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Series GSE120922 Query DataSets for GSE120922
Status Public on Dec 10, 2022
Title R-loop landscapes in Rice (Oryza sativa) [DRIP-seq]
Organism Oryza sativa
Experiment type Other
Summary The R-loop is a common chromatin feature presented from prokaryotic to eukaryotic genomes and has been revealed to be involved in multiple cellular processes and associated with many human diseases. Here, we take the advantage of our recently developed ssDRIP-seq method to profile genome-wide R-loop levels and provided a first-hand R-loop atlas of Rice (Oryza sativa) at different developmental stages.
 
Overall design ssDRIP-seq in Oryza sativa. The gDNA was extracted from different tissues, and fragmented by restriction enzymes. By using S9.6 antibody, DNA-RNA hybrids were pulled down. Based on ssDNA library kit, the ssDRIP library was prepared and sequenced.
 
Contributor(s) Xu W, Shafi S, Li K, Sun Q
Citation(s) 36536599
Submission date Oct 08, 2018
Last update date Mar 13, 2023
Contact name li kuan
E-mail(s) likuan@cibr.ac.cn
Organization name Tsinghua University
Street address zhongguancun
City Beijing
ZIP/Postal code 100084
Country China
 
Platforms (1)
GPL24468 HiSeq X Ten (Oryza sativa)
Samples (10)
GSM3421564 Flagleaf-1
GSM3421565 Flagleaf-2
GSM3421566 Callus-1
Relations
BioProject PRJNA495027
SRA SRP164400

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
GSE120922_RAW.tar 2.5 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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