|
| Status |
Public on Jul 10, 2023 |
| Title |
DMSO treated HSC3 cells, biological replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
DMSO treated HSC3 cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HSC3
treatment: DMSO
|
| Treatment protocol |
After 12–24 h (i.e., ~ 50% confluency), the cells were treated with either 0.1% dimethyl sulfoxide (DMSO) or 0.1 μM E7386 in DMSO.
|
| Growth protocol |
Three separate wells (triplicate) in 6 well plates were seeded by HSC3 cells (at 5 × 104/well).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
After 48–64 h, the cells were trypsinized and harvested for RNA purification using the miRNeasy Micro Kit.
|
| Label |
biotin
|
| Label protocol |
Biotin labeling using the Ambion WT Expression Kit, followed by the GeneChip WT Terminal Labeling and Controls Kit.
|
| |
|
| Hybridization protocol |
Hybridized to Affymetrix Human Gene 2.0 ST Array for 18 hours in a GeneChip Hybridization oven 640 at 45C with rotation (60 rpm). The hybridized samples were washed and stained using an Affymetrix fluidics station 450.
|
| Scan protocol |
Affymetrix GeneArray Scanner 3000 7G Plus
|
| Description |
Gene expression data from HSC3 cells treated with DMSO
|
| Data processing |
Raw expression values were normalized together using the Robust Multiarray Average (RMA) with the affy (v1.36.1) R package. A BrainArray Chip Definition File (v17.0.0) was used to map the probes on the array to unique Entrez Gene identifiers (http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF).
|
| |
|
| Submission date |
Dec 07, 2021 |
| Last update date |
Jul 10, 2023 |
| Contact name |
Eric R Reed |
| E-mail(s) |
eric.reed@tufts.edu
|
| Organization name |
Tufts University
|
| Department |
Data Intensive Studies Center
|
| Street address |
419 Boston Ave.
|
| City |
Medford |
| State/province |
MA |
| ZIP/Postal code |
02155 |
| Country |
USA |
| |
|
| Platform ID |
GPL17930 |
| Series (1) |
| GSE190377 |
Microarray expression data of E7386-treated HSC3 cells |
|
