Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Adult
Cell type
Ovary
NA
NA

Attributes by original data submitter

Sample

source_name
Drosophila melanogaster ovaries
genotype
lid KD (MTD-Gal4>shRNA lid)
tissue
ovaries dissected from 3 day-old females
chip antibody
H3K4me3 (abcam ab8580)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Pairs of ovary from young (0-1 day old) virgin female were dissected in PBS buffer. Ovaries were cross-linked with 1.8% formaldehyde and nuclei were extracted by tissue homogeneization using Dounce with glass pistone (loose 4 times and tight 8 times) in total 10 min incubation at room temperature.Crosslinking was quenched by adding 125mM glycine followed by incubation for 5 min. Crosslinked isolated Nuclei were lysed in presence of 0.5% SDS and chromatin supernatant was sonicated using Bioruptor (18 cycles, 30s ON/30s OFF). H3K4me3-DNA complexes were isolated with antibody. Libraries were synthesized using Diagenode MicroPlex Library Preparation kit v2 Instruction Manual, version v.2 02.15

Sequencing Platform

instrument_model
Illumina HiSeq 4000

dm6

Number of total reads
44776108
Reads aligned (%)
98.5
Duplicates removed (%)
9.9
Number of peaks
13838 (qval < 1E-05)

dm3

Number of total reads
44776108
Reads aligned (%)
98.5
Duplicates removed (%)
9.7
Number of peaks
13966 (qval < 1E-05)

Base call quality data from DBCLS SRA