|
| Status |
Public on Jun 12, 2017 |
| Title |
Primary_Colorectal_Tumor_6602 (miRNA-3) |
| Sample type |
RNA |
| |
|
| Source name |
Rectum
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: Primary Colorectal Tumor
age: 49
ptnm: T3N1M1
metastasis: Synchronous
Sex: Female
|
| Treatment protocol |
Not applicable
|
| Growth protocol |
Not applicable
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Sample preparation was performed as described in the Affymetrix GeneChip Expression Analysis Manual (Santa Clara, CA, USA). Briefly, each frozen tissue (≥0.3 g) was crushed to powder at cryogenic temperatures and homogeneized in Trizol (Life Technologies Inc, Rockville, MD). Total RNA was then extracted using the miRNeasy mini kit according to the instructions of the manufacturer (Qiagen, Valencia, CA)
|
| Label |
biotin
|
| Label protocol |
1.0 ug of total RNA was labeled using the Flash Tag Biotin RNA Labeling Kit for Affymetrix® GeneChip® miRNA Arrays according to the manufacturer's instructions.
|
| |
|
| Hybridization protocol |
Total RNA (100-1000 ng) from both tumoral and non-tumoral colorectal tissues was hybridized to the Affymetrix mir3.0 array following the instructions of the manufacturer
|
| Scan protocol |
Fluorescence signals were detected using the GeneChip Scanner 3000 7G (Affymetrix) and data stored as .CEL files
|
| Description |
TP_Met_6602_A_II
|
| Data processing |
Raw data was normalized with the Robust Multi-array Average (RMA) algorithm, which included sequential background correction, intra- and inter-microarray well normalization, probe set summarization and calculation of expression signals
Quantile normalized gene level expression values from Affymetrix Expression Console
|
| |
|
| Submission date |
May 18, 2016 |
| Last update date |
Jun 12, 2017 |
| Contact name |
Jose María Sayagués |
| E-mail(s) |
ppmari@usal.es
|
| Organization name |
Cancer Research Center (IBMCC-CSIC/USAL)
|
| Department |
Department of Medicine
|
| Lab |
Cytometry Service-NUCLEUS
|
| Street address |
Campus Miguel de Unamuno
|
| City |
Salamanca |
| State/province |
Salamanca |
| ZIP/Postal code |
37007 |
| Country |
Spain |
| |
|
| Platform ID |
GPL16384 |
| Series (2) |
| GSE81581 |
Genomic characterization of liver metastases from colorectal cancer patients [miRNA-3] |
| GSE81582 |
Genomic characterization of liver metastases from colorectal cancer patients |
|
