Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Uterus
Cell type
HeLa
Primary Tissue
Cervix
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
Suspension HeLa cells
tissue
Suspension HeLa cells
treatment
none
antibody
H3K4me1 (Abcam ab8895)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crosslinked at RT by adding 16% paraformaldehyde (Electron Microscopy Sciences 130218) to a final concentration of 1% in 37°C media for 10 or 15 min. Crosslinking was quenched with Tris pH 7.6 to a final concentration of 1.33 M. ChIP protocols vary between experiments and are detailed in the STAR Methods NEXTflex Rapid DNA-Seq Kit (Bioo Scientific 5144-04)

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
23166374
Reads aligned (%)
98.3
Duplicates removed (%)
45.6
Number of peaks
3102 (qval < 1E-05)

hg19

Number of total reads
23166374
Reads aligned (%)
97.8
Duplicates removed (%)
45.9
Number of peaks
2805 (qval < 1E-05)

Base call quality data from DBCLS SRA