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Series GSE112212 Query DataSets for GSE112212
Status Public on Jun 28, 2018
Title Nucleotide resolution genome-wide mapping of 8-oxoG damage
Organism Saccharomyces cerevisiae BY4741
Experiment type Other
Summary Single nucleotide resolution sequencing of DNA damage is required to decipher the complex causal link between the identity and location of DNA adduct and mutation patterns in the genome. We coupled the specificity of the repair enzyme with the efficiency of a one-pot click-DNA ligation reaction to insert a readable oligonucleotide code sequence. The biocompatible code enabled high-throughput, base resolution sequencing of the 8-oxoguanine site and thus have named the method click-code-seq. By applying click-code-seq to a eukaryotic (yeast) genome, we uncovered thousands of 8-oxoguanine sites with features and patterns suggesting a potential relationship to chromatin formation and transcription.
 
Overall design We sequenced the yeast (BY4741) genome during exponential growth in rich media to generate a nucleotide-resolution background map of 8-oxoG damage.
 
Contributor(s) Wu J, Sturla SJ
Citation(s) 29944356
Submission date Mar 22, 2018
Last update date Jun 30, 2018
Contact name Shana J. Sturla
E-mail(s) sturlas@ethz.ch
Organization name ETH Zurich
Department Department of Health Sciences and Technology
Street address Schmelzbergstrasse 9
City Zurich
ZIP/Postal code 8092
Country Switzerland
 
Platforms (1)
GPL21372 Illumina MiSeq (Saccharomyces cerevisiae BY4741)
Samples (3)
GSM3061025 WT.oxoG.rep1
GSM3061026 WT.oxoG.rep2
GSM3061027 WT.oxoG.rep3
Relations
BioProject PRJNA445275
SRA SRP136249

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
GSE112212_RAW.tar 4.3 Mb (http)(custom) TAR (of BEDGRAPH)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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