Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
trx

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
cell type
embryo-derived
passages
Low passages (6-10)
cell line
S2
chip antibody
TrxCT (homemade)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
DNA after ChIP protocol was isolated using QIAGEN PCR purification kit. ChIP-sequencing libraries were prepared using the KAPA HTP Library Preparation Kit complemented with NEXTflex DNA Barcodes from Bioo Scientific. 10 ng of DNA was used as starting material for input and ip samples. Libraries were amplified using 13 cycles on the thermocycler. Post amplification libraries were size selected at 250- 450bp in length using Agencourt AMPure XP beads from Beckman Coulter. Libraries were validated using the Agilent High Sensitivity DNA Kit.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

dm3

Number of total reads
6321801
Reads aligned (%)
91.7
Duplicates removed (%)
4.2
Number of peaks
3128 (qval < 1E-05)

dm6

Number of total reads
6321801
Reads aligned (%)
89.8
Duplicates removed (%)
5.9
Number of peaks
3058 (qval < 1E-05)

Base call quality data from DBCLS SRA