Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Larvae
Cell type
Imaginal wing disc
NA
NA

Attributes by original data submitter

Sample

source_name
wing disc, third instar larvae, H3K4m2-3 ChIP
genotype/variation
yw;; C765-Gal4 tubGal80ts salmE 482 -eGFP
tissue
imaginal wing disc
developmental stage
third instar larvae
age
120 h development
chip antibody
anti-histone H3 (di+tri methyl K4)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
We adapted a recently published protocol (Simigdala et al.). 5 ml of larvae were disrupted using the gentleMACS dissociator (Milteny). The disrupted material was crosslinked in 1% formaldehyde for 10 min at room temperature. Crosslinking was stopped and formaldehyde quenched with 125 mM glycine for 5 min and washed two times in PBS (PBS Dulbecco, L 182-50, Biochrom AG). The material was separated by a gradient of 10% Ficoll (Ficoll PM 400, 17 0300 50, GE Healthcare) as the upper phase, 20% Ficoll as the middle phase and 30% Ficoll as the lower phase. The duration of the gradient centrifugation was 20 min at 5000 rpm. The discs were enriched at the interphase between 10% and 20%. Imaginal discs were washed once with PBS to clean them from residual Ficoll. All Ficoll solutions were made with PBS. Libraries were prepared using the Illumina TruSeq ChIP Sample Prep Kit (IP-202-1012, Illumina).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

dm6

Number of total reads
7994797
Reads aligned (%)
98.9
Duplicates removed (%)
0.0
Number of peaks
6629 (qval < 1E-05)

dm3

Number of total reads
7994797
Reads aligned (%)
99.0
Duplicates removed (%)
0.0
Number of peaks
6621 (qval < 1E-05)

Base call quality data from DBCLS SRA