|
| Status |
Public on Jun 04, 2019 |
| Title |
Myo1A_Ets21c-Dam_3 |
| Sample type |
SRA |
| |
|
| Source name |
Female adult intestine
|
| Organism |
Drosophila melanogaster |
| Characteristics |
gal4: Myo1A-Gal4 (EC)
uas: Dam-Ets21c-RA
condition: Mated, 72 hours at 29°C
|
| Growth protocol |
Virgins of esg-Gal4, UAS-GFP, tub-Gal80-TS and Myo1A-Gal4, UAS-GFP, tub-Gal80-TS were crossed to males of UAS-LT3-Dam, UAS-LT3-Dam-PolII and UAS-LT3-Dam-ets21c-RA. Crosses were kept at room temperature, adult offspring were collected for two days and mated for additional two days. Females were transferred to 29°C for three days to allow Dam-transgene expression.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA extraction from dissected midguts and sequencing of methylation-specific PCR amplicons was performed according to the Nature protocols on DamID-Seq published by Vogel et al. (2007) and Marshall et al. (2016).
Sequencing libraries were generated according to the Illumina protocol for ChIP-Seq library preparation. Samples were single-end sequenced on an Illumina HiSeq 2000 instrument at 50 bp read length.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
PCR product
|
| Data processing |
Sequencing data were processed using the damidseq_pipeline (Marshall and Brand, 2015) to generate normalized gff files.
Ets21c binding peaks were identified using a peak finding program based on one described by Wolfram et al. (2012).
Transcribed genes, based on Dam-PolII occupancy, were identified using a Perl script based on the one described by Southall et al. (2013).
Scripts are available on request from Tony D. Southall.
Genome_build: dm3 (D. melanogaster)
Supplementary_files_format_and_content: Peak
|
| |
|
| Submission date |
Nov 05, 2018 |
| Last update date |
Jun 04, 2019 |
| Contact name |
Mirka Uhlirova |
| E-mail(s) |
mirka.uhlirova@uni-koeln.de
|
| Organization name |
CECAD Research Center Cologne
|
| Department |
Institute for Genetics
|
| Lab |
Uhlirova Lab
|
| Street address |
Joseph-Stelzmann Str. 26
|
| City |
Cologne |
| State/province |
NRW |
| ZIP/Postal code |
50931 |
| Country |
Germany |
| |
|
| Platform ID |
GPL13304 |
| Series (1) |
| GSE122170 |
Identifying the transcriptional targets of the Drosophila transcription factor Ets21c via Targeted DamID |
|
| Relations |
| BioSample |
SAMN10380228 |
| SRA |
SRX4979900 |
