Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BigH1

Cell type

Cell type Class
Embryo
Cell type
0-2h embryos
NA
NA

Attributes by original data submitter

Sample

source_name
Early Embryo
stock
w1118
developmental stage
early 0-2 hpf embryos
chip antibody
anti-dBigH1 (Perez-Montero et al., 2013)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Embryos were collected in peach juice plates at 0-2 hours after fertilization (for details see Materials and Methods section in Pérez-Montero et al., 2013). ChIP-seq, library construction, cluster generation and Sequencing analysis were performed using the Illumina HiSeq2000, sequencing type SR50, following manufacture's protocols (www.illumina.com). In brief, libraries were prepared using Illumina's ChIP-Seq Sample Prep Kit from 3.5 ng of ChIP/Input DNA. Samples were size selected to ̴300-350 bp using DNA magnetic beads. Adaptor-modified DNA fragments were subjected to limited PCR amplification (18 cycles). Using Illumina's Cluster Generation Kit, libraries were subject to cluster generation for subsequent sequencing.

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

dm3

Number of total reads
28417347
Reads aligned (%)
29.9
Duplicates removed (%)
14.8
Number of peaks
1932 (qval < 1E-05)

dm6

Number of total reads
28417347
Reads aligned (%)
28.7
Duplicates removed (%)
17.3
Number of peaks
810 (qval < 1E-05)

Base call quality data from DBCLS SRA