Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Rbp1

Cell type

Cell type Class
Cell line
Cell type
S2R+
Source
Oregon R
Developmental Stage
late embryonic stage

Attributes by original data submitter

Sample

source_name
cell culture
antibody
RBP1 (Diagenode Cat No-15200004) / Lot No 001-11
cell type
Embryonic
cell line
S2R+ Cells

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
S2R+ cells were fixed with 1% formaldehyde for 3 min at room temperature, and harvested in SDS buffer resuspended in RIPA buffer (140 mM NaCl, 10 mM Tris-HCl [pH 8.0], 1 mM EDTA, 1% Triton X-100, 0.1% SDS, 0.1% DOC), and lysed by sonication. The lysate was cleared by centrifugation, and incubated with respective antibodies overnight at 4ºC. Antibody complexes bound to protein G beads, were washed once with 140mM RIPA, four times with 500mM RIPA, one with LiCl buffer and twice with T.E buffer for 10 minutes each at 4ºC. After checking enrichment the recovered DNA was converted into libraries using NebNext Ultra DNA library preperation kit, following manufacturer's protocol NebNext UltraII

Sequencing Platform

instrument_model
NextSeq 500

dm6

Number of total reads
13597571
Reads aligned (%)
90.0
Duplicates removed (%)
4.5
Number of peaks
7595 (qval < 1E-05)

dm3

Number of total reads
13597571
Reads aligned (%)
90.1
Duplicates removed (%)
4.2
Number of peaks
8368 (qval < 1E-05)

Base call quality data from DBCLS SRA