|
| Status |
Public on Jul 07, 2016 |
| Title |
DCIS-FW06_5 |
| Sample type |
RNA |
| |
|
| Source name |
Ductal carcinoma in situ (DCIS)
|
| Organism |
Homo sapiens |
| Characteristics |
tissue type: Ductal carcinoma in situ (DCIS)
er (ihc): 0
pr (ihc): 1
her2 (ihc): 0
grade (combined): 3
grade (elston): NA
grade (eortc): 3
lymph node: 0
age (years): 54
size (mm): 17
pam50: LumA
death event: 0
iPSilateral event: 0
dmfs event: 1
recurrence event: 1
recurrence location: contra invasive then liver +skeleton
recurrence type: Invasive
follow-up time: 267
source: Oslo
|
| 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 |
Total RNA was amplified and labeled using Low RNA Input Quick Amp Labeling Kit (Agilent Technologies, USA). The procedure was followed by the protocol for One-Color Microarray-Based Gene Expression Analysis, Low Input Qucik Amp Labeling, Version 6.5 (Agilent Technologies, USA).
|
| |
|
| Hybridization protocol |
RNA was hybridized to Agilent SurePrint G3 Human GE 8x60K Microarrays (G4851A) according to manufacturer's instructions.
|
| Scan protocol |
Feature extraction was performed using Agilent Feature Extraction software.
|
| Description |
Gene expression profile of human whole ductal carcinoma in situ.
|
| Data processing |
Individual arrays were background-corrected with the RMA algorithm, log2 transformed, and subsequently quantile 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 |
GPL13607 |
| Series (2) |
| GSE59246 |
Molecular features of subtype-specific progression from ductal carcinoma in situ to invasive breast cancer [gene expression data] |
| GSE59248 |
Molecular features of subtype-specific progression from ductal carcinoma in situ to invasive breast cancer |
|
