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Series GSE181770 Query DataSets for GSE181770
Status Public on Aug 15, 2021
Title A chromatin immunoprecipitation database for prokarytic organisms [fur]
Organisms Escherichia coli; Klebsiella pneumoniae; Shigella flexneri; Yersinia pseudotuberculosis; Salmonella enterica
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Bacterial transcription factors (TFs) regulate gene expression to adapt to changing environments; when combined, the TF’s regulatory actions comprise transcriptional regulatory networks (TRNs). The chromatin immunoprecipitation (ChIP) assay is the major contemporary method for mapping in vivo protein-DNA interactions in the genome. It enables the genome-wide study of transcription factor binding sites (TFBSs) and gene regulation. Although rapidly accumulating publicly-available ChIP data are a valuable resource for the study of gene regulation, there are no full datasets of ferric uptake regulator (Fur) across gram-negative bacteria. Here, we present the genome-wide binding for Fur in multi-species.
 
Overall design Identification of genome-wide Fur bindings for transcription factors in multi-species using ChIP-exo technology
 
Contributor(s) Gao Y, Palsson B
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Submission date Aug 10, 2021
Last update date Aug 20, 2021
Contact name Ye Gao
E-mail(s) yeg002@ucsd.edu
Organization name UCSD
Street address 9500 Gilman Dr.
City La Jolla
ZIP/Postal code 92093
Country USA
 
Platforms (5)
GPL18133 Illumina HiSeq 2500 (Escherichia coli)
GPL25164 Illumina HiSeq 2500 (Klebsiella pneumoniae)
GPL25905 Illumina HiSeq 2500 (Shigella flexneri)
Samples (14)
GSM5511114 EDL933_Fur_1
GSM5511115 EDL933_Fur_2
GSM5511116 Klebsiella_Fur_1
This SubSeries is part of SuperSeries:
GSE182079 A chromatin immunoprecipitation database for prokarytic organisms
Relations
BioProject PRJNA753324
SRA SRP331859

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE181770_RAW.tar 556.7 Mb (http)(custom) TAR (of GFF)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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