|
| Status |
Public on Apr 09, 2013 |
| Title |
Caco-2 with L. casei, biological rep3 |
| Sample type |
RNA |
| |
|
| Source name |
Caco-2 cells cultured with L. casei
|
| Organism |
Homo sapiens |
| Characteristics |
cells: Caco-2
cultured with: Lactobacillus casei
|
| Treatment protocol |
Before extraction, cells were whashed twice with cold PBS
|
| Growth protocol |
overnight cultures of Caco-cells co-cultured with or without bacteria
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Rneasy mini kit (Qiagen)
|
| Label |
Biotin
|
| Label protocol |
cDNA were synthetized using Superscript Choice system, Biotin-labeled-cRNA was synthetized with the Enzo BioArrayHigh Yield RNA transcript labeling kit.
|
| |
|
| Hybridization protocol |
12.5 microgramms of fragmented cRNA were hybridized to an HG-U133A and the chips were washed and stained with streptavidin-phycoerythrin using a fluidics station.
|
| Scan protocol |
The arrays were scanned at 570 nm with a resolution of 3 mm/pixel using a GeneArray scanner from Agilent Technologies.
|
| Description |
gene expression data
|
| Data processing |
Preprocessing by Robust Multichip Average (RMA) was applied to process individual probe values (perfect match) and to generate summary values for each probe set (transcript). The dChip software was used for comparative analysis and for hierarchical clustering with Euclidean distance and average as a linkage method
|
| |
|
| Submission date |
Apr 17, 2012 |
| Last update date |
Apr 09, 2013 |
| Contact name |
Thierry Pedron |
| E-mail(s) |
tpedron@pasteur.fr
|
| Phone |
33 1 40 61 36 11
|
| Fax |
33 1 45 68 89 53
|
| Organization name |
Pasteur Institute
|
| Department |
Biologie cellulaire et Infection
|
| Lab |
Pathogénie Microbienne Moléculaire
|
| Street address |
28 rue du Docteur Roux
|
| City |
Paris |
| ZIP/Postal code |
75015 |
| Country |
France |
| |
|
| Platform ID |
GPL571 |
| Series (1) |
| GSE37369 |
Caco-2 cell gene expression following co-culture with Lactobacillus casei and Bifidobacterium breve |
|
