|
| Status |
Public on Nov 10, 2014 |
| Title |
ENDO_replicate_3 |
| Sample type |
RNA |
| |
|
| Source name |
endometriosis-affected women
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: choriodecidua
disease state: endometriosis
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from tissues, firstly crushed in Trizol (Life Technologies, Carlsbad, CA), using a Qiagen RNeasy Kit (Qiagen, Valencia, CA) according to the manufacturer's instructions.
|
| Label |
Cy3
|
| Label protocol |
Cyanine-3 (Cy3) labeled cDNA was prepared from 50 ng of Total RNA using Ovation PicoSl WTA (Nugen) and NimbleGen Dual-Color DNA Labeling Kit according to the manufacturer's instructions
|
| |
|
| Hybridization protocol |
4 ug of Cy3-labelled cDNA was fragmented at 95°C for 5 minutes in a reaction volume of 12 µl containing one of twelve specifics samples tracking controls. Only 6 µl was used for hybridization on 12*135K Nimblegen array into Nimblegen hybridization station for 17 hours at 42°C. After hybridization, microarrays were manually washed according to manufacturer instruction then dried immediately by brief centrifugation.
|
| Scan protocol |
Slides were scanned immediately after washing on the MS200 scanner (Roche) using scan resolution of 2um.
|
| Description |
maternal-fetal interface during pregnancy
|
| Data processing |
The scanned images were analyzed with DEVA Software (Roche) using 100718_HG18_opt_expr.ngd, 100718_HG18_opt_expr_HX12.ncd and 100718_HG18_opt_expr files. After bursting scanning image, we controled integrity of sample tracking control and generated pair files. We used RMA for normalization.
|
| |
|
| Submission date |
May 16, 2014 |
| Last update date |
Nov 10, 2014 |
| Contact name |
Céline Méhats |
| E-mail(s) |
celine.mehats@inserm.fr
|
| Organization name |
Inserm
|
| Department |
U1016
|
| Street address |
24 rue du Faubourg St jacques
|
| City |
Paris |
| ZIP/Postal code |
75014 |
| Country |
France |
| |
|
| Platform ID |
GPL17425 |
| Series (2) |
| GSE57733 |
Profile of differential expression and DNA methylation status in choriodecidua of women affected with severe endometriosis [Gene Expression] |
| GSE57832 |
Expression and methylation profiles of choriodecidua from pregnant women affected with deep endometriosis |
|
