|
| Status |
Public on Sep 09, 2015 |
| Title |
Placenta_PD_sham_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Placenta of protein-deficient, sham-infected mouse
|
| Organism |
Mus musculus |
| Characteristics |
strain/background: CD-1
diet group: protein deficient
infection group: sham
tissue: placenta
developmental stage: day 18 of pregnancy
|
| Treatment protocol |
At day 5 of pregnancy, mice were divided into two diet groups receiving either PS (24% protein, TD.90017) or PD (6% protein, TD.90017) isocaloric diets (Harlan Teklad, Madison, WI) ad libitum and two infection groups [sham: 3 × 0 3rd stage larvae (L3); infected: 3 × 100 ± 3 L3] until necropsy on day 18 of pregnancy (total 14 days). Heligmosomoides bakeri infective L3 were obtained by fecal culture of stock parasites maintained in outbred CD-1 mice. Dams were infected with 100 L3 on days 5, 10 and 15 of pregnancy by oral gavage.
|
| Growth protocol |
8- to 9-week-old primiparous mice, timed pregnant mice were received on day 4 of pregnancy from Charles River Laboratories (Quebec, Canada) and housed individually in a temperature-controlled (22-25°C) room with a 14:10 h light:dark cycle.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction was performed using PureLink RNA extraction kit (Life Technologies, Carlsbad, CA) according to the manufacturer's instructions; samples from the last placenta from each uterine horn of each mouse was pooled; tissues were lysed using a mortar and pestle in the lysis buffer provided in the kit and homogenized using a column homogenizer (Life Technologies).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix) at McGill University and Génome Québec Innovation Centre.
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix Mouse Gene 2.0 ST GeneChip. Arrays were washed and stained in the Affymetrix Fluidics Station 400 at McGill University and Génome Québec Innovation Centre.
|
| Scan protocol |
GeneChips were scanned using the GeneArray Scanner (Affymetrix, Santa Clara, CA) at McGill University and Génome Québec Innovation Centre.
|
| Description |
L.S. 3.7
Gene expression data from placentas of protein-deficient, sham-infected mice.
|
| Data processing |
RMA normalization was performed using Expression Console; ANOVA statistical analysis was performed using FlexArray software version 1.6.1 (provided by McGill University and Génome Québec Innovation Centre, http://www.gqinnovationcenter.com/services/bioinformatics/flexarray/index.aspx?l=e).
|
| |
|
| Submission date |
Apr 25, 2014 |
| Last update date |
Sep 10, 2015 |
| Contact name |
Lisa M Starr |
| E-mail(s) |
lisa.starr@mail.mcgill.ca
|
| Organization name |
McGill University Health Centre
|
| Department |
Child Health and Human Development
|
| Street address |
1001 Boul. Decarie
|
| City |
Montreal |
| State/province |
Quebec |
| ZIP/Postal code |
H4A3J1 |
| Country |
Canada |
| |
|
| Platform ID |
GPL16570 |
| Series (1) |
| GSE57115 |
Placental gene expression in intestinal nematode-infected and protein-deficient mice |
|
