|
| Status |
Public on Apr 09, 2023 |
| Title |
A375 Doxycycline 1 |
| Sample type |
RNA |
| |
|
| Source name |
A375 doxycycline biological replica 1
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: A375
cell type: skin melanoma
|
| Treatment protocol |
Cells were plated in the presence or not of Docycycline (2 µg/ml) for 4 days
|
| Growth protocol |
Cells were grown at 37ºC, 5% CO2 in RPMI1640 supplemented with glutamine and 10% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA were extracted using TRIzol following manufacturer's procedures. Total RNA was quantified using a NanoDrop Spectrophotometer ND-1000 (NanoDrop Technologies, Inc.) and its integrity was assessed using a 2100 Bioanalyzer (Agilent Technologies).
|
| Label |
Biotin
|
| Label protocol |
Labeling of samples was carried out according to the manufacturer’s standard protocol
|
| |
|
| Hybridization protocol |
Total RNA was linearly amplified using WT Plus (Affymetrix). The resulting ssDNA was used to hybridize Affimetrix microarrays. Hybridization data was acquired using the Affimetrix GeneChip/GeneTitan platforms. Transcriptomes were determined on a genome wide Clariom S Human HT (Affimetrix).
|
| Scan protocol |
Arrays were scanned on a Affymetrix GeneTitan instrument (ThermoFisher Scientific-Affymetrix) according to the manufacturer’s protocol.
|
| Description |
Clariom S, human HT
|
| Data processing |
Affymetrix CEL files were normalized by RMA preprocessing methodology and analyzed using Bioconductor followed by GSEA 4.10 software from Broad Institute. Due to experimental protocol, the samples were ran in batches, indicated in the cel file name. ComBat was used to batch correct.
|
| |
|
| Submission date |
Mar 21, 2023 |
| Last update date |
Apr 09, 2023 |
| Contact name |
Mariano F Zacarias-Fluck |
| E-mail(s) |
mzacarias@vhio.net
|
| Organization name |
Vall d'Hebron Institute of Oncology (VHIO)
|
| Department |
Preclinical and Translational Research Program
|
| Lab |
Mouse Models of Cancer Therapy
|
| Street address |
Natzaret, 115-117
|
| City |
Barcelona |
| ZIP/Postal code |
08035 |
| Country |
Spain |
| |
|
| Platform ID |
GPL24324 |
| Series (1) |
| GSE227840 |
Effect of Omomyc on the in vitro growth of A375 human melanoma cell line |
|
