|
| Status |
Public on Jul 03, 2014 |
| Title |
Ce 0.4 mM Se |
| Sample type |
RNA |
| |
|
| Source name |
cultured in 0.4 mM Se axenic media
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
strain: N2 Bristol
development stage: mid L4-larva stage
|
| Treatment protocol |
The low Se (0.000125 mM Se) axenic media was supplemented with 0, 0.05, 0.1, 0.2, or 0.4 mM Se as sodium selenite
|
| Growth protocol |
Synchronous C. elegans N2 Bristol were grown in 10 ml of low Se axenic media to the mid-L4 stage in development
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated with TRIzol Reagent (Invitrogen, Carlsbad, CA) following the manufacturer’s protocol from pelleted cells washed in M9 buffer
|
| Label |
biotin
|
| Label protocol |
RNA wasprocessed and labeled using the Ambion MessageAmp™ Premier RNA Amplification Kit
|
| |
|
| Hybridization protocol |
A 12 ug cocktail was made up for each sample. aRNA Hybridization cocktail prepared according to protocols & procedures in the AFX Expression Analysis Technical Manual with Specific Protocols for Using the GeneChip® Hybridization, Wash, and Stain Kit (P/N 702232 Rev. 3). 10 ug of aRNA applied to AFX C.elegans arrays & hybridized ON at 45°C for 16 hours in AFX 640 Hyb oven
|
| Scan protocol |
C.elegans GeneChips post processed on the AFX 450 Fluidics Station according to all AFX protocols and procedures defined for the C.elegans array (FS450_0004). All GC’s scanned on AFX GC3000 G7 scanner. Data extracted from GC3000 G7 scanned images using the AFX Expression Console v 1.2.0.20 software
|
| Data processing |
Resulting .cel files were analyzed using GeneSpring version 12.0. Raw data was filtered on Expression >100 (100.0 - 32455.01), and then normalized.
|
| |
|
| Submission date |
Jan 13, 2014 |
| Last update date |
Jul 03, 2014 |
| Contact name |
Roger A Sunde |
| E-mail(s) |
sunde@nutrisci.wisc.edu
|
| Phone |
608-262-4044
|
| Organization name |
University of Wisconsin
|
| Department |
Nutritional Sciences
|
| Street address |
1415 Linden Dr
|
| City |
Madison |
| State/province |
WI |
| ZIP/Postal code |
53706-1527 |
| Country |
USA |
| |
|
| Platform ID |
GPL200 |
| Series (1) |
| GSE54011 |
C. Elegans expression: toxic vs. adequate vs. low selenium |
|
