|
| Status |
Public on Feb 29, 2016 |
| Title |
Human mammary fibroblast genomic DNA [HMF_2] |
| Sample type |
genomic |
| |
|
| Source name |
mammary fibroblast
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: mammary fibroblast
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was obtained from commercial sources except for the two normal breast tissue samples for which genomic DNA was isolated from fresh frozen breast tissues in a three-step procedure. Tumour cells were pre-treated with Proteinase K (20 mg/ml) at 55C over-night, DNA was further purified using the Promega Wizard Genomic DNA Purification kit (Promega Corporation, Madison, Wisconsin) and finally DNA was purified by phenol/chloroform treatment in phase-lock tubes.
|
| Label |
Cy5 and Cy3
|
| Label protocol |
Standard Illumina labelling protocol.
|
| |
|
| Hybridization protocol |
Bisulfite-converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 BeadChips using the standard Illumina protocol.
|
| Scan protocol |
Arrays were imaged using High Scan SQ using the standard recommended Illumina scanner setting.
|
| Description |
ScienCell Research Laboratories Cat no 7639
HMF_2
|
| Data processing |
Signal intensities were obtained from GenomeStudio (Illumina), converted to beta-values, filtered, and normalized to remove biases between Infinium I and II probes.
|
| |
|
| Submission date |
Nov 10, 2015 |
| Last update date |
May 02, 2016 |
| Contact name |
Markus Ringner |
| E-mail(s) |
markus.ringner@scilifelab.se
|
| Organization name |
Lund University
|
| Street address |
Sölvegatan 35
|
| City |
Lund |
| ZIP/Postal code |
22362 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL13534 |
| Series (1) |
| GSE74877 |
Genome-wide DNA methylation analysis of different cell types |
|
