Curated Sample Data


Genome
dm3
Antigen Class
Input control
Antigen
Input control
Cell type Class
Adult
Cell type
Ovary

Cell type information


NA
NA

Attributes by Original Data Submitter


source_name
ovary
strain/cell line background
w1118
tissue/cell type
ovary
genotype/variation
Panx het KO
chip antibody
none

Metadata from Sequence Read Archive

Library Description


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.

Platform Information


instrument_model
Illumina HiSeq 4000

External Database Query

Logs in read processing pipeline


Number of total reads
25358795
Reads aligned (%)
97.2
Duplicates removed (%)
25.6
Number of peaks
367 (qval < 1E-05)

Sequence Quality Data from DBCLS SRA