Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Lung
Cell type
Lung fibroblasts
NA
NA

Attributes by original data submitter

Sample

source_name
Human_Lung_Fibroblasts_IPF
subject status
idiopathetic pulmonary fibrosis (IPF) patient
tissue/cell type
lung fibroblasts
chip antibody
Anti-H3K4me1 (Diagenode, C15410037)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin immunoprecipitation (ChIP) using a H3K4me1 antibody (Diagenode, C15410037) and the iDeal ChIP-seq kit for Histones kit (Diagenode, C01010051) was performed on the 5 control and 5 IPF fibroblast samples. In addition, we performed ChIP on a single control and IPF using an IgG antibody to provide a background control. Paired-end 75bp sequencing data was obtained using the Illumina HiSeq4000 at the Oxford Genomics Centre at the Wellcome Centre for Human Genetics (funded by Wellcome Trust grant reference 203141/Z/16/Z).

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg38

Number of total reads
39385552
Reads aligned (%)
95.5
Duplicates removed (%)
10.1
Number of peaks
41197 (qval < 1E-05)

hg19

Number of total reads
39385552
Reads aligned (%)
95.1
Duplicates removed (%)
10.1
Number of peaks
41047 (qval < 1E-05)

Base call quality data from DBCLS SRA