|
Status |
Public on Jul 12, 2022 |
Title |
CLL Monocytes 2 |
Sample type |
genomic |
|
|
Source name |
patient monocytes
|
Organism |
Homo sapiens |
Characteristics |
disease state: chronic lymphocytic leukemia cell type: monocytes isolated from peripheral blood by MACS
|
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 monocytes
|
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 |
|