|
| Status |
Public on Dec 08, 2009 |
| Title |
Stratagene Universal Human Reference vs. GM16210, 251209752925 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Stratagene Universal Human Reference
|
| Organism |
Homo sapiens |
| Characteristics |
Universal Human Reference total RNA from 10 human cell lines
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Purchased Reference RNA
|
| Label |
Cy3
|
| Label protocol |
Starting with 500ng of total RNA, Cy3 labeled cRNA was produced according to manufacturer’s protocol.
|
| |
|
| Channel 2 |
| Source name |
GM16210
|
| Organism |
Homo sapiens |
| Characteristics |
Lymphoblastoid cell line derived from 39 yo patient with Friedreich's ataxia; GAA = 580-580
|
| Biomaterial provider |
Coriell Cell Repositories http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM16210
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was prepared from total blood using QIAGEN Rneasy midi kit
|
| Label |
Cy5
|
| Label protocol |
Starting with 500ng of total RNA, Cy5 labeled cRNA was produced according to manufacturer’s protocol.
|
| |
|
| |
| Hybridization protocol |
750ng each of Cy3 and Cy5 labeled cRNAs were fragmented and then hybridized for 17 hours in a rotating hybridization oven.
|
| Scan protocol |
Chips were washed and then scanned with an Agilent Scanner.
|
| Description |
This study analyzes gene expression changes associated with a reduction of frataxin from peripheral blood of 28 children and 14 adults with Friedreich's ataxia compared to controls, as well as lymphoblastoid cell lines from patients.
|
| Data processing |
The data were obtained with the Agilent Feature Extraction software (v9.1), using defaults for all parameters. The Feature Extraction Software performs error modeling before data are loaded into a database system. Images and GEML files, including error and P values, were exported from the Agilent Feature Extraction software and deposited into Rosetta Resolver (version 5.0, build 5.0.0.2.48) (Rosetta Biosoftware, Kirkland, WA). The ratios (Cy5/Cy3) were generated.
|
| |
|
| Submission date |
Apr 17, 2008 |
| Last update date |
Dec 24, 2009 |
| Contact name |
NIEHS Microarray Core |
| E-mail(s) |
microarray@niehs.nih.gov, liuliw@niehs.nih.gov
|
| Organization name |
NIEHS
|
| Department |
DIR
|
| Lab |
Microarray Core
|
| Street address |
111 T.W. Alexander Drive
|
| City |
RTP |
| State/province |
NC |
| ZIP/Postal code |
27709 |
| Country |
USA |
| |
|
| Platform ID |
GPL887 |
| Series (1) |
| GSE11204 |
Altered gene expression and DNA damage in peripheral blood cells from Friedreich's ataxia patients |
|
