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Sample GSM2716286 Query DataSets for GSM2716286
Status Public on Nov 05, 2018
Title Sox21a-n3
Sample type SRA
 
Source name dissected adult midgut
Organism Drosophila melanogaster
Characteristics tissue: gut
developmental stage: adult
Extracted molecule genomic DNA
Extraction protocol DNA was extracted from dissected midguts via Qiagen Blood and Tissue kits as per manufacturers' instructions, digested with DpnI, DamID adaptors ligated, digested with DpnII and amplified via PCR.
DNA was sonicated to an average size of 300bp using a Diagenode Bioruptor and DamID adaptors removed via AlwI digestion. Sonnicated material was end-repaired, A-tailed, sequencing adaptors ligated and PCR amplified.
 
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina HiSeq 1500
 
Description DamID
Data processing Library strategy: DamID
FASTQ files were processed with damidseq_pipeline, version 1.4. Biological replicates in gatc.bedgraph format were averaged, and the averaged binding tracks used for further analysis.
Genes with significant RNA pol II occupancy were called via polii.gene.call v1.0.3
Peaks were called via find_peaks v1.0.2, default options
Genome_build: DMBDGP6
Supplementary_files_format_and_content: gatc.bedgraph files were generated using the damidseq_pipeline software, at GATC fragment resolution. Score represents the normalised log2(Dam-fusion/Dam) enrichment. Processed files are provided as both raw data and scaled data.
 
Submission date Jul 24, 2017
Last update date May 15, 2019
Contact name Owen Marshall
E-mail(s) owen.marshall@utas.edu.au
Organization name Menzies Institute for Medical Research
Street address 17 Liverpool St
City Hobart
State/province Tas
ZIP/Postal code 7000
Country Australia
 
Platform ID GPL19951
Series (1)
GSE101814 Drosophila intestinal stem and progenitor cells are major sources and regulators of homeostatic niche signals
Relations
BioSample SAMN07410618
SRA SRX3031149

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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