|
| Status |
Public on Mar 20, 2012 |
| Title |
patient 027b, cancer, homogenized |
| Sample type |
RNA |
| |
|
| Source name |
surgically resected material
|
| Organism |
Homo sapiens |
| Characteristics |
metastasis: none
Stage: 3c
tissue: cancer, homogenized
|
| Treatment protocol |
Gene expression profiles for 17 pairs of cancer and non-cancerous tissues from colorectal cancer patients were used. Five cell lines were treated with 5-aza-2'-deoxycytidine.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from tissue specimens using RNeasy kit (Qiagen, Hilden, Germany). Integrity of obtained RNA was assessed using Agilent 2100 BioAnalyzer (Agilent Technologies, Palo Alto, CA). All samples had RNA Integrity Number (RIN) greater than 5.0. Contaminant DNA was removed by digestion with RNase-free DNase (Qiagen).
|
| Label |
biotin
|
| Label protocol |
cRNA was prepared using one-cycle target labeling and control reagents kit (Affymetrix, Santa Clara, CA).
|
| |
|
| Hybridization protocol |
Hybridization and signal detection of HG-U133 Plus 2.0 arrays (Affymetrix) was performed following the manufacturer's instruction using the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using Affymetrix GeneChip Scanner 3000.
|
| Description |
Gene expression profile of surgically resected material
|
| Data processing |
The data was normalized by robust multichip analysis (RMA) using Gene Expression Console (Affymetrix)
|
| |
|
| Submission date |
Sep 22, 2011 |
| Last update date |
Mar 20, 2012 |
| Contact name |
Kaoru Mogushi |
| E-mail(s) |
[email protected]
|
| Phone |
+81-3-5802-1797
|
| Organization name |
Juntendo University
|
| Department |
Intractable Disease Research Center
|
| Street address |
2-1-1 Hongo
|
| City |
Bunkyo-ku |
| State/province |
Tokyo |
| ZIP/Postal code |
113-8421 |
| Country |
Japan |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE32323 |
Screening for Epigenetically Masked Genes in Colorectal Cancer using 5-aza-2’-deoxycytidine treatment, Microarray and Gene Expression Profile |
|
| Relations |
| Reanalysis of |
GSM452649 |
