|
| Status |
Public on Jun 27, 2006 |
| Title |
cRNA different samples hybridization 3 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
3T3 fibroblast cell line
|
| Organism |
Mus musculus |
| Characteristics |
in vitro amplified cRNA, replica2
|
| Extracted molecule |
total RNA |
| Label |
Cy3
|
| Label protocol |
Indirect labeling during in vitro amplification
|
| |
|
| Channel 2 |
| Source name |
ovary ephithelium cell line
|
| Organism |
Mus musculus |
| Characteristics |
in vitro amplified cRNA, replica2
|
| Extracted molecule |
total RNA |
| Label |
Cy5
|
| Label protocol |
Indirect labeling during in vitro amplification
|
| |
|
| |
| Hybridization protocol |
See Livesey, F. J., Furukawa, T., Steffen, M. A., Church, G. M. and Cepko, C. L. (2000). Microarray analysis of the transcriptional network controlled by the photoreceptor homeobox gene Crx. Curr Biol 10, 301-10
|
| Scan protocol |
Hybridised microarrays were scanned on a GenePix 4000B microarray scanner and the resulting images were analysed with GenePix 5 array analysis software
|
| Description |
RNA was extracted by the Invitrogen Trizol Protocol, Ref: Chomczynski, P. and Sacchi, N. (1987) Analytical Biochemistry 162, 156. 10 ug of total RNA from both cell lines was amplified in 3 rounds of T7-based amplification (MessageAmpII aRNA Kit, Ambion) in two parallel reactions. cRNA from 3T3 cells was indirectly labeled with Cy3, cRNA from ovary epithelium cell line (OV) was indirectrly labeled with Cy5 followed by co-hybridisation on the slide
|
| Data processing |
Limma packadge: log-ratio were lowess normalized, filtered to exclude spots flagged as bad and backgroud corrected.
|
| |
|
| Submission date |
Jan 17, 2006 |
| Last update date |
Jun 27, 2006 |
| Contact name |
Tatiana Subkhankulova |
| E-mail(s) |
subkhankul@hotmail.com
|
| Phone |
02075941825
|
| Organization name |
Queen Mary University London
|
| Department |
Neuroscience
|
| Lab |
Silvia Marino
|
| Street address |
4 Newark Street
|
| City |
London |
| ZIP/Postal code |
E1 2AD |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL2584 |
| Series (1) |
| GSE5136 |
Comparison of linear and exponential amplification techniques for expression profiling at the single-cell level |
|
