|
| Status |
Public on Dec 30, 2013 |
| Title |
Whole blood, Stage 1 rectal cancer patients |
| Sample type |
RNA |
| |
|
| Source name |
Whole blood from stage 1 rectal cancer patients
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Whole blood
affected site: Rectum
disease state: Stage 1 rectal cancer
|
| Treatment protocol |
Whole blood and paired tumor tissues and adjacent normal mucosa were obtained from healthy controls/colorectal cancer patients admitted to University of Malaya Medical Centre.
|
| Growth protocol |
NA
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Ribopure Blood RNA Isolation Kit (Ambion, Austin, TX) and Qiagen miRNeasy Mini Kit (Qiagen, Valencia, CA) were used in the extraction of total RNA from whole blood and tissue samples, respectively.
|
| Label |
biotin
|
| Label protocol |
Total RNA (1 ug) was biotin-labeled using Flashtag Biotin HSR RNA Labeling Kit (Genisphere, Hatfield, PA).
|
| |
|
| Hybridization protocol |
The samples were hybridized to GeneChip miRNA 2.0 arrays at 48C and 60 rpm for 16hours in the Affymetrix Hybridization Oven 640. The arrays were washed and stained on Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned with GeneChip Scanner 3000 7G.
|
| Description |
MicroRNA gene expression
|
| Data processing |
The data were analyzed using GeneSpring GX 12.0 software (Agilent Technologies, Santa Clara, CA). ). Robust multichip averaging (RMA) algorithm was applied and the normalized data were filtered at p value and fold change cut off of 0.05 and 1.5, respectively
|
| |
|
| Submission date |
Aug 02, 2012 |
| Last update date |
Dec 30, 2013 |
| Contact name |
Yong Fung Lin |
| E-mail(s) |
flyong88@yahoo.com
|
| Organization name |
University of Malaya
|
| Department |
Surgery
|
| Street address |
Faculty of Medicine, University of Malaya
|
| City |
Kuala Lumpur |
| ZIP/Postal code |
50603 |
| Country |
Malaysia |
| |
|
| Platform ID |
GPL14613 |
| Series (1) |
| GSE39845 |
Tissue and blood microRNA array profiles of colorectal cancer patients |
|
