|
| Status |
Public on Dec 29, 2021 |
| Title |
Tm 93-3 |
| Sample type |
RNA |
| |
|
| Source name |
Ileocecal region, 93 days post-infection, uninfected, mouse 3
|
| Organism |
Mus musculus |
| Characteristics |
tissue: ileocecal region
gender: Female
age: 20 weeks
infection status: uninfected
|
| Growth protocol |
Mice were administered with 4 mg/L of dexamethasone (Merck, Lyon, France) through drinking water. Dexamethasone treatment started 2 weeks prior to inoculation with the parasite and maintained during the entire experimentation. Dexamethasone-containing water was replaced three times a week. Infective doses of C. parvum (105 oocysts / mouse) were prepared and inoculated by oral-gastric gavage. Uninfected animals were inoculated with PBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
At specific time points, the individual mice were euthanized and the caecum tissue was harvested then placed in 4 times volumes of RNAlater (Qiagen, Valencia, CA, USA) before storage at -80 ºC. Total RNA was isolated from tissue using TRIzol™ Reagent (Invitrogen, CA, USA) and treated with DNAse I (Sigma Life Sciences, Saint-Louis, MO, USA) according to manufacturer’s protocol. RNA quality and quantity were determined using Agilent RNA6000 Nano kit by capillary electrophoresis
|
| Label |
Cy3
|
| Label protocol |
Total RNA (100 ng) from each sample was labelled as described in One colour microarray based gene expression analysis protocol (Agilent technologies, Santa Clara, CA, USA) using the Agilent Quick-Amp Labeling kit according to the manufacturer’s instructions. After purification using an RNeasy Mini Kit (Qiagen GmbH, Hilden, Germany), cRNA yield and incorporation efficiency (specific activity) into the cRNA were determined using a NanoDrop 2000 (Thermo Scientific, CA, USA) spectrophotometer
|
| |
|
| Hybridization protocol |
For each sample, a total of 600 ng of cRNA was fragmented and hybridized overnight at 65°C.
|
| Scan protocol |
After hybridization, slides were washed before being scanned on a SureScan Microarray Scanner (Agilent Technologies) and
|
| Description |
Gene expression after 93 days from uninfected ileocecal region
|
| Data processing |
data was processed using Feature Extraction v10.7.3.1 software
|
| |
|
| Submission date |
Nov 10, 2021 |
| Last update date |
Dec 29, 2021 |
| Contact name |
David Hot |
| E-mail(s) |
david.hot@pasteur-lille.fr
|
| Organization name |
Institut Pasteur de Lille
|
| Department |
Center for Infection and Immunity of Lille
|
| Lab |
Transcriptomics and Applied Genomics
|
| Street address |
1 rue du professeur Calmette
|
| City |
Lille |
| ZIP/Postal code |
59000 |
| Country |
France |
| |
|
| Platform ID |
GPL21810 |
| Series (1) |
| GSE188591 |
Persistent Cryptosporidium parvum infection leads to the development of tumor microenvironment in an experimental mouse model: Results of a microarray approach |
|
