|
| Status |
Public on Dec 31, 2023 |
| Title |
bisulfite treated genomic DNA from MDA-MB-231 cells treated twice with paclitaxel [MDA_PAC2_Rep2] |
| Sample type |
genomic |
| |
|
| Source name |
MDA-MB-231 cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MDA-MB-231
cell type: epithelial, human breast cancer cell line
treatment: paclitaxel treated cells
|
| Treatment protocol |
Stock solutions for eribulin (10 mM) were prepared using double distilled water, and paclitaxel was prepared using DMSO, further diluted in the base diluent to the appropriate concentrations. The half-maximal inhibitory concentration (IC50) was determined at different concentrations from 0.5nM to 100nM using a 2-fold dilution series for MDA-MB-231 cells.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
genomic DNA was extracted using QIAamp DNA Kits, Cat #51304, according to standard instructions
|
| Label |
Cy3, Cy5
|
| Label protocol |
standard Illumina Protocol
|
| |
|
| Hybridization protocol |
bisulfite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human MethylationEPIC Beadchip using standard Illumina protocol
|
| Scan protocol |
Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
|
| Data processing |
SeSAMe bioconductor R package
|
| |
|
| Submission date |
Jun 13, 2023 |
| Last update date |
Dec 31, 2023 |
| Contact name |
Min Kyung Lee |
| E-mail(s) |
min.kyung.lee.gr@dartmouth.edu, sarahminkyunglee@gmail.com
|
| Organization name |
Dartmouth College
|
| Street address |
1 Medical Center Dr
|
| City |
Lebanon |
| State/province |
NH |
| ZIP/Postal code |
03756 |
| Country |
USA |
| |
|
| Platform ID |
GPL21145 |
| Series (1) |
| GSE234881 |
Alteration of DNMT1/DNMT3A by eribulin elicits global DNA methylation changes with potential therapeutic implications for triple-negative breast cancer |
|
