|
| Status |
Public on Oct 08, 2008 |
| Title |
Silberg2 (S2) 021101NE |
| Sample type |
RNA |
| |
|
| Source name |
biopsy of normal esophagus from the same patient as a matched Barrett's esophagus biposy
|
| Organism |
Homo sapiens |
| Characteristics |
N/A
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated by first homogenizing the tissue with a Brinkmann homogenizer, passing it through a QIAshredder (Qiagen,) column and isolating the RNA by RNeasy miniprep kit (Qiagen).
|
| Label |
biotin
|
| Label protocol |
cRNA with biotin labeling was performed according to Affymetrix protocols
|
| |
|
| Hybridization protocol |
hybridization of cRNAs to Affymetrix chips were performed according manufacturer's instructions
|
| Scan protocol |
scanning of Affymetrix chips were performed according manufacturer's instructions
|
| Description |
N/A
|
| Data processing |
The 19 CEL files were processed using Stratagene’s Array Lite 3.4 software using GC-RMA algorithm to calculate probeset intensity values and to calculate Absent/Present/Marginal flags. These intensity values were log2 transformed.
|
| |
|
| Submission date |
Oct 07, 2008 |
| Last update date |
Oct 08, 2008 |
| Contact name |
Anil K Rustgi |
| E-mail(s) |
[email protected]
|
| Phone |
215-898-0161
|
| Fax |
215-573-2024
|
| Organization name |
University of Pennsylvania
|
| Department |
Medicine-Gastroenterology
|
| Street address |
415 Curie Blvd, 600 CRB
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL96 |
| Series (1) |
| GSE13083 |
Barrett's vs Normal esophagus vs small intestine comparison |
|
