|
| Status |
Public on Jul 07, 2016 |
| Title |
IBC-BRC_190 |
| Sample type |
RNA |
| |
|
| Source name |
Invasive breast cancer (IBC)
|
| Organism |
Homo sapiens |
| Characteristics |
tissue type: Invasive breast cancer (IBC)
er (ihc): 1
pr (ihc): 1
her2 (ihc): NA
grade (combined): 1
grade (elston): NA
grade (eortc): NA
lymph node: 0
age (years): 42
size (mm): 11
pam50: Normal
death event: NA
iPSilateral event: NA
dmfs event: NA
recurrence event: NA
recurrence location: NA
recurrence type: NA
follow-up time: NA
source: Trondheim
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Tumor tissues were homogenized using TRIzol Reagent (Invitrogen, Life Technologies, USA), and purified with RNeasy mini columns (Qiagen, Netherlands). The quality of RNA was assessed using NanoDrop ND-1000 Spectrophotometer, version 3.7.1 (NanoDrop Technologies, Thermo Fisher Scientific Inc, USA).
|
| Label |
Cy3
|
| Label protocol |
200ng RNA was used as input for labeling according to manufacturer's protocol.
|
| |
|
| Hybridization protocol |
RNA was hybridized to Human miRNA Microarray Release 16.0, 8x60K (G4872A-031181) according to manufacturer's instructions.
|
| Scan protocol |
Feature extraction was performed using Agilent Scanner G2565A and Feature Extraction software version 10.7.3.1.
|
| Description |
miRNA profile of human whole invasive breast cancer.
|
| Data processing |
Data was normalized using the GeneSpring version 12 software environment provided by Agilent. Probe spots were either marked as detected with errors lower than 3 times the signal, or if flagged were given a value of 0.1. Probe spots for the same miRNA were summed, individual arrays were log2 transformed, and subsequently 90th percentile normalized.
|
| |
|
| Submission date |
Jul 09, 2014 |
| Last update date |
Jul 07, 2016 |
| Contact name |
Robert Lesurf |
| Organization name |
Washington University in St. Louis
|
| Department |
McDonnell Genome Institute
|
| Lab |
Griffith Lab
|
| Street address |
4444 Forest Park Ave
|
| City |
St. Louis |
| State/province |
MO |
| ZIP/Postal code |
63112 |
| Country |
USA |
| |
|
| Platform ID |
GPL15019 |
| Series (2) |
| GSE59247 |
Molecular features of subtype-specific progression from ductal carcinoma in situ to invasive breast cancer [miRNA data] |
| GSE59248 |
Molecular features of subtype-specific progression from ductal carcinoma in situ to invasive breast cancer |
|
