|
| Status |
Public on May 24, 2011 |
| Title |
WP_4 D1_2711246 |
| Sample type |
RNA |
| |
|
| Source name |
Gene expression data from day one post infection
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Intestinal biopsy
|
| Treatment protocol |
Intestinal biopsies were taken after day one and day 60 post infection with Entamoeba histolytica
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Per RNA labeling, 300 nanograms of total RNA was used in conjunction with the Affymetrix recommended protocol wt_sensetarget_label_manual (Catalog# 900672 and 901525).
|
| |
|
| Hybridization protocol |
The hybridization cocktail containing the fragmented and labeled cRNAs was hybridized to The Affymetrix Human Gene 1.0 ST GeneChips. The chips were washed and stained by the Affymetrix Fluidics Station using the standard format and protocols as described by Affymetrix. The probe arrays were stained with streptavidin phycoerythrin solution (Molecular Probes, Carlsbad, CA) and enhanced by using an antibody solution containing 0.5 mg/mL of biotinylated anti-streptavidin (Vector Laboratories, Burlingame, CA).
|
| Scan protocol |
An Affymetrix Gene Chip Scanner 3000 was used to scan the probe arrays
|
| Description |
Gene expression data from day one post infection
|
| Data processing |
CEL files generated by the Affymetrix GCOS program (GCOS 1.2, Affymetrix) were imported into the Affymetrix Expression Consol program and an RMA (Robust Microarray Analysis) normalization was performed to generate the .Chp files.
|
| |
|
| Submission date |
Aug 23, 2010 |
| Last update date |
May 24, 2011 |
| Contact name |
Christopher Pan |
| E-mail(s) |
cpan@mail.nih.gov
|
| Organization name |
NIH
|
| Department |
NHGRI
|
| Street address |
Rm 5228, Bldg 50, South Dr.
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL6244 |
| Series (1) |
| GSE23750 |
Role of REG 1 in Entamoeba histolytica colitis |
|
