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Sample GSM5403064 Query DataSets for GSM5403064
Status Public on Jul 27, 2021
Title CS13_ParR-IHMA87_03330_IHMA87_rep1
Sample type SRA
 
Source name purified genomic DNA from liquid cultures
Organism Pseudomonas aeruginosa
Characteristics strain: IHMA87
Extracted molecule genomic DNA
Extraction protocol After cell-fre protein expression, soluble His-tagged proteins were bound to cobalt magnetic beads and 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
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, PA14, IHMA87
Supplementary_files_format_and_content: excel table, list of RRs binding to the promoter region of each gene
 
Submission date Jun 27, 2021
Last update date Jul 27, 2021
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 GPL21297
Series (1)
GSE179001 Determination of the regulons of 55 response regulators from P. aeruginosa by DAP-seq
Relations
BioSample SAMN19906758
SRA SRX11238850

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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