Curated Sample Data


Genome
dm3
Antigen Class
Input control
Antigen
Input control
Cell type Class
Cell line
Cell type
S2

Cell type information


Source
Oregon R
Developmental Stage
late embryonic stage

Attributes by Original Data Submitter


source_name
Dm_S2cell_ChIPseq_GST_RNAi_Input
cell line background
S2 cells
genotype/variation
S2 stable cell line:MtnA-dBRD4-S-FLAG-Biotin
knockdown or inhibitor treatment
control RNAi (GST)
chip antibody
NA

Metadata from Sequence Read Archive

Library Description


library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
cells were fixed for 10min in 1.8% of formaldehyde at 23 °C, nuclei were isolated, chromatin was fragmented by sonication (Covaris), The lysate was clarified by centrifugation before immunoprecipitation, and eluted by reverse crosslinking at 65deg for 14h. After RNaseA and ProteinaseK treatment, the DNA from Input and Immunoprecipitation was purified using AMPure XP Beads (Beckman Coulter); for Rpb3 ChIP experiments Drosophila Virilis chromatin was added prior to IP as spike control. For Biotin ChIP experiments exogenous Biotin-labeled DNA fragments were added prior to IP as spike control. NEB Next Ultra II

Platform Information


instrument_model
Illumina HiSeq 3000

External Database Query

Logs in read processing pipeline


Number of total reads
6308108
Reads aligned (%)
95.2
Duplicates removed (%)
5.1
Number of peaks
1516 (qval < 1E-05)

Sequence Quality Data from DBCLS SRA