Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Su(var)3-3

Cell type

Cell type Class
Adult
Cell type
Ovary
NA
NA

Attributes by original data submitter

Sample

source_name
anti-dLsd1_ovaries
genotype
w1118
tissue
ovary
chip antibody
dLSd1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Dissected ovaries were fixed in 1% formaldehyde, lysed and sonicated. Part of the lysate was kept for the input DNA, the rest was incubated with pre-immune serum or with the anti-dLsd1 antibody. Antibody complexes were recovered with a mixture of protein A- and G-Sepharose. The DNA was recovered by phenol-chloroform extraction and ethanol precipitation. For the library preparation, ChIP DNA (10 ng) was blunt-ended and phosphorylated, and a single 'A' nucleotide was added to the 3' ends of the fragments in preparation for ligation to an adapter that has a single-base 'T' overhang. The ligation products was purified and size-selected by agencourt AMPure XP beads. Purified DNA was PCR-amplified to enrich for fragments that have adapters on both ends.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

dm3

Number of total reads
39907980
Reads aligned (%)
74.8
Duplicates removed (%)
13.4
Number of peaks
0 (qval < 1E-05)

dm6

Number of total reads
39907980
Reads aligned (%)
73.3
Duplicates removed (%)
15.1
Number of peaks
2250 (qval < 1E-05)

Base call quality data from DBCLS SRA