GSM4200881: Germinal center B cells from Rock2 conditional KO mice, ATACseq, replica2; Mus musculus; ATAC-seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
ATAC-Seq
Antigen
ATAC-Seq
Cell type
Cell type Class
Blood
Cell type
Germinal center B-cells
NA
NA
Attributes by original data submitter
Sample
source_name
Germinal center B cells
strain
C57BL/6
genotype
Rock2flox/flox CD23-Cre
tissue
spleen
cell type
Germinal center B cells
age
10 weeks
Sequenced DNA Library
library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
1. RNA-seq: Total RNA was isolated using QIAGEN RNeasy Plus Mini Kit from FACS sorted FoB or GCB cells; 2. ATAC-seq: the nuclei of sorted GCB cells were prepared by incubation of cells with nuclear preparation buffer (0.3M sucrose, 10mM Tris pH7.5, 60mM KCl, 15mM NaCl, 5mM MgCl2, 0.1mM EGTA, 0.1% NP40, 0.15mM spermine, 0.5mM spermidine, 2mM 6AA) 1. RNA-seq: sequence-compatible libraries were prepared by Nextera library preparation at a the Weill Cornell Epigenomics core. Quality of all RNA and library preparations were evaluated with BioAnalyzer 2100 (Agilent). Sequencing libraries were sequenced by the Epigenomics Core Facility at Weill Cornell Medicine using a HiSeq2500; 2. ATAC-seq: sequencing libraries were constructed as described in PMID: 26083756: Buenrostro JD, Wu B, Litzenburger UM, Ruff D, Gonzales ML, Snyder MP, Chang HY, Greenleaf WJ. Single-cell chromatin accessibility reveals principles of regulatory variation. Nature. 2015 Jul 23;523(7561):486-90. doi:10.1038/nature14590. Epub 2015 Jun 17.