|
| Status |
Public on Dec 16, 2016 |
| Title |
PT1 CD36+#4 |
| Sample type |
RNA |
| |
|
| Source name |
PT1 CD36+
|
| Organism |
Homo sapiens |
| Characteristics |
group: PT1
cd36 population: CD36+
conc.ng.ul: 325.88
|
| Growth protocol |
Cells were grown in an orthotopic xenograft model in NOD-SCIDγ mice (NSG)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from FACS sorted cells with RNAClean XP kit– Agentcourt A63987 following the manufacturer’s instructions and immediately amplified using the TransPlex Complete Whole Transcriptome Amplification Kit (Sigma WTA2) to generate the cDNA
|
| Label |
Cy3
|
| Label protocol |
Cyanine-3 (Cy3) labeled cDNA was prepared from 500ng of ds cDNA using the SureTag Complete DNA Labeling kit (Agilent 5190-4240) according to manufacturer’s instructions. Dye incorporation and cDNA yield were checked with the NanoDrop ND-1000 Spectophotometer.
|
| |
|
| Hybridization protocol |
600ng of Cy3 labeled cDNA was directly mix with hybridization buffer and Agilent blocking agent incubated at 95ºC for 3 minutes and immediately transfer on ice. Then, it was hybridized on microarrays for 40h at 65ºC in a rotating Agilent hybridization oven. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent)
|
| Scan protocol |
The intensity data of each individual hybridization were extracted and the quality was assessed with the Feature Extraction software 10.7 (Agilent).
|
| Description |
771 2016
|
| Data processing |
Background correction was applied with normexp method and offset=45. Quantile normalization followed by avereps to average over replicate probes. All functions from the R limma package
|
| |
|
| Submission date |
Jun 13, 2016 |
| Last update date |
Dec 16, 2016 |
| Contact name |
Antoni Berenguer-LLergo |
| E-mail(s) |
aberenguerl@tauli.cat
|
| Organization name |
Parc Taulí Research and Innovation Institute (I3PT)
|
| Department |
A8G2 Group - Rheumatology Service
|
| Street address |
Parc del Taulí, 1
|
| City |
Sabadell |
| State/province |
Barcelona |
| ZIP/Postal code |
08208 |
| Country |
Spain |
| |
|
| Platform ID |
GPL17077 |
| Series (1) |
| GSE83276 |
Targeting metastasis stem cells through the fatty acid receptor CD36 |
|
