|
| Status |
Public on Mar 31, 2009 |
| Title |
Time 2, Experimental Replicate 1 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
TEx1 (Time 2)
|
| Organism |
Hippoglossus hippoglossus |
| Characteristics |
distal intestine
Day 10 of diet
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Triazole according to the manufacturers protocol
|
| Label |
Cy5
|
| Label protocol |
RNA (1 ug) from control RNA reference and experimental samples was reverse transcribed and labeled using the 3DNA Genisphere Array 900 expression array detection kit (Genisphere Inc,Hatfield PA, USA) with Alexa fluorophores according to manufacturers instructions.
|
| |
|
| Channel 2 |
| Source name |
Univ RNA CEx
|
| Organism |
Hippoglossus hippoglossus |
| Characteristics |
distal intestine
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Triazole according to the manufacturers protocol
|
| Label |
Cy3
|
| Label protocol |
RNA (1 ug) from control RNA reference and experimental samples was reverse transcribed and labeled using the 3DNA Genisphere Array 900 expression array detection kit (Genisphere Inc,Hatfield PA, USA) with Alexa fluorophores according to manufacturers instructions.
|
| |
|
| |
| Hybridization protocol |
Hybridization was completed using the 3DNA kit from Genisphere, (60 uL) was carefully applied to one corner of the Lifter Slip on the slide and immediately placed in the hybridization chamber (Die Tech, San Jose, CA, USA) for ON hyb. The hybridization process is 2 step where the initial hyb is cDNA only, and the second hyb is to couple the fluorophore. After hybridization slides were washed.
|
| Scan protocol |
Scanned on Perkin Elmer ScanArray 5000XL, ScanArray Express software v3.0.1
|
| Description |
All experimental samples run against universal RNA (cDNA prepared from 1 ug of a pooled universal RNA consisting of equal amounts of RNA from five developmental stages from hatching until post-metamorphosis).
|
| Data processing |
Limma LOWESS normalized, background subtracted data obtained from log2 of processed Experimental signal/processed Reference signal. Arraypipe software was used.
|
| |
|
| Submission date |
Oct 02, 2008 |
| Last update date |
Dec 27, 2008 |
| Contact name |
Jason Williams |
| E-mail(s) |
jason.williams@nrc-cnrc.gc.ca
|
| Phone |
(902)426-5903
|
| Fax |
(902)426-9413
|
| Organization name |
National Research Council
|
| Department |
Institute for Marine Biosciences
|
| Lab |
Microarray
|
| Street address |
1411 Oxford Street
|
| City |
Halifax |
| State/province |
Nova Scotia |
| ZIP/Postal code |
B3H 3Z1 |
| Country |
Canada |
| |
|
| Platform ID |
GPL6361 |
| Series (1) |
|
