GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE130726 Query DataSets for GSE130726
Status Public on Sep 20, 2019
Title High-Throughput Single-Molecule R-loop Footprinting Reveals Principles of R-loop Formation
Organisms Escherichia coli; Homo sapiens
Experiment type Other
Summary We have successfully characterized R-loop structures using non-denaturing bisulfite treatment coupled with single-molecule sequencing to reveal that R-loops form defined overlapping molecular clusters around promoter, gene body, and terminal regions of genes. Our results uncovers that R-loop formation is both driven by favorable DNA sequence as well as topological state.
Overall design Characterization of R-loop formation of targeted human genes using single-molecule R-loop footprinting couple with Pacific Bioscience's long-read sequencing (SMRF-seq)
Contributor(s) Malig M, Hartono SR, Giafaglione J, Sanz LA, Chédin F
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date May 05, 2019
Last update date Sep 20, 2019
Contact name Frederic Chedin
Organization name UC Davis
Department MCB
Lab Chedin
Street address 1 Shields Avenue
City Davis
State/province CA
ZIP/Postal code 95616
Country USA
Platforms (3)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
GPL21311 PacBio RS II (Homo sapiens)
GPL24462 PacBio RS II (Escherichia coli)
Samples (8)
GSM3772631 All samples combined
GSM3772632 DRIP enriched
GSM3772633 DRIP independent
BioProject PRJNA541182
SRA SRP195414

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
GSE130726_RAW.tar 119.0 Mb (http)(custom) TAR (of BIGWIG, GFF)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap