|
| Status |
Public on May 08, 2008 |
| Title |
US-1078955 vs. 34953 (S97-8910)# 265 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Liver
|
| Organism |
Homo sapiens |
| Characteristics |
US-1078955
|
| Treatment protocol |
No treatment
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol Lysis + RNeasy Column
|
| Label |
Cy3
|
| Label protocol |
One round of RT-IVT to cRNA
|
| |
|
| Channel 2 |
| Source name |
Liver
|
| Organism |
Homo sapiens |
| Characteristics |
pool
|
| Treatment protocol |
No treatment
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol Lysis + RNeasy Column
|
| Label |
Cy5
|
| Label protocol |
One round of RT-IVT to cRNA
|
| |
|
| |
| Hybridization protocol |
Labeled cRNAs were fragmented to an average size of approximately 50 to 100 nucleotides in the presence of 10 mM zinc chloride and adding a hybridization buffer containing 1 M sodium chloride, 0.5 percent sodium sarcosine, 50 mM morpholino-ethane sulfonic acid (pH 6.5), and formamide (final concentration, 30 percent at 40°C); After hybridization, the slides were washed
|
| Scan protocol |
slides were scanned using a confocal laser scanner (Agilent Technologies, Palo Alto, CA). Fluorescence intensities of the scanned images were quantified, normalized, and balanced
|
| Description |
Liver samples (1-2 g) were acquired from Caucasian individuals from three independent liver collections at tissue resource centers at Vanderbilt University, University of Pittsburg, and Merck Research Laboratories. All individuals were compared to a common pool created from equal portions of RNA from 191 (111 from Vanderbilt University and 80 from University of Pittsburg) samples.
|
| Data processing |
Rosetta Resolver Ratio Experiment using Rosetta Resolver Agilent Error Model
|
| |
|
| Submission date |
Nov 12, 2007 |
| Last update date |
May 08, 2008 |
| Contact name |
eric e schadt |
| E-mail(s) |
eric_schadt@merck.com
|
| Organization name |
Merck
|
| Department |
Genetics
|
| Street address |
401 Terry Ave N
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL4372 |
| Series (1) |
| GSE9588 |
Mapping the Genetic Architecture of Gene Expression in Human Liver |
|
