Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Adult
Cell type
Whole worm
NA
NA

Attributes by original data submitter

Sample

source_name
nematode whole body
genotype
wild type
exposure
K-medium in NGM plates
chip antibody
H3K4me3 (Abcam, catalog# ab8580, lot# 20700500)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nematode samples were cross-linked with 2% formaldehyde for 30 min at room temperature. Next, formaldehyde was then quenched by addition of 1M Tris (pH 7.5). After sonication, cell extracts containing DNA fragments with an expected range between 200 and 800 bp were immunoprecipitated using anti-H3K4me3 (Abcam ab8580). ChIP-Sequencing library preparation was performed according to Illuminas protocol Preparing Samples for ChIP Sequencing of DNA.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

ce11

Number of total reads
7181124
Reads aligned (%)
79.8
Duplicates removed (%)
71.6
Number of peaks
343 (qval < 1E-05)

ce10

Number of total reads
7181124
Reads aligned (%)
79.8
Duplicates removed (%)
71.6
Number of peaks
343 (qval < 1E-05)

Base call quality data from DBCLS SRA