|
| Status |
Public on Oct 01, 2020 |
| Title |
PA0535_3 |
| Sample type |
SRA |
| |
|
| Source name |
Purified genomic DNA from liquid cultures
|
| Organism |
Pseudomonas aeruginosa PAO1 |
| Characteristics |
protein: PA0535
|
| Treatment protocol |
None
|
| Growth protocol |
None
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Purified proteins bound to magnetic beads were incubated with adaptor-ligated sheared genomic DNA. After washes and isolation of bead-protein-DNA complexes, the bound DNA regions were eluted by heating and then used for library preparation.
DNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Adaptor-ligated sheared genomic DNA
DAPseq_7XRE.xlsx
|
| Data processing |
Library strategy: DAP-seq
Read trimming using Trimmomatic.
Alignment using Bowtie2.
Peak calling using MACS2.
Closest features called with BEDtools.
Genome_build: PAO1
Supplementary_files_format_and_content: DAPseq_7XRE.xlsx: Excel table, MACS2 analysis results with closest features.
|
| |
|
| Submission date |
Jul 31, 2020 |
| Last update date |
Oct 01, 2020 |
| Contact name |
Julian Trouillon |
| Organization name |
ETH Zurich
|
| Department |
Institute of Molecular Systems Biology
|
| Street address |
Otto-Stern-Weg 3
|
| City |
Zurich |
| ZIP/Postal code |
8093 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL23999 |
| Series (2) |
| GSE155522 |
Determination of the regulons of 7 XRE-cupin regulators by DAP-seq |
| GSE155523 |
Determination of the regulons of 7 XRE-cupin regulators |
|
| Relations |
| BioSample |
SAMN15690783 |
| SRA |
SRX8862538 |
