|
| Status |
Public on Jun 24, 2009 |
| Title |
1 week old knock-out sample #1(251279910040) |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
FOXL2 knock-out ovary: 1 week old knock-out
|
| Organism |
Mus musculus |
| Characteristics |
Whole organ
Strain: NIHS-BC
Gender: female
Age: birth
Development stage: 7 days postnatum
Genetic modification: gene knock out
Individual Identifier: FON line 251279910040
|
| Treatment protocol |
Foxl2-/-
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNEasy protocol
|
| Label |
Cy3
|
| Label protocol |
Total RNA was labeled using Agilents Fluorescent Linear Amplification kit, according to manufacturers instructions (Product Number G2554A or P/N G2556-66002, Version 3.0, June 2002).
|
| |
|
| Channel 2 |
| Source name |
Universal Mouse Reference RNA
|
| Organism |
Mus musculus |
| Characteristics |
Universale Mouse Reference
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from cultured cells using a Stratagene Absolutely RNA kit. DNase-treated total RNA samples from 11 cultured cell lines derived from embryo, embryo fibroblast, kidney, liver/hepatocyte, lung/alveolar macrophage, B-lymphocyte, T-lymphocyte (thymus), mammary gland, muscle myoblast, skin, and testis were pooled in equal parts
|
| Label |
Cy5
|
| Label protocol |
Total RNA was labeled using Agilents Fluorescent Linear Amplification kit, according to manufacturers instructions (Product Number G2554A or P/N G2556-66002, Version 3.0, June 2002).
|
| |
|
| |
| Hybridization protocol |
Agilent 60-mer oligo microarray processing protocol (SSC Wash/SureHyb Chamber set-up) V4.1, April 2004. Agilent Publication Number: G4140-90030 V4.1 APRIL 2004.
|
| Scan protocol |
Slides were scanned with an Agilent DNA Microarray Scanner model G2505-64120 at 100% PMT in both channels, with a scan resolution of 10um. A scan window of 61 x 21.6 mm was used, then images were cropped to size and saved in a modified two-color TIFF format. Images were examined visually for evidence of foreign debris or major failures. Agilent Microarray Scanner User Manual (6.3) http://www.chem.agilent.com/scripts/literaturePDF.asp?iWHID=33696
|
| Description |
FOXL2 knock-out ovary: 1 week old knock-out
|
| Data processing |
Data are extracted with Agilent Feature Extraction Software.The data were further processed as follows: After background subtraction from the Agilent analyzer raw output data,calculation of the ratio of the channels was followed by normalization of each sample values against a virtual microarray dataset by local mean regression as implemented by the lowess program on R (span 0.01). The reference virtual dataset contained the average expression values for each probe across all samples.
|
| |
|
| Submission date |
Sep 26, 2008 |
| Last update date |
Jun 24, 2009 |
| Contact name |
Chris Ottolenghi |
| E-mail(s) |
chris.ottolenghi@inserm.fr
|
| Organization name |
Inserm/Univ.Paris Descartes
|
| Street address |
rue des Saint-Peres
|
| City |
Paris |
| ZIP/Postal code |
75006 |
| Country |
France |
| |
|
| Platform ID |
GPL2552 |
| Series (2) |
| GSE12942 |
Foxl2 functions in sex determination and histogenesis throughout mouse ovary development, analyzed by Agilent arrays |
| GSE12989 |
Foxl2 functions throughout mouse ovary development |
|
