|
| Status |
Public on May 01, 2010 |
| Title |
Horn_v_Poll_chip4_dyeswap |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
070717
|
| Organism |
Bos taurus |
| Characteristics |
tissue: Skin
horn type: Poll
gender: Female
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Biopsies (average weight 63 mg) that included epidermis, dermis and dermal connective tissue were obtained from the horn-forming region of the skull. Control samples taken from skull away from horn site.
Total RNA extracted using RiboPure (Applied Biosystems) following manufacturer's instructions
|
| Label |
Cy3
|
| Label protocol |
Amplified and labeled according to Agilent Two-Color Microarray-Based Gene Expression Analysis protocol
|
| |
|
| Channel 2 |
| Source name |
079002
|
| Organism |
Bos taurus |
| Characteristics |
tissue: Skin
horn type: Horn
gender: Female
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Biopsies (average weight 63 mg) that included epidermis, dermis and dermal connective tissue were obtained from the horn-forming region of the skull. Control samples taken from skull away from horn site.
Total RNA extracted using RiboPure (Applied Biosystems) following manufacturer's instructions
|
| Label |
Cy5
|
| Label protocol |
Amplified and labeled according to Agilent Two-Color Microarray-Based Gene Expression Analysis protocol
|
| |
|
| |
| Hybridization protocol |
Hybridized according to Agilent Two-Color Microarray_based Gene Expression Analysis protocol
|
| Scan protocol |
Scanned on an Agilent G2565AA scanner.
|
| Data processing |
Images were quantified using Agilent Feature Extraction software (Version 9.5.1). For each intensity signal we required that the signal to noise ratio s > 1, where s is obtained by dividing the background corrected intensity by the standard deviation of the background pixels. Second, we required that the correlation between the mean and the median signal intensities r > 0.85 where r is obtained by dividing the smaller of the mean or median by the larger. Spots that failed to pass these filtering criteria were assigned a reading of zero. Signals that passed were corrected for background intensity and log2 transformed.
|
| |
|
| Submission date |
Apr 29, 2010 |
| Last update date |
Apr 30, 2010 |
| Contact name |
Sean McWilliam |
| E-mail(s) |
sean.mcwilliam@csiro.au
|
| Organization name |
CSIRO
|
| Department |
Agriculture and Food
|
| Street address |
306 Carmody Road
|
| City |
St Lucia |
| State/province |
Queensland |
| ZIP/Postal code |
4067 |
| Country |
Australia |
| |
|
| Platform ID |
GPL7053 |
| Series (1) |
| GSE21585 |
Transcription profiling of horned and polled and scurs cattle |
|
