|
| Status |
Public on Nov 30, 2005 |
| Title |
MicMa146_Stanford_cDNA |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
MicMa146_Stanford cDNA with Cy5
|
| Organism |
Homo sapiens |
| Characteristics |
early stage, breast carcinoma
|
| Extracted molecule |
total RNA |
| Label |
Cy5
|
| Label protocol |
Amplification was performed based on the Van Gelder and Eberwine method using the MessageAmp amplification kit (Ambion) and labeling of 3 ?g total RNA per sample was carried out as previously described using incorporation of Cy5 for tumor RNA and Cy3 for reference RNA (Stratagene UHR)
|
| |
|
| Channel 2 |
| Source name |
Universal Human Reference (Stratagene) with Cy3
|
| Organism |
Homo sapiens |
| Characteristics |
Universal human reference
|
| Extracted molecule |
total RNA |
| Label |
Cy3
|
| Label protocol |
Amplification was performed based on the Van Gelder and Eberwine method using the MessageAmp amplification kit (Ambion) and labeling of 3 ?g total RNA per sample was carried out as previously described using incorporation of Cy5 for tumor RNA and Cy3 for reference RNA (Stratagene UHR)
|
| |
|
| |
| Hybridization protocol |
cRNA hybridized at 65C overnight
|
| Scan protocol |
the hybridized arrays were scanned on an Agilent DNA microarray scanner and images analyzed by GenePix Pro v 4.1
|
| Description |
biopsy of breast carcinoma
|
| Data processing |
The Limma package (R/Bioconductor, http://www.bioconductor.org) was used to perform within array normalization (Print- tip loess normalization) and between array normalization (Median of absolute deviation normalization).
|
| |
|
| Submission date |
Aug 11, 2005 |
| Last update date |
Sep 01, 2005 |
| Contact name |
Yulei Wang |
| E-mail(s) |
wangyy@appliedbiosystems.com
|
| Organization name |
Applied Biosystems
|
| Street address |
850 Lincoln Centre Dr
|
| City |
Foster City |
| State/province |
CA |
| ZIP/Postal code |
94404 |
| Country |
USA |
| |
|
| Platform ID |
GPL1843 |
| Series (1) |
| GSE3155 |
Gene expression profiling of the 20 human early breast carcinomas by three miaroarray platforms |
|
