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Sample GSM7048133

Query DataSets for GSM7048133

Status

Public on May 24, 2023

Title

Dam-only control, larval NSCs, rep1

Sample type

SRA

Source name

3rd instar larval brains

Organism

Drosophila melanogaster

Characteristics

tissue: 3rd instar larval brains
gal4 driver: wor-GAL4
cell type: neuroblasts (neural stem cells, NSCs)

Extracted molecule

genomic DNA

Extraction protocol

Following sample collection, genomic DNA was extracted, cut with DpnI and cut fragments isolated. DamID adaptors were ligated to the isolated DNA, fragments were digested with DpnII, and amplified via PCR before next-generation sequencing library preparation.
2 µg DNA was sonicated in a Bioruptor Plus (Diagenode). DamID adaptors were removed by AlwI digestion, and 500 ng of the resulting fragments end-repaired with a mix of enzymes (T4 DNA ligase (NEB) + Klenow Fragment (NEB) + T4 polynucleotide kinase (NEB)), A-tailed with Klenow 3’ to 5’ exo- (NEB), ligated to Illumina TruSeq LT adaptors using Quick Ligase enzyme (NEB) and amplified via PCR with NEBNext Hi-fidelity enzyme (NEB).

Library strategy

OTHER

Library source

genomic

Library selection

other

Instrument model

DNBSEQ-G400

Description

Dam_worG4_N1

Data processing

All FASTQ files were processed with damidseq_pipeline v1.5.3, using default options and aligned to DmR6.
Peak calls were made using find_peaks v1.0.3, default options.
Assembly: DmR6
Supplementary files format and content: Score column in bedgraph files represents scaled, normalised log2 enrichment of Dam-fusion over control.
Supplementary files format and content: peaks.gff
Library strategy: DamID-seq

Submission date

Feb 15, 2023

Last update date

May 24, 2023

Contact name

Owen Marshall

E-mail(s)

[email protected]

Organization name

Menzies Institute for Medical Research

Street address

17 Liverpool St