Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Larvae
Cell type
Imaginal wing disc
NA
NA

Attributes by original data submitter

Sample

source_name
Undamaged Wing Disc
developmental stage
Third instar larvae
tissue
wing disc

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
We used 10 wing discs of each genotype (regeneration and control) and condition (0h, 15h, 25h) as well as third instar larva (L3). Samples were lysed in Lysis Buffer (10 mM Tris-HCl, pH 7.4, 10 mM NaCl, 3 mM MgCl2, 0.1% NP40) by gently pipetting. Lysates were centrifuged for 10min at 500g to isolate the nuclei. Nuclei were resuspended and incubated for 30 min at 37⁰C in transposition reaction mix (Illumina). Right after the transposition reaction, samples were purified using Qiagen MinElute Kit and eluted in Elution Buffer (10mM Tris buffer, pH8). For library preparation we amplified the transposed DNA fragments by running a conventional PCR (5 min at 72⁰C, 2.5 min at 95 ⁰C, thermoycling 13 cycles 20 sec at 98⁰C, 15 sec at 63⁰C and 1 min at 72⁰C) with Nextera barcoded primers. Libraries were purified using Qiagen PCR CleanUP Kit and eluted in Elution Buffer. Illumina Nextera

Sequencing Platform

instrument_model
Illumina HiSeq 2500

dm6

Number of total reads
36511208
Reads aligned (%)
88.2
Duplicates removed (%)
16.1
Number of peaks
13700 (qval < 1E-05)

dm3

Number of total reads
36511208
Reads aligned (%)
88.3
Duplicates removed (%)
15.5
Number of peaks
13788 (qval < 1E-05)

Base call quality data from DBCLS SRA