|
| Status |
Public on Jun 30, 2016 |
| Title |
MDA-MB-231-sp-26a rep |
| Sample type |
SRA |
| |
|
| Source name |
MDA-MB-231_sponge-miR-26a
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MDA-MB-231
cell type: mesenchymal-like breast cancer cells
genotype/variation: reduced miR-26a activity
stably transfected with: miR-26a with specific sponge vector
|
| Treatment protocol |
MCF-7 cell lines were transiently transfected with either miR-23b or miR-26a mimic using hiperfect transfection reagent (Qiagen).
|
| Growth protocol |
Cell lines were maintained in DMEM supplemented with 10% FCS, 1% penicillin/streptomycin, and 2% glutamine
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA has been extracted using TRIzol (invitrigen). Libraries were prepared using the True-seq RNA preparation kit (Illumina) following the manufacturer instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Basecalls performed using CASAVA version 1.4
Sequence reads were mapped to the hg19 genome assembly using Partek flow (Partek incorporated)
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using Partek Genomic Suite (Partek Incorporated)
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample
|
| |
|
| Submission date |
Jan 24, 2013 |
| Last update date |
Feb 21, 2023 |
| Contact name |
Leandro Castellano |
| E-mail(s) |
l.castellano@sussex.ac.uk
|
| Organization name |
University of Sussex
|
| Street address |
Falmer, JMS Building
|
| City |
Brighton |
| ZIP/Postal code |
BN1 9QG |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE43726 |
RNA-sequencing (RNA-seq) in breast cancer cell lines after ectopic manipulation of miR-26a expression |
|
| Relations |
| SRA |
SRX219949 |
| BioSample |
SAMN01902556 |
