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Series GSE98542 Query DataSets for GSE98542
Status Public on May 10, 2017
Title Methyl-Spec-seq control data sets
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Summary We developed a novel in-vitro experimental method to characterize the protein-DNA interaction specificity and methylation sensitivity, we called Methyl-Spec-seq. In this data set, mouse ZFP57 (F1-F3) was used as a positive control example to show that Methyl-Spec-seq can determine the relative binding energy for variants with different methylation property, i.e., unmethylated, top hemimethylated, bottom hemimethylated, duplex methylated by either chemical synthesis or enzymatic treatment.
 
Overall design Except different methylation types of DNA, the overall design is the same as conventional Spec-seq, which we have published work before.
 
Contributor(s) Zuo Z
Citation(s) 29159284
Submission date May 04, 2017
Last update date May 15, 2019
Contact name Zheng Zuo
E-mail(s) zeropin@live.cn
Organization name Stanford university
Department Genetics
Street address Stanford
City Palo Alto
State/province CA
ZIP/Postal code 94040
Country USA
 
Platforms (1)
GPL16417 Illumina MiSeq (Mus musculus)
Samples (6)
GSM2598428 ZFP57.bound
GSM2598429 ZFP57.unbound
GSM2598430 CTCF.sample1.bound
Relations
BioProject PRJNA385481
SRA SRP106458

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
GSE98542_CTCF_sample1_processed.xlsx.gz 210.9 Kb (ftp)(http) XLSX
GSE98542_CTCF_sample2_processed.xlsx.gz 117.1 Kb (ftp)(http) XLSX
GSE98542_ZFP57_processed.xlsx.gz 59.8 Kb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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