|
Status |
Public on May 10, 2011 |
Title |
Breast Cancer Array_Patient ID_ES105 |
Sample type |
RNA |
|
|
Channel 1 |
Source name |
Stratagene Human Universal Reference spiked with MCF7 and ME16C mRNA
|
Organism |
Homo sapiens |
Characteristics |
reference: Stratagene Human Reference total RNA from 10 human cell lines: 1_Adenocarcinoma, mammary gland 2_Hepatoblastoma, liver 3_Adenocarcinoma, cervix 4_Embryonal carcinoma, testis 5_Glioblastoma, brain 6_Melanoma 7_Liposarcoma 8_Histiocytic Lymphoma; macrophage; histocyte 9_ Lymphoblastic leukemia, T lymphoblast 10_Plasmacytoma; myeloma; B lymphocyte. Also, mRNA spiked in from MCF7 and ME16C.
|
Growth protocol |
patient biopsies were frozen and stored in oct compound
|
Extracted molecule |
total RNA |
Extraction protocol |
Trizol extractions followed by Dnase treatment and column purification.
|
Label |
Cy3
|
Label protocol |
Agilent Low Input Linear Amplification Kit and protocol
|
|
|
Channel 2 |
Source name |
Primary Breast Tumor_Patient ID_ES105
|
Organism |
Homo sapiens |
Characteristics |
patient id: ES105 sample type: oct blocks from fine needle biopsies which contained at least 50% tumor cellularity prototype: HER2
|
Growth protocol |
patient biopsies were frozen and stored in oct compound
|
Extracted molecule |
total RNA |
Extraction protocol |
Trizol extractions followed by Dnase treatment and column purification.
|
Label |
cy5
|
Label protocol |
Agilent Low Input Linear Amplification Kit and protocol
|
|
|
|
Hybridization protocol |
Agilent 60-mer oligo microarray processing protocol
|
Scan protocol |
Microarrays were scanned with an Agilent Scanner.
|
Description |
prototype_HER2
|
Data processing |
txt files from Agilent Feature Extraction software were loaded into the UNC-CH Microarray Database. Final loess, normalized log2 ratios (Cy5-sample/Cy3-control) for each probe were retrieved.
|
|
|
Submission date |
Dec 15, 2010 |
Last update date |
Dec 26, 2023 |
Contact name |
Cynthia Ma |
E-mail(s) |
cynthiaxma@wustl.edu
|
Phone |
3143628903
|
Organization name |
Washington University
|
Department |
Medical Oncology
|
Lab |
Dr. Cynthia Ma Lab
|
Street address |
4515 Mckinley, 4515 Mckinley
|
City |
st louis |
State/province |
Missouri |
ZIP/Postal code |
63627 |
Country |
USA |
|
|
Platform ID |
GPL6480 |
Series (2) |
GSE26082 |
Prototypes for 4x44K PAM50 Subtyping |
GSE28860 |
WU-BC 3, 4, and 5 PAM50 Subtypes with Passage and Gene Expression Comparison Between Xenografts and Primary Tumors |
|