Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Others
Cell type
Alveolar type II cells
NA
NA

Attributes by original data submitter

Sample

source_name
AT2 cells
strain background
C57BL/6
age
10-12 weeks
cell type
Alveolar type II (AT2) cells
chip antibody
anti-H3K4me3 (Abcam, ab8580)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
AT2 cells (2 × 107) were isolated from 10- to 12-wk-old C57BL/6 mice. Active Motif Epigenetic Services performed ChIP assays. Cells fixed with 1% formaldehyde for 11 min were quenched with 0.25 M glycine and then were swollen in lysis buffer for 30 min on ice. Chromatin was isolated after sonication to shear the DNA to an average length of 300–500 bp. Input and immunoprecipitated DNAs were treated with RNase, proteinase K, and heat for de-crosslinking, followed by ethanol precipi- tation. DNA libraries were prepared for sequencing using standard Illumina protocols

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
59095583
Reads aligned (%)
98.3
Duplicates removed (%)
28.9
Number of peaks
14834 (qval < 1E-05)

mm9

Number of total reads
59095583
Reads aligned (%)
98.0
Duplicates removed (%)
28.8
Number of peaks
14888 (qval < 1E-05)

Base call quality data from DBCLS SRA