Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
RAW 264.7
Primary Tissue
Blood
Tissue Diagnosis
Leukemia

Attributes by original data submitter

Sample

source_name
input_LPS(120')
cell line
RAW264.7
sodium crotonate pre-treatment
--

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, cells were fixed on plate with 1% formaldehyde, nuclei were isolated and then sonicated by a Bioruptor bath sonicator (Diagenode). Lysates were clarified and DNA-histone complexes were isolated by either H3K18Ac (ab1191) or H3K18Cr (PTM-517) immobilized by protein A dynabeads (Life). For ChIP-seq, purified DNA was prepared for sequencing with the TruSeq ChIP sample Prep Kit (Illumina) as per manufacturer's instructions. Libraries were sequenced on HiSeq2000 (Illumina) with 50bp reads.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
38652484
Reads aligned (%)
88.4
Duplicates removed (%)
12.4
Number of peaks
763 (qval < 1E-05)

mm9

Number of total reads
38652484
Reads aligned (%)
88.2
Duplicates removed (%)
12.4
Number of peaks
856 (qval < 1E-05)

Base call quality data from DBCLS SRA