|
| Status |
Public on Feb 01, 2008 |
| Title |
Knockdown Cell on HMVEC-L Replicate 1 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Total RNA from LM2 cells labeled with Cyanine-5 (red).
|
| Organism |
Homo sapiens |
| Characteristics |
transfected with pSuper-shMTDH, cultured with HMVEC-L and then purified by FACS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Qiagen RNAeasy mini kit following manufacturer's instructions. In the co-culture condition, LM2 cells were labeled with GFP, and HMVEC-L cells were labeled with SNARF before co-culture. LM2 cells were isolated by FACS 48 hours after co-culture.
|
| Label |
Cy5
|
| Label protocol |
Labeled with Agilent Low RNA Input Amplification kit following manufacturer's instructions.
|
| |
|
| Channel 2 |
| Source name |
Human universal reference RNA labeled with Cyanine-3 (green).
|
| Organism |
Homo sapiens |
| Characteristics |
Purchased from Stratagene, Inc.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Qiagen RNAeasy mini kit following manufacturer's instructions. In the co-culture condition, LM2 cells were labeled with GFP, and HMVEC-L cells were labeled with SNARF before co-culture. LM2 cells were isolated by FACS 48 hours after co-culture.
|
| Label |
Cy3
|
| Label protocol |
Labeled with Agilent Low RNA Input Amplification kit following manufacturer's instructions.
|
| |
|
| |
| Hybridization protocol |
Sample RNA was hybridized on the two color Agilent human 4x4k arrays with reference RNA. Agilent Gene Expression Hybridization kit was used.
|
| Scan protocol |
Scanned on an Agilent G2565BA scanner.
Images were quantified using Agilent Feature Extraction Software (version A.9.5).
|
| Description |
LM2 cancer cells were cultured alone or on top of a monolayer of human lung endothelial HMVEC-L cells
|
| Data processing |
gMedian and rMedian signal were used. Array values were normalized to equal median.
|
| |
|
| Submission date |
Sep 27, 2007 |
| Last update date |
Aug 14, 2011 |
| Contact name |
Yibin Kang |
| E-mail(s) |
ykang@princeton.edu
|
| Phone |
609-258-9120
|
| Organization name |
Princeton University
|
| Department |
Molecular Biology
|
| Street address |
LTL 254, Washington Road
|
| City |
Princeton |
| State/province |
NJ |
| ZIP/Postal code |
08544 |
| Country |
USA |
| |
|
| Platform ID |
GPL4133 |
| Series (1) |
| GSE9187 |
Human breast cancer LM2 cell lines: control vs. MTDH knockdown |
|
