| |
|
| Submission date |
Jan 06, 2020 |
| Last update date |
Jan 01, 2022 |
| Contact name |
Lisheng Dai |
| E-mail(s) |
[email protected]
|
| Phone |
3018466653
|
| Organization name |
NCI-Frederick
|
| Street address |
1050 Boyles St.
|
| City |
Frederick |
| State/province |
MD |
| ZIP/Postal code |
21702 |
| Country |
USA |
| |
|
| Platform ID |
GPL21311 |
| Series (1) |
| GSE143169 |
Novel, abundant Drosha isoforms are deficient in miRNA processing in cancer cells |
|
| Relations |
| BioSample |
SAMN13739591 |
| SRA |
SRX7505753 |
