|
| Status |
Public on Jan 06, 2012 |
| Title |
Hct8-TcdA-6hr-1 |
| Sample type |
RNA |
| |
|
| Source name |
6hr after TcdA treatment
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HCT-8
|
| Treatment protocol |
Confluent HCT-8 cells treated with 100 ng/ml of Toxin A or Toxin B (isolated from C. difficile VPI 10463).
|
| Growth protocol |
Cells were grown in RPMI-1640 medium supplemented with 10% fetal bovine serum and 1mM sodium pyruvate.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using the Quiagen QIAshredder and RNeasy mini kits according to the manufacturer’s instructions. An RNase inhibitor was added (RNasin, Promega) and samples were stored at -80˚C. RNA integrity was assessed using an Agilent 2100 BioAnalyzer.
|
| Label |
Biotin
|
| Label protocol |
RNA was labeled using either the Affymetrix 3’ IVT expression or one-cycle target labeling methods.
|
| |
|
| Hybridization protocol |
RNA was hybridized to Human Genome U133 Plus 2.0 chips, washed, and stained according to the recommended Affymetrix protocols.
|
| Scan protocol |
A GeneChip Scanner 3000 7G was used.
|
| Data processing |
All arrays were normalized with the Bioconductor gcrma package (version 2.0.0).
|
| |
|
| Submission date |
May 02, 2011 |
| Last update date |
Jan 06, 2012 |
| Contact name |
Kevin Michael D'Auria |
| E-mail(s) |
kd3jd@virginia.edu
|
| Organization name |
University of Virginia
|
| Department |
Biomedical Engineering
|
| Street address |
415 Lane Road, Room 2041
|
| City |
Charlottesville |
| State/province |
VA |
| ZIP/Postal code |
22903 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE29008 |
Human colon epithelial cells treated with Clostridium difficile Toxins A and B |
|
