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Series GSE159734 Query DataSets for GSE159734
Status Public on Mar 11, 2021
Title ChAP-seq analysis to identify GoxR binding sites
Organism Gluconobacter oxydans
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Gene expression in the obligatory aerobic acetic acid bacterium Gluconobacter oxydans was shown to respond to oxygen limitation, but the regulators involved are unknown. In this study, we analyzed the function of a transcriptional regulator named GoxR, which belongs to the FNR family. Here, we applied ChAP-seq analysis with a strep-tagged GoxR version to identify binding sites of this regulator in the genome of G. oxydans.
Overall design For ChAP-seq the strain G. oxydans 621H::goxR-strep was constructed. This strain was cultivated aerobically. After harvesting of the cells, the pellet was treated with formaldehyde to perform cross-linking between bound proteins and the DNA. Afterwards, DNA bound to Strep-tagged GoxR was purified and submitted to sequencing.
Contributor(s) Kranz A, Bott M
Citation(s) 33741613
Submission date Oct 21, 2020
Last update date Jun 10, 2021
Contact name Angela Kranz
Organization name Forschungszentrum Jülich GmbH
Department IBG-1: Biotechnology
Street address Wilhelm-Johnen-Strasse
City Jülich
State/province NRW
ZIP/Postal code 52425
Country Germany
Platforms (1)
GPL28332 Illumina MiSeq (Gluconobacter oxydans)
Samples (1)
GSM4838872 621H::goxR-strep_ChAP
BioProject PRJNA670347
SRA SRP287951

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE159734_RAW.tar 10.0 Kb (http)(custom) TAR (of TSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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