|
Status |
Public on May 08, 2008 |
Title |
US-1078955 vs. Human Liver 63 |
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 |
|