Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Ibf2

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
sample type
IP
cell line
S2
chip antibody
CG9740

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with rat αIbf-1 and αIbf-2 and rabbit aCP190 polyclonal antibodies. Finally DNA was purified by standard phenol extraction. 10 ng DNA, quantified by Qubit dsDNA HS Assay Kit (Invitrogen) was used for library preparation. Endrepair, adenylation, ligation of adapters and PCR enrichment for 18 cycles was performed using TruSeqRNA Sample Prep Kit (Illumina) according to manufacturer’s recommendations. Purified libraries were quantified by Qubit dsDNA HS Assay Kit (Invitrogen) and size distribution was evaluated using Bioanalyzer DNA 1000 assay (Agilent).

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

dm3

Number of total reads
8424939
Reads aligned (%)
72.4
Duplicates removed (%)
22.7
Number of peaks
3996 (qval < 1E-05)

dm6

Number of total reads
8424939
Reads aligned (%)
70.1
Duplicates removed (%)
24.0
Number of peaks
3343 (qval < 1E-05)

Base call quality data from DBCLS SRA