|
| Status |
Public on Jan 03, 2019 |
| Title |
BM4b |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Human breast tumor
|
| Organism |
Homo sapiens |
| Characteristics |
gender: female
tissue: Human breast tumor
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated from fresh-frozen tissue specimens using the Wizard Genomic DNA extraction kit, including proteinase K treatment followed by phenol chloroform purification
|
| Label |
Cy3
|
| Label protocol |
Tumor and reference genomic DNA were differentially labeled using a random labeling kit with Cy3-dCTP and Cy5-dCTP, respectively
|
| |
|
| Channel 2 |
| Source name |
Normal female genomic DNA
|
| Organism |
Homo sapiens |
| Characteristics |
gender: female
tissue: Normal female genomic DNA
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated from fresh-frozen tissue specimens using the Wizard Genomic DNA extraction kit, including proteinase K treatment followed by phenol chloroform purification
|
| Label |
Cy5
|
| Label protocol |
Tumor and reference genomic DNA were differentially labeled using a random labeling kit with Cy3-dCTP and Cy5-dCTP, respectively
|
| |
|
| |
| Hybridization protocol |
Hybridization probes were denatured, preannealed, and cohybridized to arrays pretreated with the Universal Microarray Hybridization Kit. Following hybridization, slides were washed at room temperature and dried by centrifugation.
|
| Scan protocol |
Images and raw signal intensities were acquired using an Agilent G2505B DNA microarray scanner and GenePix Pro 6.0.1.22 image analysis software
|
| Description |
16b_9961_BM
|
| Data processing |
Pin-based LOWESS normalized, spot intensities representing the tumor (cy3) and reference (cy5) channels were background-corrected by subtracting the median background from the median foreground signal intensities. BASE database used.
|
| |
|
| Submission date |
Jan 10, 2018 |
| Last update date |
Jan 03, 2019 |
| Contact name |
Jana Biermann |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Gothenburg
|
| Street address |
Medicinaregatan 1F
|
| City |
Gothenburg |
| ZIP/Postal code |
413 90 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL9077 |
| Series (2) |
| GSE108984 |
Clonality analysis in breast tumour pairs using aCGH data |
| GSE108985 |
Clonal relatedness in tumour pairs of breast cancer patients |
|
