|
| Status |
Public on Jul 12, 2022 |
| Title |
CLL NLCs 1 |
| Sample type |
genomic |
| |
|
| Source name |
patient NLCs
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: chronic lymphocytic leukemia
cell type: NLCs derived from 14 days culture in PBMC
|
| Growth protocol |
Monocytes were freshly isolated using MACS; NLCs were derived from 14-day PBMC cultures
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
genomic DNA was extracted and purified using the Gentra Puregene cell kit (Qiagen, Germantown, MD)
|
| Label |
cy3 and Cy5
|
| Label protocol |
Standard Illumina Protocol
|
| |
|
| Hybridization protocol |
bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation EPIC/850k chip using standard Illumina protocol
|
| Scan protocol |
Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
|
| Description |
genomic DNA from CLL-patient NLCs derived in culture
|
| Data processing |
Raw 850K data were normalized by a beta-mixture quantile normalization method using the RnBeads version 2.0 software. Probes present on sex chromosomes, non-cg, and those affected by proximity to known SNP were removed to generate a final probe set of 804,572 probes.
|
| |
|
| Submission date |
Jun 23, 2022 |
| Last update date |
Jul 14, 2022 |
| Contact name |
Jonathan P Butchar |
| E-mail(s) |
jon.butchar@osumc.edu
|
| Organization name |
The Ohio State University
|
| Department |
Internal Medicine
|
| Lab |
Tridandapani
|
| Street address |
400 W. 12th Avenue
|
| City |
Columbus |
| State/province |
OH |
| ZIP/Postal code |
43210 |
| Country |
USA |
| |
|
| Platform ID |
GPL21145 |
| Series (1) |
| GSE206842 |
Epigenome analysis of monocytes and derived nurse-like cells from chronic lymphocytic leukemia patients, along with healthy-donor controls |
|
