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Title: Psoralen binding across the Escherichia coli chromosome      
dateReleased:
03-22-2016
description:
We used trimethylpsoralen intercalation to map supercoiling across the E. coli chromosome. We treated E. coli cells with trimethylpsoralen and exposed them to UV light. Psoralen enters cells, intercalates between DNA base pairs, and crosslinks the two strands of DNA at a rate proportional to the local superhelical density. We then fragmented DNA and hybridized crosslinked and non-crosslinked DNA fragments separately to tiling microarrays. In total 14 samples; 6 for wild-type in stationary phase (3 replicates x 2 samples as there are crosslinked and non-crosslinked samples for each replicate); 4 for wild-type in mid-exponential phase (2 replicates x 2 samples); 4 for the delta hupAB mutant in stationary phase (2 replicates x 2 samples)
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-GEOD-77687
refinement:
raw
alternateIdentifiers:
77687
keywords:
functional genomics
dateModified:
03-26-2016
availability:
available
types:
gene expression
name:
Escherichia coli str. K-12 substr. MG1655
ID:
A-GEOD-8585
name:
Tavazoie Vora Escherichia coli Affy tiling 2009
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-77687/E-GEOD-77687.raw.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-77687/E-GEOD-77687.processed.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE77687
storedIn:
Gene Expression Omnibus
qualifier:
not compressed
format:
HTML
accessType:
landing page
primary:
true
authentication:
none
authorization:
none
abbreviation:
EBI
homePage: http://www.ebi.ac.uk/
ID:
SCR:004727
name:
European Bioinformatics Institute
homePage: https://www.ebi.ac.uk/arrayexpress/
ID:
SCR:002964
name:
ArrayExpress
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