Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Cp190

Cell type

Cell type Class
Larvae
Cell type
3rd instar
NA
NA

Attributes by original data submitter

Sample

source_name
Third instar larvae
genotype/variation
wild type
sample type
IP
chip antibody
CP190

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from crosslinked and sonicated larval tissues and chromatin complexes were isolated with 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 HiSeq 2000

dm3

Number of total reads
41739672
Reads aligned (%)
57.7
Duplicates removed (%)
59.8
Number of peaks
4413 (qval < 1E-05)

dm6

Number of total reads
41739672
Reads aligned (%)
55.6
Duplicates removed (%)
62.1
Number of peaks
4030 (qval < 1E-05)

Base call quality data from DBCLS SRA