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Series GSE115918 Query DataSets for GSE115918
Status Public on Nov 28, 2018
Title (2-Benzimidazolyl)acetonitrile derivative for the highly selective la-beling 5-formyluracil and its application in genome-wide mapping in tissues
Organisms Homo sapiens; Mus musculus
Experiment type Other
Summary Natural chemical modifications to 5-formyluracil (5fU) has been identified as an important oxidative nucleobase modification, is present in the genomes of many cell types. However, its distribution in genome is poorly understood. Herein, we present a selec-tive labeling and pull-down strategy termed fU-Seq for genome-wide 5fU profiling in mouse hippocampus and human thyroid carcinoma tissues. The mainly essence is using an azido modified (2-benzimidazolyl)acetonitrile derivative that selectively labels 5fU. Surprisingly, 5fU is highly enriched at intergenic and intron, and 5fU-rich regions are positively correlated with H3K27me3 and negatively correlated with H3K27ac, indicating that 5fU is associated with transcription. Collectively, the sequencing of 5fU allow comprehensive analysis of 5fU in genome and provide effective technology for mapping and paves the way for addressing biological and chemical questions regarding this nucleobase modification and for revealing its potential roles in epigenetics.
Overall design A small molecule was applied for pull-down of 5-formyluracil in the genome of mouse hippocampus tissues and human thyroid carcinoma tissues
Contributor(s) Wang Y, Liu C, Wu F, Zhou Y, Wu Z, Zhou X
Citation(s) 30466066
Submission date Jun 18, 2018
Last update date Mar 20, 2019
Contact name Fan Wu
Phone 18707196906
Organization name Wuhan Univwesity
Street address Bayi Road No. 299
City Wuhan City
ZIP/Postal code 430072
Country China
Platforms (2)
GPL20795 HiSeq X Ten (Homo sapiens)
GPL21273 HiSeq X Ten (Mus musculus)
Samples (6)
GSM3193354 0503COn_combined
GSM3193355 0503EX_combined
GSM3193356 C1IN_combined
BioProject PRJNA476499
SRA SRP150710

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
GSE115918_RAW.tar 1.1 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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