|
| Status |
Public on Jun 02, 2014 |
| Title |
Inter-implantation decidua sample mice 3 |
| Sample type |
RNA |
| |
|
| Source name |
Day 6.5 post-coitum murine uterus
|
| Organism |
Mus musculus |
| Characteristics |
strain: B6CBA F1/J
tissue: inter-implantation decidua
|
| Extracted molecule |
total RNA |
| Extraction protocol |
To ensure that total RNA was recovered we performed RNA extraction using the Arcturus PicoPure RNA Isolation Kit (Life Technologies S.A. Madrid, Spain). RNA extracted was quantified using a NanoDrop (Thermo Fisher Scientific Inc, MA, USA) spectrophotometer and the RNA quality was evaluated using the total eukariote Pico RNA LabChip in the BioAnalyzer 2100, (Agilent Technologies Inc, DE, USA)
|
| Label |
Cy3-CTP
|
| Label protocol |
Total RNA was obtained from uterine and trophoblast tissues and analyzed as previously described [17]. Briefly, total RNA was extracted using Trizol reagent (Life Technologies, Paisley, UK) and treated with DNase I (Promega, Southampton, UK) for 30 min at 37°C and then reextracted with Trizol. RNA quality was assessed with an A2100 bioanalyzer (Agilent Technologies, Santa Clara, CA). Only those samples with a RNA integrity number (RIN)7.5 were included for microarray analysis. One microgram of each RNA sample were labeled and hybridized to the One-Color Agilent Whole Mouse Genome Microarray 44K. For each group, 3 samples were analyzed in duplicate.
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| |
|
| Hybridization protocol |
1.65 ug of cRNA was used to be fragmented in presence of blocking agent and fragmentation buffer for 30º at 60ºC and cooled. Then sample was mixed with hybridization buffer.
|
| Scan protocol |
Microarrays slides were washed and scanned in Genepix Personal 4100A Scanner and scanned in Genepix Pro Software with a spot resolution of 5um in the green channel.
|
| Description |
each sample was previous tested for total RNA quality using total pico RNA Labchip in an agilent bioanalyzer and with RIN above 9.0
|
| Data processing |
Median intensity value of each spot data was log2 transformed and normalized using R software and libraries from bioconductor database. Next, replicated probes were merged by mean using GEPAS.
|
| |
|
| Submission date |
May 08, 2013 |
| Last update date |
Jun 02, 2014 |
| Contact name |
Juan M Moreno-Moya |
| E-mail(s) |
jmmormoy@gmail.com
|
| Organization name |
FIVI
|
| Street address |
Catedrático Agustín Escardino
|
| City |
Valencia |
| ZIP/Postal code |
46980 |
| Country |
Spain |
| |
|
| Platform ID |
GPL10333 |
| Series (1) |
| GSE46732 |
Transcriptomic of early embryonic invasion at implantation sites in a murine model. |
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