|
| Status |
Public on Oct 31, 2016 |
| Title |
LD_3 |
| Sample type |
RNA |
| |
|
| Source name |
Low density fractions of a sucrose gradient of extracellular RNA released by HMC-1 cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HMC-1
cell type: human mast cell line
molecule subtype: Extracellular RNA
fraction: Low density fractions of a sucrose gradient of extracellular RNA
|
| Growth protocol |
Cells were cultured in a 37°C humidified incubator with 5% CO2
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with the miRCURY™ RNA Isolation Kit - Cell and Plant (Exiqon A/S, Vedbaek, Denmark) according to the manufacturer's protocol (with 1% 2-mercaptoethanol in the lysis buffer).
|
| Label |
Cy5
|
| Label protocol |
cDNA and Amino Allyl aRNA was synthesis by Amino Allyl MessageAmp II aRNA Amplification Kit (Cat No. AM1753, Life Technologies). CyeDye Coupling and fragmentation were performed as the protocol supplied by TORAY Industries, Inc..
|
| |
|
| Hybridization protocol |
Hybridized for 16 h at 37 C with rotary shake (250 rpm). Hybridization buffer and washing protocol was followed by the protocol supplied by TORAY Industries, Inc..
|
| Scan protocol |
3D-Gene Scanner ((Toray Industries Inc., Tokyo, Japan) was used for scanning. with auto gain, auto focus and auto analysis settings on 6 samples. For 4 of the samples focus had to be set to zero.
|
| Description |
Sample 10 - LD 3
|
| Data processing |
RNA expression in each dataset was normalized by quantile normalization 50 with MATLAB (version 2010a). Fold changes (log2-ratio) were also calculated by MATLAB (version 2010a).
|
| |
|
| Submission date |
Oct 14, 2016 |
| Last update date |
Oct 31, 2016 |
| Contact name |
Cecilia Lässer |
| Organization name |
University of Gothenburg
|
| Department |
Krefting Research Centre
|
| Street address |
Box 424
|
| City |
Göteborg |
| ZIP/Postal code |
405 30 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL13915 |
| Series (2) |
| GSE88753 |
Two distinct extracellular RNA signatures released by a single cell type identified by microarray and next-generation sequencing [total RNA] |
| GSE88755 |
Two distinct extracellular RNA signatures released by a single cell type identified by microarray and next-generation sequencing |
|
