|
| Status |
Public on Apr 23, 2019 |
| Title |
Stand. 3999844015_J |
| Sample type |
RNA |
| |
|
| Source name |
skin fibroblasts
|
| Organism |
Homo sapiens |
| Characteristics |
patient: 69/84
viability: deceased
condition: NPC-N
gender: K
|
| Treatment protocol |
Fasting conditions - cells were cultured in medium with lipoprotein deprived serum. LDL+LPDS - cells were cultured in medium with LPDS and then supplemented with LDL source.
|
| Growth protocol |
All cell lines were cultured in DMEM (Thermo Fisher Scientific Inc.) supplemented with 10% fetal bovine serum (FBS) and 1% penicillin/streptomycin solution (Sigma-Aldrich Co. LLC., St. Louis, USA) in a humidified atmosphere containing 5% CO2 at 37°C. Cells were harvested after trypsinization when the culture was confluent, immediately immersed in RNA Later (Qiagen), and stored at -70°C before further procedures.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA samples were isolated from the cultured skin fibroblasts with the use of MagNa Pure Compact RNA Isolation Kit (Roche Applied Science, Mannheim, Germany). Quantity and quality of RNA samples were assessed using the NanoDrop instrument (Thermo Scientific) and evaluated with the RNA 6000 Nano Assay on the Agilent 2100 Bioanalyser (Agilent Technologies Inc., USA).
|
| Label |
Biotin
|
| Label protocol |
Ambion Illumina TotalPrep RNA Amplification Kit, according to manufacturer's instructions
|
| |
|
| Hybridization protocol |
Illumina® Whole-Genome Gene Expression Direct Hybridization Assay, according to manufacturer's instructions
|
| Scan protocol |
HiScan SQ according to manufacturer's instructions
|
| Description |
Stand.
|
| Data processing |
The data was imported into Partek GS from Genoe Studio.
|
| |
|
| Submission date |
Dec 21, 2018 |
| Last update date |
Apr 23, 2019 |
| Contact name |
Agnieszka Lugowska |
| E-mail(s) |
alugipin@yahoo.com
|
| Organization name |
Institute of Psychiatry and Neurology
|
| Department |
Department of Genetics
|
| Street address |
Al. Sobieskiego 9
|
| City |
Warsaw |
| ZIP/Postal code |
02-957 |
| Country |
Poland |
| |
|
| Platform ID |
GPL10904 |
| Series (1) |
| GSE124283 |
Changes in the level of expression of genes involved in the pathogenic mechanisms in rare, inherited metabolic diseases. |
|
