Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TfIIB

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
chip antibody
Drosophila TFIIB antibody from Jim Kadonaga (UCSD).

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
After fixation, the cells were washed and sonicated using a Bioruptor (Diagenode) to generate chromatin extract. Chromatin extract was mixed with Drosophila virilis chromatin, cleared by centrifugation and used in ChIP with anti-Drosophila TFIIB antibody, pre-bound to a mix of Protein A and G Dynabeads. TFIIB bound DNA was purified, and libraries prepared with NEBNext Ultra II DNA Library Prep Kit for Illumina. Illumina sequencing was performed at SciLifeLab, Stockholm, Sweden.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

dm3

Number of total reads
11653167
Reads aligned (%)
85.7
Duplicates removed (%)
6.5
Number of peaks
2166 (qval < 1E-05)

dm6

Number of total reads
11653167
Reads aligned (%)
85.2
Duplicates removed (%)
6.3
Number of peaks
1807 (qval < 1E-05)

Base call quality data from DBCLS SRA