Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Trl

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
RNAi treatment
CLAMP
chip antibody
rabbit anti-GAF

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were cross linked in 1% formaldehyde and quenched with glycine prior to incubation in lysis buffer, and sonicated six times with 5 min cycles of 30s on/off o a Bioruptor sonicator. Samples were immunoprecipitated with either GAF, CLAMP, or MSL3 antibodies, and DNA clean-up was performed including RNase and Proteinase-K digestion steps. Libraries were prepared using the NEBNext Ultra II DNA library prep kit

Sequencing Platform

instrument_model
Illumina HiSeq 2500

dm3

Number of total reads
22527570
Reads aligned (%)
97.4
Duplicates removed (%)
24.3
Number of peaks
5957 (qval < 1E-05)

dm6

Number of total reads
22527570
Reads aligned (%)
97.2
Duplicates removed (%)
26.3
Number of peaks
5932 (qval < 1E-05)

Base call quality data from DBCLS SRA