Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

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 from spleen
genotype
Ezh2(Y641F)fl/wt;C<gamma>1-cre+/-
strain
C57BL/6J
spike-in
Drosophila
age
3-4 months
littermate
mixed litters

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were sorted into PBS and fixed with 1% formaldehyde. MicroChIP was performed using TrueMicroChip kit (Diagenode) according to manufacturer instructions with following modifications. For each replicate, ~20,000 cells were pooled together with 1 million Drosophila Kc167 cells and processed using Covaris E220E sonicator at peak power 140, duty factor 5, 5 cycles/burst, 20 min per sample. The sonicated samples were then cleared by 10 min centrifugation and mixed with 20 µg antibody (anti-H3K27me3, Cell Signaling 9733), and incubated overnight with rotation at 4ºC. Complexes were pulled down using Protein A Dynabeads (ThermoFisher Scientific), washed and de-crosslinked with kit buffers, and DNA was isolated using standard phenol-chloroform procedure. Libraries were prepared using MicroPlex Library preparation kit (Diagenode), with 8 cycles of amplification

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
104361957
Reads aligned (%)
69.7
Duplicates removed (%)
17.6
Number of peaks
2347 (qval < 1E-05)

mm9

Number of total reads
104361957
Reads aligned (%)
69.5
Duplicates removed (%)
17.5
Number of peaks
2445 (qval < 1E-05)

Base call quality data from DBCLS SRA