Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ph-d

Cell type

Cell type Class
Larvae
Cell type
Eye discs
NA
NA

Attributes by original data submitter

Sample

source_name
Eye discs
developmental stage
L3
antibody
PH

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
crosslinking was performed for 15 min in the presence of 1.8% formaldehyde during tissue homogenization. Chromatin extracts of embryos were sonicated using a Bioruptor (Diagenode) for 15 min (settings 30 sec on, 30 sec off, high power). To obtain the recommended quantity of DNA several Ips were prepared, pooled and resuspended in a volume of 20ml (12 to 14 Ips for Pc or Ph, 3 to 4 Ips for H3K27me3 and 3 Ips for H3K27ac). Sample preparation was done with Illumina kit (ref. IP-102-1001) following manufacturer’s instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

dm3

Number of total reads
284129213
Reads aligned (%)
75.2
Duplicates removed (%)
77.4
Number of peaks
0 (qval < 1E-05)

dm6

Number of total reads
284129213
Reads aligned (%)
74.7
Duplicates removed (%)
80.6
Number of peaks
0 (qval < 1E-05)

Base call quality data from DBCLS SRA