Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TfIIB

Cell type

Cell type Class
Cell line
Cell type
Kc167
Source
e/se
Developmental Stage
dorsal closure stage

Attributes by original data submitter

Sample

source_name
Kc167 cells
cell line
Kc167 cells
chip antibody
anti-TFIIB rabbit polyclonal, Kadonaga lab
illumina multiplex barcode
ACAGTG

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. Chromatin was sonicated by bioruptor to an average size of 300~500 bp. ~ 20 million cells was used for one ChIP-nexus DNA-protein-complexes were isolated with specific antibodies. Sequencing libraries were prepared following Illumina's instructions: DNA was end repaired using NEBNext End repair module. A single 3'-A overhang was added to the blunted ends using NEBNext dA-Tailing module. 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 2500

dm3

Number of total reads
44828488
Reads aligned (%)
90.8
Duplicates removed (%)
74.2
Number of peaks
13290 (qval < 1E-05)

dm6

Number of total reads
44828488
Reads aligned (%)
90.7
Duplicates removed (%)
75.9
Number of peaks
12541 (qval < 1E-05)

Base call quality data from DBCLS SRA