|
| Status |
Public on Dec 12, 2014 |
| Title |
Normal_control_11 |
| Sample type |
RNA |
| |
|
| Source name |
Colon tissue
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: colon
disease state: healthy control
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the Allprep RNA/DNA FFPE kit protocol (Qiagen, Gaithersburg, MD, USA).
|
| Label |
biotin
|
| Label protocol |
Total RNA was labled with the WG-DASL pre 1 MCS4 w/UDG Kit according to manufacturers suggested protocol.
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
control
|
| Data processing |
A single intensity (expression) value for each Illumina probe on the array was obtained using Illumina BeadStudio software with standard settings and no background correction. The expression values for all the probes for each sample were scaled to have median 256 (28) and then log (base 2) transformed. Before performing statistical analysis, we filtered for present/absent genes using a p-value threshold of less than 0.01 and removed 2919 absent genes.
|
| |
|
| Submission date |
Dec 13, 2013 |
| Last update date |
Dec 12, 2014 |
| Contact name |
Xinmei Zhao |
| E-mail(s) |
[email protected]
|
| Phone |
443-890-3121
|
| Organization name |
Johns Hopkins U
|
| Department |
Division allergy and clinical immunology
|
| Lab |
lowe family genomics core
|
| Street address |
5200 Eastern Avenue
|
| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21224 |
| Country |
USA |
| |
|
| Platform ID |
GPL14951 |
| Series (1) |
| GSE53306 |
Differential Gene Expression between Active and Quiescent Stages of Ulcerative Colitis: Insights into a Distinctive Pathogenesis Profile |
|
