|
Status |
Public on Mar 24, 2015 |
Title |
genomic DNA from S4 68 PD |
Sample type |
genomic |
|
|
Source name |
Post-crisis T-cell culture
|
Organism |
Homo sapiens |
Characteristics |
tissue/cell type: Post-crisis T-cell culture sample type: cell culture
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Genomic DNA was extracted according to standard protocols and DNA purity and concentration determined by spechtrophotometry.
|
Label |
Cy5 and Cy3
|
Label protocol |
Standard Illumina Protocol
|
|
|
Hybridization protocol |
bisulphite converted DNA (EZ DNA methylation gold) was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450K Beadchip using standard Illumina protocol.
|
Scan protocol |
Arrays were imaged using HiScan Reader using standard recommended Illumina scanner setting
|
Description |
S4 68 PD Post-crisis cell culture sample
|
Data processing |
GenomeStudio software v2010.3 with the Methylation module. Intergenic CpG-sites, CpG-sites at chromosome X and Y, Detection P-value > 0.05 and nbeads<=3 were filtered (set to NA). Probe type normalization was performed using the BMIQ Method.
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|
|
Submission date |
Mar 20, 2014 |
Last update date |
Mar 24, 2015 |
Contact name |
Sofie Degerman |
E-mail(s) |
sofie.degerman@umu.se
|
Organization name |
Umeå University
|
Department |
Medical Biosciensces
|
Lab |
Pathology
|
Street address |
NUS, Blg 6M, 2nd floor
|
City |
Umeå |
State/province |
Sweden |
ZIP/Postal code |
90185 |
Country |
Sweden |
|
|
Platform ID |
GPL13534 |
Series (2) |
GSE56068 |
Immortalization of T-cells is accompanied by gradual changes in CpG methylation resulting in a profile resembling a subset of T-cell leukemias [methylation] |
GSE56070 |
Immortalization of T-cells is accompanied by gradual changes in CpG methylation resulting in a profile resembling a subset of T-cell leukemias |
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