|
| Status |
Public on Sep 11, 2020 |
| Title |
Tdc2-Gal4;UAS-Dam_Lola-O_1 |
| Sample type |
SRA |
| |
|
| Source name |
Embryo
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: 22+/- 2 hours after fertilization
genotype: Tdc2-Gal4; UAS-Dam-Lola-O
treatment: Dam methylase
tissue: Embryo
|
| Treatment protocol |
Embryos were collected for two hours at 25°C and subsequently developed for 20 hours, collected and frozen.
|
| Growth protocol |
Flies were maintained on apple juice plates supplemented with fresh yeast.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated,RNAseA treated and DpnI digested. DamID adaptors were ligated to DpnI digested DNA followed by DpnII digestion PCR amplification, sonication and removal of DamID adaptors (Marshall et al., 2016).
Libraries were generated using the NebNext Ultra II DNA Library Kit
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Dam-Lola-O fusion protein expressed in octopaminergic neurons
|
| Data processing |
Library strategy: DamID-seq
The forward sequencing reads were mapped to release 6 of the Drosophila genome using Bowtie2 (see PMID: 26112292 for details of the damidseq_pipeline)
Reads were extended to adjacent GATC sites and binned for each GATC fragment
GATC fragments without any reads were excluded, followed by quantile normalization and pseudocount addition.
Ratio files (log2) were then generated from the experimental and Dam-only control data.
Genome_build: BDGP6
Supplementary_files_format_and_content: log2 normalized fold changes between the experimental and Dam-only control as bigwig tracks (converted from the gff file produced by the damidseq_pipeline)
|
| |
|
| Submission date |
Sep 11, 2017 |
| Last update date |
Sep 11, 2020 |
| Contact name |
Jean-Yves Roignant |
| Organization name |
Institute of molecular Biology
|
| Lab |
Roignant
|
| Street address |
Ackermannweg 4
|
| City |
Mainz |
| ZIP/Postal code |
55128 |
| Country |
Germany |
| |
|
| Platform ID |
GPL19132 |
| Series (2) |
|
| Relations |
| BioSample |
SAMN07629602 |
| SRA |
SRX3176350 |
