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Sample GSM4083699 Query DataSets for GSM4083699
Status Public on Dec 20, 2019
Title PAO1_Erf_I_3
Sample type SRA
 
Source name purified genomic DNA from liquid cultures
Organism Pseudomonas aeruginosa
Characteristics strain: PAO1
erfa origin: P. aeruginosa
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
PAO1_processed.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: IHMA879472, PAO1b, PA23, CHA0, KT2440
Supplementary_files_format_and_content: excel table, MACS2 analysis results with closest features
 
Submission date Sep 18, 2019
Last update date Dec 20, 2019
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)
GSE137648 Determination of ErfA regulon by DAP-seq in several Pseudomonas species
Relations
BioSample SAMN12781116
SRA SRX6865341

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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