Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Lung
Cell type
Lung adenocarcinoma cell line
NA
NA

Attributes by original data submitter

Sample

source_name
KPL cells
cell line
KPL
treatment
ctrl
chip antibody
H3K4me3 (Abcam ab8580)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-Seq, chromatin from 2 x 10e7 KPL cells or 3.5 x 10e7 MCF10A-YAP5SA was isolated and immunoprecipitated as described above. Libraries for ChIP-Seq were generated using the NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (NEB) according to the manufacturer's instructions. Size-selection was performed using Agencourt AMPure XP beads (Beckman Coulter) (150 bp). DNA fragments were amplified by 10-15 cycles of PCR and library quality was analyzed with the Biorad Experion system and the Fragment Analyzer (Advanced Analytical). The amount of library DNA was quantified using pico green.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
26405081
Reads aligned (%)
99.9
Duplicates removed (%)
25.7
Number of peaks
25451 (qval < 1E-05)

mm9

Number of total reads
26405081
Reads aligned (%)
99.8
Duplicates removed (%)
25.8
Number of peaks
25464 (qval < 1E-05)

Base call quality data from DBCLS SRA