Antigen

Antigen Class

Histone

Antigen

H3K4me2

Cell type

Cell type Class

Lung

Cell type

IMR-90

Primary Tissue

Lung

Tissue Diagnosis

Normal

Sample

source_name

IMR90 fetal lung fibroblasts

cell line

IMR90

treatment

Nutlin-3a (5uM final, 6hrs)

passages

30-35

antibody

H3K4me2 (Millipore)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For ChIP-seq, cells were crosslinked with formaldehyde (1% final) for 10min at room temperature, and harvested for sonication. Nuclei were extracted and chromatin was sheared to an average size of 200bp using a Diagenode Bioruptor. For RNA-seq, cells were harvested and PolyA+ RNA was isolated using the NEBNext Ultra RNA-seq Isolation Module. Sequencing libraries for ChIP-seq were constructed using the NEBNext Ultra kit as per manufacturer's recommended instructions.

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

69502416

Reads aligned (%)

89.3

Duplicates removed (%)

18.5

Number of peaks

106650 (qval < 1E-05)

hg19

Number of total reads

69502416

Reads aligned (%)

89.2

Duplicates removed (%)

18.7

Number of peaks

106313 (qval < 1E-05)