Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K9me3

Cell type

Cell type Class
Cell line
Cell type
OSC
Tissue Source
ovary
Developmental Stage
adult stage

Attributes by original data submitter

Sample

source_name
ovarian somatic cells (OSC)
strain/cell line background
OSC
tissue/cell type
ovarian somatic cells (OSC)
genotype/variation
transfected with dna sensor and LacI-Piwi
chip antibody
anti-H3K9me3 (Active Motif #39161)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For samples 1-24: Samples were crosslinked in formaldehyde and lysed, followed by sonication. For samples 25-32: OSCs were resuspended in Trizol, flies homogenized in Trizol. RNA was isolated using RNeasy mini prep column (Qiagen). For samples 33-36: Flies were homogenized in Trizol and RNA extracted using Phenol/Chloroform For samples 1-24: NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® For samples 25-32: NEBNext Poly(A) mRNA magnetic Isolation Module (NEB), followed by NEBNext Ultra Directional RNA Library Prep kit for Illumina (NEB) For samples 33-36: Adapted from: Jayaprakash, Anitha D. et al. “Identification and Remediation of Biases in the Activity of RNA Ligases in Small-RNA Deep Sequencing.” Nucleic Acids Research 39.21 (2011): e141. PMC. Web. 22 Oct. 2018.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

dm6

Number of total reads
19809513
Reads aligned (%)
97.8
Duplicates removed (%)
42.3
Number of peaks
8120 (qval < 1E-05)

dm3

Number of total reads
19809513
Reads aligned (%)
98.4
Duplicates removed (%)
34.9
Number of peaks
15086 (qval < 1E-05)

Base call quality data from DBCLS SRA