Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Lung
Cell type
IMR-90
Primary Tissue
Lung
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
human diploid fibroblast
cell line
IMR90
cell type
human diploid fibroblast
genotype/variation
overexpressing RasG12V
histone marks to be tested
K4me3
condition
RIS; RAS-induced senescence (overexpression of RasG12V)
chip antibody
mouse momoclonal H3K4me3 antibody, clone CMA304 (PMID:18227620)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
immunoprecipitated DNA was end-repaired, A-tailed, ligated to the sequencing adapters, amplified by 18 cycles of PCR and size selected (200-300 bp) followed by single end 4 sequencing on an Illumina Genome Analyzer according to the manufacturer’s recommendationas described in Chandra, T. et al. Independence of Repressive Histone Marks and ChromatinCompaction during Senescent Heterochromatic Layer Formation. Mol Cell 47, 203–214 (2012)

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

hg38

Number of total reads
68032562
Reads aligned (%)
83.9
Duplicates removed (%)
82.5
Number of peaks
15010 (qval < 1E-05)

hg19

Number of total reads
68032562
Reads aligned (%)
83.4
Duplicates removed (%)
83.6
Number of peaks
15148 (qval < 1E-05)

Base call quality data from DBCLS SRA