Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
DNMT3B

Cell type

Cell type Class
Blood
Cell type
B Lymphoblastoid cell line
NA
NA

Attributes by original data submitter

Sample

source_name
B-LCL_Ctrl1
cell type
cell line
genotype
DNMT3Bwt/wt
chip antibody
DNMT3B, Diagenode

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei. Histone-DNA and DNMT3B-DNA complexes were isolated with specific antibodies. Immunoprecipitated complexes were recovered with protein A sepharose (Pharmacia), washed with low and high salt buffers, reverse-crosslinked, and purified. DNMT3B and H3K36me3 libraries were prepared according to Illumina's instructions accompanying the Nextera DNA Sample Kit. H3K27me3 and H3K4me3 libraries were prepared according to SOLiD protocol (Applied Biosystem).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
34558588
Reads aligned (%)
78.8
Duplicates removed (%)
3.7
Number of peaks
1083 (qval < 1E-05)

hg38

Number of total reads
34558588
Reads aligned (%)
95.5
Duplicates removed (%)
2.7
Number of peaks
1035 (qval < 1E-05)

Base call quality data from DBCLS SRA