Sample information curated by ChIP-Atlas

Antigen

Antigen Class
DNase-seq
Antigen
DNase-Seq

Cell type

Cell type Class
Cell line
Cell type
S2
Source
Oregon R
Developmental Stage
late embryonic stage

Attributes by original data submitter

Sample

source_name
S2 cells
cell type
S2 cells

Sequenced DNA Library

library_strategy
DNase-Hypersensitivity
library_source
GENOMIC
library_selection
DNase
library_construction_protocol
5-7 10^7 cells were harvested. DNase treatment was done as in (L. Cappabianca, H. Thomassin, R. Pictet, T. Grange, Genomic footprinting using nucleases., Methods in molecular biology (Clifton, N.J.) 119, 427-42 (1999)). For size selection (~120bp) a sucrose gradient was emplyed (SW TI40, 30000rpm, 16h). Library was constructed following instructions of NEBNext® DNA Library Prep Reagent Set for Illumina® (NEB; cat. no. E6000L). Library amplifcation was done using KAPA Library Amp Real Time (KAPA biosystems: cat.no. KK2701).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

dm6

Number of total reads
26418262
Reads aligned (%)
90.7
Duplicates removed (%)
70.9
Number of peaks
13396 (qval < 1E-05)

dm3

Number of total reads
26418262
Reads aligned (%)
92.8
Duplicates removed (%)
67.2
Number of peaks
18289 (qval < 1E-05)

Base call quality data from DBCLS SRA