|
| Status |
Public on Mar 31, 2013 |
| Title |
NG3557_3-1_HF |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
high fear
|
| Organism |
Gallus gallus |
| Characteristics |
breed: Nagoya
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated by PUREGENE DNA Purification Kit (Gentra Systems, Minneapolis, USA)
|
| Label |
Cy5
|
| Label protocol |
The digested DNA was used as template for a genomic DNA labeling reaction using the Genomic Enzymatic DNA Labeling Kit (Agilent Technologies) according to the manufacturer's protocol.
|
| |
|
| Channel 2 |
| Source name |
Low fear
|
| Organism |
Gallus gallus |
| Characteristics |
breed: Nagoya
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated by PUREGENE DNA Purification Kit (Gentra Systems, Minneapolis, USA)
|
| Label |
Cy3
|
| Label protocol |
The digested DNA was used as template for a genomic DNA labeling reaction using the Genomic Enzymatic DNA Labeling Kit (Agilent Technologies) according to the manufacturer's protocol.
|
| |
|
| |
| Hybridization protocol |
The corresponding Cy3- and Cy5-labeled DNA were combined and hybridized at 65 C for 24 hours to Agilent customized Chicken CGH Microarray 4x180K, using Agilent's recommended hybridization chamber and oven.
|
| Scan protocol |
Fluorescence signals of the hybridized Agilent customized Chicken CGH Microarrays were detected using Agilent's DNA microarray scanner (Agilent Technologies).
|
| Data processing |
The Agilent Feature Extraction Software was used to read out and process the microarray image files. The weighted average of the log ratio values for the replicated probes was given by the Agilent Feature Extraction program. Agilent Genomic Workbench uses an error model that is based on the log ratio error values in the FE files. Aberrant points were identified with log2 ratios > +0.5 (duplication) and with log2 ratios < -0.5 (deletion).
|
| |
|
| Submission date |
Jun 04, 2012 |
| Last update date |
Mar 31, 2013 |
| Contact name |
Hideaki Abe |
| E-mail(s) |
abe@wrc.kyoto-u.ac.jp
|
| Organization name |
Kyoto University
|
| Department |
Wildlife Research Center
|
| Street address |
2-24 Tanaka-Sekiden-cho, Sakyo
|
| City |
Kyoto |
| State/province |
Kyoto |
| ZIP/Postal code |
6068203 |
| Country |
Japan |
| |
|
| Platform ID |
GPL15646 |
| Series (1) |
| GSE38434 |
An innate fear response in domestic chicks: screening for short copy number variations associated with tonic immobility |
|
