Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
grh

Cell type

Cell type Class
Embryo
Cell type
13-16h embryos
NA
NA

Attributes by original data submitter

Sample

source_name
13-16h embryos
strain
w1118
developmental stage
13-16h embryos
chip antibody
rabbit anti-Grh antibody

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Embryos were homogenized and fixed in 1.8% formaldehyde at room temperature. After several washes, chromatin in lysis buffer was sonicated to a length range of 0.1kb-0.5kb. For each immunoprecipitation, sheared chromatin was precleared with Gammabind G agarose coated with BSA and incubated with pre-absorbed rabbit anti-Grh antibody, mouse anti-Grh antibody or rabbit IgG. Precipitated complexes were washed, eluted, and cross-links were reversed at 65°C. After Proteinase K treatment, DNA was purified using QIAprep Spin columns and recovered in 50 μl of elution buffer containing RNase A. DNA libraries were made using the Illumina ChIP-seq library kit

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

dm3

Number of total reads
39084580
Reads aligned (%)
48.3
Duplicates removed (%)
35.3
Number of peaks
19879 (qval < 1E-05)

dm6

Number of total reads
39084580
Reads aligned (%)
47.7
Duplicates removed (%)
36.0
Number of peaks
20726 (qval < 1E-05)

Base call quality data from DBCLS SRA