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Series GSE219071 Query DataSets for GSE219071
Status Public on Jun 11, 2024
Title mDRIP-seq is a high-throughput method for quantitative R-loop landscape profiling
Organisms Escherichia coli; Arabidopsis thaliana; Oryza sativa; Saccharomyces cerevisiae; Homo sapiens; Mus musculus
Experiment type Other
Expression profiling by high throughput sequencing
Summary Current methods for R-loop profiling need to perform experiments for each sample individually, with consequent limitations in throughput. Here, based on the barcoding strategy, we develop mDRIP-seq, a high-throughput method showing equivalent performance as conventional methods, but with merits of 7-fold less cost and 6-fold less hand-on time per sample. We also show the simplicity and effectiveness of mDRIP-seq for relative and absolute quantitation of genomic R-loop fractions for multiple samples. Together, mDRIP-seq is a high-throughput and cost-efficient method for R-loop mapping and quantitative assessment that can be widely applied to large-scale dynamic profiles of these important structures for diverse organisms.
Overall design Refer to individual Series
Citation(s) 38821747
Submission date Nov 30, 2022
Last update date Jun 12, 2024
Contact name Changbin Sun
Organization name Chinese Academy of Agricultural Sciences
Department Agricultural Genomics Institute at Shenzhen
Lab Guangdong Laboratory of Lingnan Modern Agriculture
Street address Dapeng
City Shenzhen
ZIP/Postal code 518120
Country China
Platforms (6)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
GPL25368 Illumina NovaSeq 6000 (Escherichia coli)
Samples (384)
GSM6767004 S1-mDRIP-seq-Input-HEK293T-cDNA
GSM6767005 S2-mDRIP-seq-Input-HEK293T-cDNA
GSM6767006 S1-mDRIP-seq-HEK293T-cDNA
This SuperSeries is composed of the following SubSeries:
GSE219068 mDRIP-seq: a high-throughput method for R-loop mapping and quantitative assessment
GSE219069 ssDRIP-seq: a high-throughput method for R-loop mapping and quantitative assessment
GSE219070 RNA-seq for HEK293T: a high-throughput method for R-loop mapping and quantitative assessment
BioProject PRJNA906979

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

Supplementary file Size Download File type/resource
GSE219071_RAW.tar 19.2 Gb (http)(custom) TAR (of BW, TXT)
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