Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Blood
Cell type
B cells
NA
NA

Attributes by original data submitter

Sample

source_name
mouse spleen B cells with the heterozygous chr15: 98,835,228 A>T mutation in KMT2D (Ile5482Asn)
cell type
Spleen bulk B cells
genotype
HET
chip antibody
histone H3K4me1 polyclonal antibody (Active Motif, cat# 39297, lot# 01714002)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Sorted splenic B cells were fixed with 1% formaldehyde at room temperature for 10 mins followed by quenching with 0.125M glycine (final concentration). The cells were washed twice with ice cold PBS containing protease inhibitors (1mM phenylmethylsulfonyl fluoride (PMSF), 1 ug/ml aprotinin and 1ug/ml pepstatin A), harvested and treated with SDS lysis buffer for 10 min on ice. Resulting lysates were sonicated to shear the DNA to fragment lengths of 200 to 500bp. 10 ng chromatin immunoprecipitated DNA was used for each library prep using Illumina Truseq Chip Library Prep Kit according to the manufacturer’s instructions

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
33536306
Reads aligned (%)
97.8
Duplicates removed (%)
17.8
Number of peaks
375 (qval < 1E-05)

mm9

Number of total reads
33536306
Reads aligned (%)
97.5
Duplicates removed (%)
17.8
Number of peaks
429 (qval < 1E-05)

Base call quality data from DBCLS SRA