|
| Status |
Public on Aug 03, 2007 |
| Title |
Biopsy of the normal mucosa of the colon from patient #2 |
| Sample type |
RNA |
| |
|
| Source name |
Human colonic normal mucosa
|
| Organism |
Homo sapiens |
| Characteristics |
Tissue: normal
Location: sigmoid colon
Size: 0.2 cm (x3)
Patient ID: PR
CEL Filename: 230305_PR_nm_II (vi_nm_3_II).CEL, where "nm" is for normal mucosa (colorectal) and "po" is for polyp (colorectal)"
|
| Extracted molecule |
total RNA |
| Extraction protocol |
For each polyp, three biopsies of normal mucosa were collected from the same colon segment (> 2 cm from the site of the polyp). Immediately after removal, a small sample of epithelial tissue (5-15 mg) was cut from the tip of each polyp, leaving the underlying muscularis mucosae intact. Total RNA was extracted (RNeasy Mini kit, Qiagen) from homogenized tissue samples (5- to 15-mg), and its integrity was verified by capillary gel electrophoresis (Bio Analyzer, Agilent Technologies).
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on HG-133 Plus2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
standard Affymetrix procedures
|
| Description |
Gene expression data from colonic normal mucosa.
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings.
|
| |
|
| Submission date |
Aug 02, 2007 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Giancarlo Marra |
| E-mail(s) |
[email protected]
|
| Phone |
0041 44 6353472
|
| Fax |
0041 44 6353484
|
| Organization name |
University of Zurich
|
| Department |
Molecular Cancer Research
|
| Street address |
Winterthurerstrasse 190
|
| City |
Zurich |
| ZIP/Postal code |
8057 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE8671 |
Transcriptome profile of human colorectal adenomas. |
|
| Relations |
| Reanalyzed by |
GSE39923 |
| Reanalyzed by |
GSE64985 |
| Reanalyzed by |
GSE119087 |
