|
| Status |
Public on Mar 13, 2008 |
| Title |
T31 Cell Line 64 Replica 2 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Total RNA from Radiation Hybrid Panel T31, cell line 64 labeled with cy5
|
| Organisms |
Cricetulus griseus; Mus musculus |
| Characteristics |
Fragments of mouse strain 129aa fused with hamster cell line A23
|
| Growth protocol |
RH and A23 cells were cultured in DMEM + 10% FBS + 1x Pen-strep, plated in T75 flasks until 75% confluent. Harvested by trypsinization, then pelleting.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA isolation was done with Qiagen RNeasy Mini Kit per protocol recommended by the manufacturer.
|
| Label |
cy5
|
| Label protocol |
20 ug of total RNA was labeled using the Agilent Fluorescent Direct Labeling Protocol
|
| |
|
| Channel 2 |
| Source name |
Total RNA from cell line A23 labeled with cy3
|
| Organism |
Cricetulus griseus |
| Characteristics |
hamster fibroblast cell line
|
| Growth protocol |
RH and A23 cells were cultured in DMEM + 10% FBS + 1x Pen-strep, plated in T75 flasks until 75% confluent. Harvested by trypsinization, then pelleting.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA isolation was done with Qiagen RNeasy Mini Kit per protocol recommended by the manufacturer.
|
| Label |
cy3
|
| Label protocol |
20 ug of total RNA was labeled using the Agilent Fluorescent Direct Labeling Protocol
|
| |
|
| |
| Hybridization protocol |
Standard Agilent Hybridization protocols for expression microarrays were followed, 17 hour hybridization time
|
| Scan protocol |
Arrays were scanned on an Agilent carousel scanner following maufacturer's instructions. Agilent Feature Extractor software was used to extract the data.
|
| Description |
Biological Replica 2 (dye swap), log10 ratios are cy5/cy3
|
| Data processing |
The expression data was normalized using GeneSpring (Agilent Technologies). Each value was divided by the control channel and each chip normalized to the 50th percentile for the measurements taken from that chip.
|
| |
|
| Submission date |
Sep 13, 2007 |
| Last update date |
Aug 14, 2011 |
| Contact name |
Christopher Park |
| Phone |
310-948-7917
|
| Organization name |
UCLA
|
| Department |
Molecular and Medical Pharmacology
|
| Lab |
Desmond Smith
|
| Street address |
23-151 CHS, 650 Charles E. Young Drive
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platform ID |
GPL891 |
| Series (2) |
| GSE9033 |
Fine mapping of regulatory loci for mammalian gene expression using radiation hybrids Ia |
| GSE9052 |
Fine mapping of regulatory loci for mammalian gene expression using radiation hybrids |
|
