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Series GSE145189 Query DataSets for GSE145189
Status Public on Nov 16, 2020
Title Next Generation Sequencing Facilitates Quantitative Analysis of chromatin interaction of lncRNA Gm4665 with regulatory region of target genes in male germ cells.
Organism Mus musculus
Experiment type Other
Summary Purpose: The goals of this study are to examine the possibility that Gm4665 binds to regulatory region of target genes loci in male germ cells.
Methods: we performed the Chromatin Isolation by RNA Purification (ChIRP) assay to examine the possibility that Gm4665 binds to regulatory region of target genes. Germ cell isolated from the testis of wild-type mouse were cross-linked, lysed and sonicated, and then incubated with probesets of Gm4665. Following hybridization of biotinylated probesets to Gm4665 transcript, Gm4665-bound chromatin was retrieved. The purified DNA fragments were sequenced using high throughput next generation sequencing (Illumina HiseqXten-PE150)
Results: Analysis of the retrieved chromatin fragments by deep sequencing (ChIRP-seq) revealed Gm4665 occupancy sites were genome wide, specifically abundant enrich in intronic regions. Additionally, nearly 30% of chromatin fragments were enriched in the promoter regions of gene loci
 
Overall design Examination of chromatin interaction of lncRNA Gm4665 with regulatory region of target genes in male germ cells
 
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Submission date Feb 12, 2020
Last update date Nov 16, 2020
Contact name Xu jia yue
E-mail(s) xujiayue78@126.com
Organization name Peking Union Medical College
Street address NO.3 Dongdan street, Beijing
City Beijing
ZIP/Postal code 100010
Country China
 
Platforms (1)
GPL21273 HiSeq X Ten (Mus musculus)
Samples (9)
GSM4308188 LncRNA-20-1
GSM4308189 LncRNA-20-2
GSM4308190 LncRNA-20-3
Relations
BioProject PRJNA606277
SRA SRP248451

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Supplementary file Size Download File type/resource
GSE145189_MACS2_LacZ_Input.txt.gz 231.6 Kb (ftp)(http) TXT
GSE145189_MACS2_LncRNA_Input.txt.gz 936.4 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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