|
| Status |
Public on Nov 21, 2007 |
| Title |
Stomach, RNA batch 1, Digestive tissue, Porcine, 5 Hampshire boars, Healthy, 5 months old |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Stomach, Digestive tissue, Porcine, Healthy
|
| Organism |
Sus scrofa |
| Characteristics |
Breed: Hampshire, Gender: male, Age: 5 months
|
| Biomaterial provider |
na
|
| Treatment protocol |
na
|
| Growth protocol |
na
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total-RNA extractions using RNeasy Maxi Kit from Qiagen
|
| Label |
Alexa-594
|
| Label protocol |
20 micrograms total RNA labeled with Alexa 594 usimicrograms total RNA SuperScript Indirect cDNA labelimicrograms total RNA System from Invitrmicrograms total RNAen
|
| |
|
| Channel 2 |
| Source name |
Reference, Reference tissue, Porcine, Healthy
|
| Organism |
Sus scrofa |
| Characteristics |
Breed: Hampshire, Gender: male, Age: 5 months, Reference: pooled labeled RNA extracts from all tissue samples
|
| Biomaterial provider |
na
|
| Treatment protocol |
na
|
| Growth protocol |
na
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total-RNA extractions using RNeasy Maxi Kit from Qiagen
|
| Label |
Alexa-488
|
| Label protocol |
20 micrograms total RNA labeled with Alexa 594 usimicrograms total RNA SuperScript Indirect cDNA labelimicrograms total RNA System from Invitrmicrograms total RNAen
|
| |
|
| |
| Hybridization protocol |
Two labeled RNA extract batches, corresponding to two independent RNA extractions, were hybridized to cDNA microarrays in two rounds on a Discovery XT hybridization station from Ventana.
|
| Scan protocol |
Scanned and converted into TIFF images using Scanner and ScanArray Express from Perkin Elmer
|
| Description |
The porcine tissue samples were prepared from five healthy Hampshire boars at age four to six months. All five boars were represented in each tissue sample in order to minimize any effect of genetic variation on the expression profiles.
|
| Data processing |
Spot identification and spot intensity quantification was done using GenePix Pro version 6.0. The print tip loess method of the limma Bioconductor package was used for normalizing the expression log-ratios.
|
| |
|
| Submission date |
May 24, 2006 |
| Last update date |
Nov 13, 2007 |
| Contact name |
Henrik Hornshøj |
| E-mail(s) |
hhj@ki.au.dk
|
| Organization name |
Aarhus University
|
| Department |
Department of Molecular Medicine
|
| Street address |
Brendstrupgårdsvej 100
|
| City |
Aarhus |
| ZIP/Postal code |
DK-8200 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL3608 |
| Series (1) |
| GSE4918 |
Microarray gene expression profiling of 27k cDNAs in 23 healthy porcine tissues |
|
