|
| Status |
Public on Jun 11, 2013 |
| Title |
129S1/SvImJ_XY_E11.4_gonad_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
129S1/SvImJ, XY, E11.4 Gonad
|
| Organism |
Mus musculus |
| Characteristics |
strain: 129S1/SvImJ
Sex: XY
Stage: E11.4
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was first extracted from individual pairs of E11.0-E12.0 XX and XY gonads (separated from mesonephroi) with the RNeasy Micro kit with on-column DNase digestion (QIAGEN, cat no. 74004) following the manufacturer’s protocol. Total RNA was eluted in 14 ul RNase-free water (not DEPC- treated), and 2 ul were used to quantify RNA concentration on a NanoDrop ND-2000 (Thermo Scientific). Only samples with > 100 ng of total RNA and an A280:A260 ratio of >1.6 were included in the expression analyses.
|
| Label |
biotin
|
| Label protocol |
From each total RNA sample, mRNA was selectively reverse transcribed with oligo(dT) primers to T7-labelled cDNA, and then amplified by in vitro transcription (IVT) to produce biotinylated cRNA using the Illumina TotalPrep Amplification Kit (Ambion/ Life Technologies, cat no. AMIL1791) according to manufacturer’s instructions.
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
replicate 3
|
| Data processing |
The data were normalised using quantile normalisation with BeadArray,a package in BioConductor, in R [version of R 2.12.0 and beadarray version 2.0.6].
|
| |
|
| Submission date |
Oct 31, 2012 |
| Last update date |
Jun 11, 2013 |
| Contact name |
Anirudh Natarajan |
| Organization name |
Duke University Medical Center
|
| Lab |
Blanche Capel
|
| Street address |
4034 GSRBII Building, Research Drive
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27705 |
| Country |
USA |
| |
|
| Platform ID |
GPL6885 |
| Series (1) |
| GSE41948 |
Fine Time-Course Expression Analysis of Mammalian Sex Determination in 129S1/SvImJ and C57BL/6J XX and XY mice |
|
