|
| Status |
Public on Oct 26, 2023 |
| Title |
EE_Dam_5 |
| Sample type |
SRA |
| |
|
| Source name |
EE
|
| Organism |
Drosophila melanogaster |
| Characteristics |
cell line: EE
cell type: Intestinal cells
genotype: prosGal4ts_ UAS_Dam
time: 24h induction at 29°C
|
| Growth protocol |
Flies were kept at 18°C for crosses and during beginning of adulthood. At 3 day old flies were shifted to 29°C for 1 day to induce Dam transgen expression
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
For each replicate, DNA was extracted from 60 dissected guts via Qiagen QIAmp DNA Micro Kit following manufacturers' instructions,
Extracted DNA was digested with DpnI, ligated with DamID adaptors, digested with DpnII before PCR amplification. DNA was sonicated to 300bp, adaptors were removed with AlwI and end-repaired and A-tailed. Sequencing adaptors were ligated to the fragments before PCR amplification.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
damidseq_pipeline script was used to align the reads in fastq files to Drosophila melanogaster reference genome 6.
Each replicate were normalized to its associated Dam alone replicate (log2 ratio of Dam-fusion/Dam alone)
Assembly: Flybase, release 6.13
Supplementary files format and content: bedgraph, gff
|
| |
|
| Submission date |
Feb 09, 2023 |
| Last update date |
Oct 26, 2023 |
| Contact name |
Allison Bardin |
| E-mail(s) |
allison.bardin@curie.fr
|
| Organization name |
Institut Curie
|
| Street address |
26 rue d'Ulm
|
| City |
Paris |
| ZIP/Postal code |
75005 |
| Country |
France |
| |
|
| Platform ID |
GPL17275 |
| Series (2) |
| GSE224965 |
Chromatin state transitions in the Drosophila intestinal lineage reveal principles of cell type specification [DamID] |
| GSE224967 |
Chromatin state transitions in the Drosophila intestinal lineage reveal principles of cell type specification |
|
| Relations |
| BioSample |
SAMN33228595 |
| SRA |
SRX19323704 |
