|
| Status |
Public on Jun 22, 2021 |
| Title |
PCLS, high dose (D4-HD) |
| Sample type |
RNA |
| |
|
| Source name |
precision cut lung slices (PCLS)
|
| Organism |
Homo sapiens |
| Characteristics |
donor id: D4-HD
gender: Male
age: 65
tissue: lung
treatment: PCLS treated with high dose of methyl acrylate
|
| Treatment protocol |
PCLS samples were exposed to low, medium, and high dose of a substance that underwent risk assessment analysis. Treatment was undertaken on three consecutive days for 1 hour each day. In between exposures, the substance was removed and the PCLS were post-incubated in the medium for 23 h.
|
| Growth protocol |
N/A
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA including miRNA was isolated using a modified protocol described by Niehof et al. 2017 [BMC Res Notes 10:121]. The protocol is based on a separation of lysis and precipitation steps, and a clean-up procedure with a MagMaxTM miRVana magnetic beads.
|
| Label |
biotin
|
| Label protocol |
Total RNA (100 ng) was labeled with biotin using the flashtag HSR RNA labeling kit (ThermoFisher Scientific).
|
| |
|
| Hybridization protocol |
Labeled RNA was hybridized to GeneChip Array 4.0 for 18 h at 48°C. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000 7G.
|
| Description |
miRNA data from PCLS treated with high dose
|
| Data processing |
The data were analyzed with Transcriptome Analysis Console (TAC 4.0), using Affymetrix default settings and RMA normalization (using Summarization Method: RMA+DABG (All organisms i.e. human, mouse, rat)).
|
| |
|
| Submission date |
Feb 26, 2021 |
| Last update date |
Jun 22, 2021 |
| Contact name |
Stella Marie Reamon-Buettner |
| E-mail(s) |
stella.reamon-buettner@item.fraunhofer.de
|
| Phone |
+49 511 5350 527
|
| Organization name |
Fraunhofer-ITEM
|
| Department |
Preclinical Pharmacology & In Vitro Toxicology
|
| Street address |
Nikolai-Fuchs Strasse1
|
| City |
Hannover |
| ZIP/Postal code |
30625 |
| Country |
Germany |
| |
|
| Platform ID |
GPL21572 |
| Series (1) |
| GSE167705 |
miRNA profiling in human precision-cut lung slices (PCLS) |
|
