|
| Status |
Public on Jan 07, 2014 |
| Title |
HUVECs Lonza batch A |
| Sample type |
RNA |
| |
|
| Source name |
Normal -(HUVEC) Human Umbilical Vein Endothelial Cells (batch A: AE)
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: HUVEC
phenotype: normal
medium: EGM2 medium (Lonza)
batch: A
|
| Treatment protocol |
cells were flash frozen and stored at -80°C until RNA extraction
|
| Growth protocol |
HUVEC cells were cultured at 37°C, 5% CO2 and 95% humidity in EGM2 medium (Lonza) until they reached a confluency of maximal 80%.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the RNeasy Mini kit (Qiagen Inc., Valencia, CA, USA) . DNA was removed by on-column DNase digestion with the RNase-Free DNase set (Qiagen). RNA quality and concentration was determined by analysis with an Agilent 2100 bioanalyzer (Agilent Technologies Inc., Santa Clara, CA, USA).
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed using 5 ug of total RNA input following the standard operating protocol of NimbleGen Systems Inc., Madison, WI USA. See www.nimblegen.com.
|
| |
|
| Hybridization protocol |
Hybridization was performed following the standard operating protocol of NimbleGen Systems Inc., Madison, WI USA. See www.nimblegen.com.
|
| Scan protocol |
Scanning was performed following the standard operating protocol of NimbleGen Systems Inc., Madison, WI USA. See www.nimblegen.com.
|
| Description |
This sample is of HUVEC. It is the first of three wild-type biological replicates used in this experiment, each from separate cultures.
SAMPLE 1
|
| Data processing |
The raw data (.pair file) was subjected to background correction, quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249) as implemented in the NimbleScan software package, version 2.6 (Roche NimbleGen, Inc.).
|
| |
|
| Submission date |
Nov 04, 2013 |
| Last update date |
Jan 07, 2014 |
| Contact name |
Tobias Heckel |
| E-mail(s) |
tobias-heckel@t-online.de
|
| Organization name |
Roche
|
| Department |
pRED
|
| Lab |
Safety Genetics & Genomics
|
| Street address |
Grenzacherstr. 124
|
| City |
Basel |
| ZIP/Postal code |
CH-4070 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL16025 |
| Series (1) |
| GSE52044 |
Expression profiling in Human Umbilical Vein Endothelial Cells (HUVEC) |
|
