Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Max

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
Max ChIP-seq (Drosophila S2 cells) Rep 1
cell line
Schneider 2 cells
chip antibody
anti-Max rabbit polyclonal, Santa Cruz Technology, catalog # sc-28209, lot # D-2504
multiplex barcode
TGACCA

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
cells were cross-linked in 1.0% formaldehyde. Cells were then lysed by lysis buffer to extract nuclei. Chromatin was sonicated by bioruptor to an average size of 300~500 bp. 300 ul soluble chromatin from ~ 20 million cells was used DNA-protein-complexes were isolated with specific antibodies. Sequencing libraries were prepared following Illumina's instructions: DNA was end repaired using T4 DNA polymerase, DNA polymerase I large fragment (Klenow polymerase) and T4 polynucleotide kinase. A single 3'-A overhang was added to the blunted ends using Klenow 3'-5' exo- polymerase. Adapters with single 3'-T overhangs were ligated to the adenylated fragments, and after a size-selection step using AmPure beads (200-250 bp) the adapter modified DNA was PCR-amplified. Following cluster generation on the flowcell surface, the sequencing libraries were sequenced following Illumina's protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

dm3

Number of total reads
32907349
Reads aligned (%)
9.7
Duplicates removed (%)
74.0
Number of peaks
7113 (qval < 1E-05)

dm6

Number of total reads
32907349
Reads aligned (%)
9.4
Duplicates removed (%)
74.7
Number of peaks
7098 (qval < 1E-05)

Base call quality data from DBCLS SRA